{"data":[{"id":"10.1594/pangaea.961695","type":"dois","attributes":{"doi":"10.1594/pangaea.961695","identifiers":[],"creators":[{"givenName":"Chen","familyName":"Ling","name":"Ling, Chen","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","schemeUri":"https://orcid.org","nameIdentifier":"https://orcid.org/0000-0001-9292-9850"}],"affiliation":[]},{"givenName":"Zhifei","familyName":"Liu","name":"Liu, Zhifei","affiliation":[],"nameIdentifiers":[]},{"givenName":"Xun","familyName":"Yu","name":"Yu, Xun","affiliation":[],"nameIdentifiers":[]},{"givenName":"Yulong","familyName":"Zhao","name":"Zhao, Yulong","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","schemeUri":"https://orcid.org","nameIdentifier":"https://orcid.org/0000-0003-4298-4469"}],"affiliation":[]}],"titles":[{"title":"Silicon isotopic compositions of sediments from major rivers surrounding the South China Sea"}],"publisher":"PANGAEA","container":{},"publicationYear":2024,"subjects":[{"subject":"Clay minerals"},{"subject":"river sediment"},{"subject":"silicon isotope"},{"subject":"South China Sea"},{"subject":"Event label","subjectScheme":"Parameter"},{"subject":"Latitude of event","subjectScheme":"Parameter"},{"subject":"Longitude of event","subjectScheme":"Parameter"},{"subject":"Elevation of event","subjectScheme":"Parameter"},{"subject":"Date/Time of event","subjectScheme":"Parameter"},{"subject":"Number","subjectScheme":"Parameter"},{"subject":"Campaign","subjectScheme":"Parameter"},{"subject":"Sample ID","subjectScheme":"Parameter"},{"subject":"River","subjectScheme":"Parameter"},{"subject":"Location","subjectScheme":"Parameter"},{"subject":"Sample method","subjectScheme":"Parameter"},{"subject":"Sample type","subjectScheme":"Parameter"},{"subject":"δ30Si","subjectScheme":"Parameter"},{"subject":"δ30Si, standard deviation","subjectScheme":"Parameter"},{"subject":"δ29Si","subjectScheme":"Parameter"},{"subject":"δ29Si, standard deviation","subjectScheme":"Parameter"},{"subject":"Replicates","subjectScheme":"Parameter"},{"subject":"Sediment sample","subjectScheme":"Method"},{"subject":"Multi-collector inductively coupled plasma mass spectrometer (MC-ICP-MS), ThermoFisher Scientific, Neptune","subjectScheme":"Method"}],"contributors":[],"dates":[{"date":"2004-03-06T00:00:00/2009-02-11T00:00:00","dateType":"Collected"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":"Dataset"},"relatedIdentifiers":[{"relationType":"IsSupplementTo","relatedIdentifier":"10.1016/j.chemgeo.2024.122249","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":["312 data points"],"formats":["text/tab-separated-values"],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This dataset includes silicon isotopic compositions of δ30Si and δ29Si of 26 argillaceous sediment samples (including 20 bulk samples and 6 clay-fraction samples) from 13 major rivers located in seven regions surrounding the South China Sea. The samples were collected during 2004-2009. Si isotope measurements were performed on a Neptune MC-ICP-MS at the State Key Laboratory of Continental Dynamics, Northwest University (China). Each sample was analyzed three to four times during each analytical session. The precision and accuracy of measurements were referenced to the results of standard and replicated samples. The repeated measurements of BHVO-2 and AGV-2 gave average δ30Si values of −0.26 ± 0.07‰ (2SD, n = 9) and −0.13 ± 0.05‰ (2SD, n = 3), respectively."},{"descriptionType":"TechnicalInfo","description":"Further funding:* UNESCO/IOC Sub-Commission for the Western Pacific (WESTPAC), Award: FluSed"}],"geoLocations":[{"geoLocationBox":{"northBoundLatitude":23.8357,"southBoundLatitude":2.2819,"eastBoundLongitude":121.6734,"westBoundLongitude":103.1183}},{"geoLocationPlace":"China"}],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"https://doi.org/10.13039/501100001809","awardTitle":"Mooring observation of deep-sea sediment transport processes in the southern South China Sea and their effects on ocean carbon cycling","awardNumber":"42130407"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"https://doi.org/10.13039/501100001809","awardNumber":"42188102"}],"url":"https://doi.pangaea.de/10.1594/PANGAEA.961695","contentUrl":null,"metadataVersion":2,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"mds","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":1,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":0,"created":"2024-06-24T05:36:39Z","registered":"2024-06-24T05:36:39Z","published":null,"updated":"2026-08-14T03:40:55Z"},"relationships":{"client":{"data":{"id":"pangaea.repository","type":"clients"}}}},{"id":"10.5281/zenodo.20085731","type":"dois","attributes":{"doi":"10.5281/zenodo.20085731","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["Purdue University"],"givenName":"Adam","familyName":"Aleksinski","name":"Aleksinski, Adam","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0004-7091-0306"}]},{"nameType":"Personal","affiliation":["Purdue University"],"givenName":"Matthew","familyName":"Huber","name":"Huber, Matthew","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-2771-9977"}]},{"nameType":"Personal","affiliation":["Purdue University"],"givenName":"Xiaoqing","familyName":"Liu","name":"Liu, Xiaoqing","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-7647-7364"}]}],"titles":[{"title":"Considerations for Equilibrating Fully-Coupled Paleoceanographic Modeling Experiments - Supplemental Data"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-05-08","dateType":"Issued"},{"date":"2026-05-09","dateType":"Submitted"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.20085732","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"v0.1","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"Data and scripts utilized in plotting of figures, tables, and supplemental material for the AGU Paleoceanography and Paleoclimatology publication \"Considerations for Equilibrating Fully-Coupled Paleoceanographic Modeling Experiments\"."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Collaborative Research: Integrating Eocene Shark Paleoecology and Climate Modeling to reveal Southern Ocean Circulation and Antarctic Glaciation","awardNumber":"1842059"},{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Collaborative Research: Integrating Eocene Shark Paleoecology and Climate Modeling to reveal Southern Ocean Circulation and Antarctic Glaciation","awardNumber":"1842115"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20085731","contentUrl":null,"metadataVersion":2,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-05-10T03:13:55Z","registered":"2026-05-10T03:13:56Z","published":null,"updated":"2026-08-14T03:40:28Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.20085732","type":"dois","attributes":{"doi":"10.5281/zenodo.20085732","identifiers":[{"identifier":"oai:zenodo.org:20085732","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["Purdue University"],"givenName":"Adam","familyName":"Aleksinski","name":"Aleksinski, Adam","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0004-7091-0306"}]},{"nameType":"Personal","affiliation":["Purdue University"],"givenName":"Matthew","familyName":"Huber","name":"Huber, Matthew","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-2771-9977"}]},{"nameType":"Personal","affiliation":["Purdue University"],"givenName":"Xiaoqing","familyName":"Liu","name":"Liu, Xiaoqing","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-7647-7364"}]}],"titles":[{"title":"Considerations for Equilibrating Fully-Coupled Paleoceanographic Modeling Experiments - Supplemental Data"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-05-08","dateType":"Issued"},{"date":"2026-05-09","dateType":"Submitted"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.20085731","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"v0.1","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"Data and scripts utilized in plotting of figures, tables, and supplemental material for the AGU Paleoceanography and Paleoclimatology publication \"Considerations for Equilibrating Fully-Coupled Paleoceanographic Modeling Experiments\"."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Collaborative Research: Integrating Eocene Shark Paleoecology and Climate Modeling to reveal Southern Ocean Circulation and Antarctic Glaciation","awardNumber":"1842059"},{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Collaborative Research: Integrating Eocene Shark Paleoecology and Climate Modeling to reveal Southern Ocean Circulation and Antarctic Glaciation","awardNumber":"1842115"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20085732","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-05-10T03:13:55Z","registered":"2026-05-10T03:13:56Z","published":null,"updated":"2026-08-14T03:40:27Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.21927408","type":"dois","attributes":{"doi":"10.5281/zenodo.21927408","identifiers":[{"identifier":"oai:zenodo.org:21927408","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences","Harbin Institute of Technology"],"givenName":"Zeping","familyName":"Gao","name":"Gao, Zeping","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences","The Chinese University of Hong Kong"],"givenName":"Shuo","familyName":"Wang","name":"Wang, Shuo","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Chao","familyName":"Zhao","name":"Zhao, Chao","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Xiaoyang","familyName":"Chen","name":"Chen, Xiaoyang","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Jialong","familyName":"Li","name":"Li, Jialong","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Zhiyi","familyName":"Yang","name":"Yang, Zhiyi","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Yongchuan","familyName":"Li","name":"Li, Yongchuan","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Peng","familyName":"Yang","name":"Yang, Peng","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Qian","familyName":"Luo","name":"Luo, Qian","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Hairong","familyName":"Zheng","name":"Zheng, Hairong","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Teng","familyName":"Ma","name":"Ma, Teng","nameIdentifiers":[]}],"titles":[{"title":"Multi-omics analysis for Pancreatic Cancer Microenvironment Assembloid Model Constructed by SIAT (Spatial Imaging with Acoustic Tweezers) Platform"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"Holographic acoustic tweezers"},{"subject":"Assembloids"},{"subject":"Tumor Microenvironment","subjectScheme":"MeSH"}],"contributors":[],"dates":[{"date":"2026-08-14","dateType":"Issued"},{"date":"2026-08","dateType":"Available"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.21869158","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"In this study, we designed SIAT (Spatial Imaging with Acoustic Tweezers) platform, which integrates dynamic holographic acoustic field manipulation with mass spectrometry imaging-based spatial metabolomics. By applying SIAT platform, we constructed pancreatic cancer microenvironment assembloid model which consisted with four cell types and eight organoids/spheroids in a contact-free construction manner. We used SIAT to assemble multicellular spheroids composed of pancreatic cancer cells, fibroblasts, and endothelial cells into two defined configurations: “Staggered Pattern” in which spheroids of the three cell types were interwoven in close proximity to mimic interdigitated sub-tumor microareas, and “Aggregated Pattern” in which spheroids of each cell type were clustered on one side, resembling segregated tumor–stroma compartments.\n\nBulk RNA sequencing was performed to study the transcriptional difference between “Staggered Pattern” and “Aggregated Pattern”. RNA was isolated using MiniBEST Universal RNA Extraction Kit (Takara, Japan). RNA concentration was measured by NanoDrop OneC Spectrophotometers (ThermoFisher, USA). Libraries were prepared with the Fast RNA-seq Lib Prep Kit V2 (Abclonal, China) and Illumina NovaSeq X Plus. Sequencing data were processed and aligned to the human reference genome GRCh38 (hg38). Feature counts were generated and applied to further differential expressed gene analysis by edgeR package (4.0.16) in R (4.3.2).\n\nBesides, to verify the potential influence of SIAT acoustic stimulation on pancreatic cancer (PANC1), fibroblast (MRC5) and the formation of pancreatic cancer microenvironment, we conducted proteomics, metabolomics and Ipidomics by Liquid Chromatography-Mass Spectrometry (LC-MS) technology. The grouping included 0 V voltage stimulation 0 hour further culture, 36 V voltage stimulation 0 hour further culture and 36 V voltage stimulation 24 hour further culture for PANC1 and MRC5 spheroids and 36 V voltage stimulation 24 hour further culture for pancreatic cancer microenvironment.\n\nThe feature counts of bulk RNA sequencing and expression profile of proteomics, metabolomics and Ipidomics were listed in separate .csv files."}],"geoLocations":[],"fundingReferences":[{"funderName":"National Key Research and Development Program of China grants","awardNumber":"2023YFF0713702 (TM), 2022YFF0705003 (QL)"},{"funderName":"Shenzhen Medical Research Special Fund grants","awardNumber":"A2303059 (TM) and D2404005 (QL)"},{"funderName":"State Key Laboratory of Biomedical Imaging Science and Systems grants","awardNumber":"KFJ-PTXM-012 and 2023004281 (TM)"},{"funderName":"Guangdong Province Zhujiang Talent Program grant","awardNumber":"2021QN02Y028 (CZ)"},{"funderName":"Shenzhen Science and Technology Program grant","awardNumber":"JSGGKQTD20210831174329010 (TM)"},{"funderName":"Shenzhen Key Technology Project grant","awardNumber":"JSGGZD20220822095200002 (TM)"},{"funderName":"Shenzhen Outstanding Scientific and Technological Innovation Talents Distinguished Young Scholars Program grant","awardNumber":"RCJC20210609104443085 (TM)"},{"funderName":"National Natural Science Foundation of China grants","awardNumber":"12304517 (TM), 12104479 (TM), 82127801(QL), and 22176195 (CZ)"},{"funderName":"Chinese Academy of Sciences Project for Young Scientists in Basic Research grant","awardNumber":"YSBR-104 (TM)"},{"funderName":"Shenzhen Basic Research Key Program grant","awardNumber":"JCYJ20220818103212026 (TM)"},{"funderName":"Shenzhen key laboratory of ultrasound imaging and therapy","awardNumber":"ZDSYS201802061806314 (TM)"}],"url":"https://zenodo.org/doi/10.5281/zenodo.21927408","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":0,"created":"2026-08-14T03:27:19Z","registered":"2026-08-14T03:27:20Z","published":null,"updated":"2026-08-14T03:27:20Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.21869158","type":"dois","attributes":{"doi":"10.5281/zenodo.21869158","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences","Harbin Institute of Technology"],"givenName":"Zeping","familyName":"Gao","name":"Gao, Zeping","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences","The Chinese University of Hong Kong"],"givenName":"Shuo","familyName":"Wang","name":"Wang, Shuo","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Chao","familyName":"Zhao","name":"Zhao, Chao","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Xiaoyang","familyName":"Chen","name":"Chen, Xiaoyang","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Jialong","familyName":"Li","name":"Li, Jialong","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Zhiyi","familyName":"Yang","name":"Yang, Zhiyi","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Yongchuan","familyName":"Li","name":"Li, Yongchuan","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Peng","familyName":"Yang","name":"Yang, Peng","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Qian","familyName":"Luo","name":"Luo, Qian","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Hairong","familyName":"Zheng","name":"Zheng, Hairong","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences"],"givenName":"Teng","familyName":"Ma","name":"Ma, Teng","nameIdentifiers":[]}],"titles":[{"title":"Multi-omics analysis for Pancreatic Cancer Microenvironment Assembloid Model Constructed by SIAT (Spatial Imaging with Acoustic Tweezers) Platform"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"Holographic acoustic tweezers"},{"subject":"Assembloids"},{"subject":"Tumor Microenvironment","subjectScheme":"MeSH"}],"contributors":[],"dates":[{"date":"2026-08-14","dateType":"Issued"},{"date":"2026-08","dateType":"Available"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.21927408","relatedIdentifierType":"DOI"},{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.21869159","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"In this study, we designed SIAT (Spatial Imaging with Acoustic Tweezers) platform, which integrates dynamic holographic acoustic field manipulation with mass spectrometry imaging-based spatial metabolomics. By applying SIAT platform, we constructed pancreatic cancer microenvironment assembloid model which consisted with four cell types and eight organoids/spheroids in a contact-free construction manner. We used SIAT to assemble multicellular spheroids composed of pancreatic cancer cells, fibroblasts, and endothelial cells into two defined configurations: “Staggered Pattern” in which spheroids of the three cell types were interwoven in close proximity to mimic interdigitated sub-tumor microareas, and “Aggregated Pattern” in which spheroids of each cell type were clustered on one side, resembling segregated tumor–stroma compartments.\n\nBulk RNA sequencing was performed to study the transcriptional difference between “Staggered Pattern” and “Aggregated Pattern”. RNA was isolated using MiniBEST Universal RNA Extraction Kit (Takara, Japan). RNA concentration was measured by NanoDrop OneC Spectrophotometers (ThermoFisher, USA). Libraries were prepared with the Fast RNA-seq Lib Prep Kit V2 (Abclonal, China) and Illumina NovaSeq X Plus. Sequencing data were processed and aligned to the human reference genome GRCh38 (hg38). Feature counts were generated and applied to further differential expressed gene analysis by edgeR package (4.0.16) in R (4.3.2).\n\nBesides, to verify the potential influence of SIAT acoustic stimulation on pancreatic cancer (PANC1), fibroblast (MRC5) and the formation of pancreatic cancer microenvironment, we conducted proteomics, metabolomics and Ipidomics by Liquid Chromatography-Mass Spectrometry (LC-MS) technology. The grouping included 0 V voltage stimulation 0 hour further culture, 36 V voltage stimulation 0 hour further culture and 36 V voltage stimulation 24 hour further culture for PANC1 and MRC5 spheroids and 36 V voltage stimulation 24 hour further culture for pancreatic cancer microenvironment.\n\nThe feature counts of bulk RNA sequencing and expression profile of proteomics, metabolomics and Ipidomics were listed in separate .csv files."}],"geoLocations":[],"fundingReferences":[{"funderName":"National Key Research and Development Program of China grants","awardNumber":"2023YFF0713702 (TM), 2022YFF0705003 (QL)"},{"funderName":"Shenzhen Medical Research Special Fund grants","awardNumber":"A2303059 (TM) and D2404005 (QL)"},{"funderName":"State Key Laboratory of Biomedical Imaging Science and Systems grants","awardNumber":"KFJ-PTXM-012 and 2023004281 (TM)"},{"funderName":"Guangdong Province Zhujiang Talent Program grant","awardNumber":"2021QN02Y028 (CZ)"},{"funderName":"Shenzhen Science and Technology Program grant","awardNumber":"JSGGKQTD20210831174329010 (TM)"},{"funderName":"Shenzhen Key Technology Project grant","awardNumber":"JSGGZD20220822095200002 (TM)"},{"funderName":"Shenzhen Outstanding Scientific and Technological Innovation Talents Distinguished Young Scholars Program grant","awardNumber":"RCJC20210609104443085 (TM)"},{"funderName":"National Natural Science Foundation of China grants","awardNumber":"12304517 (TM), 12104479 (TM), 82127801(QL), and 22176195 (CZ)"},{"funderName":"Chinese Academy of Sciences Project for Young Scientists in Basic Research grant","awardNumber":"YSBR-104 (TM)"},{"funderName":"Shenzhen Basic Research Key Program grant","awardNumber":"JCYJ20220818103212026 (TM)"},{"funderName":"Shenzhen key laboratory of ultrasound imaging and therapy","awardNumber":"ZDSYS201802061806314 (TM)"}],"url":"https://zenodo.org/doi/10.5281/zenodo.21869158","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":1,"versionOfCount":0,"created":"2026-08-10T08:08:21Z","registered":"2026-08-10T08:08:21Z","published":null,"updated":"2026-08-14T03:27:19Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.19688824","type":"dois","attributes":{"doi":"10.5281/zenodo.19688824","identifiers":[{"identifier":"NCOMMS-26-005356-T","identifierType":"Other"}],"creators":[{"nameType":"Personal","affiliation":["National University of Defense Technology"],"givenName":"Xu","familyName":"Ming","name":"Ming, Xu","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0003-0832-6067"}]}],"titles":[{"title":"NCOMMS-26-005356-T"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"metasurface"}],"contributors":[],"dates":[{"date":"2026-04-16","dateType":"Issued"},{"date":"2026-02-16","dateType":"Submitted"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.19688825","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"Dataset and source code for the manuscript \"NCOMMS-26-005356-T\". The code includes the forward prediction model and the inverse design optimization workflow. All materials are provided to ensure full reproducibility of the reported results."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"62571533"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"62293494"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"62501615"}],"url":"https://zenodo.org/doi/10.5281/zenodo.19688824","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-04-25T07:13:03Z","registered":"2026-04-25T07:13:03Z","published":null,"updated":"2026-08-14T01:56:07Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.19688825","type":"dois","attributes":{"doi":"10.5281/zenodo.19688825","identifiers":[{"identifier":"oai:zenodo.org:19688825","identifierType":"oai"},{"identifier":"NCOMMS-26-005356-T","identifierType":"Other"}],"creators":[{"nameType":"Personal","affiliation":["National University of Defense Technology"],"givenName":"Xu","familyName":"Ming","name":"Ming, Xu","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0003-0832-6067"}]}],"titles":[{"title":"NCOMMS-26-005356-T"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"metasurface"}],"contributors":[],"dates":[{"date":"2026-04-16","dateType":"Issued"},{"date":"2026-02-16","dateType":"Submitted"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.19688824","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"Dataset and source code for the manuscript \"NCOMMS-26-005356-T\". The code includes the forward prediction model and the inverse design optimization workflow. All materials are provided to ensure full reproducibility of the reported results."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"62571533"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"62293494"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"62501615"}],"url":"https://zenodo.org/doi/10.5281/zenodo.19688825","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-04-25T07:13:03Z","registered":"2026-04-25T07:13:03Z","published":null,"updated":"2026-08-14T01:56:05Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.19462452","type":"dois","attributes":{"doi":"10.5281/zenodo.19462452","identifiers":[{"identifier":"oai:zenodo.org:19462452","identifierType":"oai"},{"identifier":"doi: https://doi.org/10.1101/2025.07.20.665759","identifierType":"Other"}],"creators":[{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Zhoukang","familyName":"Wu","name":"Wu, Zhoukang","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xiangya Hospital Central South University"],"givenName":"Haiyun","familyName":"Tang","name":"Tang, Haiyun","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Liangjiecheng","familyName":"Huang","name":"Huang, Liangjiecheng","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Min","familyName":"Wang","name":"Wang, Min","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Yaotian","familyName":"Gao","name":"Gao, Yaotian","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["The First Affiliated Hospital of USTC"],"givenName":"Aobo","familyName":"Chen","name":"Chen, Aobo","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Mengyuan","familyName":"Liu","name":"Liu, Mengyuan","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xuan Wu Hospital of the Capital Medical University"],"givenName":"Hang","familyName":"Cao","name":"Cao, Hang","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University Hospital of Bern"],"givenName":"Lorenzo","familyName":"Cacialgli","name":"Cacialgli, Lorenzo","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xiangya Hospital Central South University"],"givenName":"YuanJin","familyName":"Gong","name":"Gong, YuanJin","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xiangya Hospital Central South University"],"givenName":"Jia","familyName":"Hu","name":"Hu, Jia","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Chongqing University Three Gorges Hospital"],"givenName":"Xiaoping","familyName":"Yi","name":"Yi, Xiaoping","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Xiaosong","familyName":"He","name":"He, Xiaosong","nameIdentifiers":[]}],"titles":[{"title":"Data and code repository for Epilepsia submission: Dynamic limbic–executive decoupling underpins the reciprocal link between pharmacoresistance and depression in temporal lobe epilepsy"}],"publisher":"Zenodo","container":{},"publicationYear":2025,"subjects":[],"contributors":[],"dates":[{"date":"2025-12-23","dateType":"Issued"},{"date":"2025-12-23","dateType":"Submitted"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.17994763","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository includes a README.md file that provides an overview of the shared folders and files, lists the main software dependencies, and outlines the key steps required to reproduce the primary post-processing analyses reported in the manuscript.\n\nThe repository contains de-identified processed data and custom scripts supporting the manuscript, \"Dynamic limbic-executive decoupling underpins the reciprocal link between drug-resistant state and depression in temporal lobe epilepsy.\" The shared materials are organized into data and scripts directories and are intended primarily to support reproduction of the main dynamic integration, non-negative matrix factorization (NMF), and spatial and gene-related analyses. Raw MRI data are not included due to ethical and privacy restrictions."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"University of Science and Technology of China","funderIdentifier":"10.13039/501100009076","awardTitle":"Research Start-up Fund of USTC"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"82271491"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"W2521183"}],"url":"https://zenodo.org/doi/10.5281/zenodo.19462452","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-04-07T21:35:05Z","registered":"2026-04-07T21:35:05Z","published":null,"updated":"2026-08-14T01:45:24Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.17994763","type":"dois","attributes":{"doi":"10.5281/zenodo.17994763","identifiers":[{"identifier":"doi: https://doi.org/10.1101/2025.07.20.665759","identifierType":"Other"}],"creators":[{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Zhoukang","familyName":"Wu","name":"Wu, Zhoukang","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xiangya Hospital Central South University"],"givenName":"Haiyun","familyName":"Tang","name":"Tang, Haiyun","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Liangjiecheng","familyName":"Huang","name":"Huang, Liangjiecheng","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Min","familyName":"Wang","name":"Wang, Min","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Yaotian","familyName":"Gao","name":"Gao, Yaotian","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["The First Affiliated Hospital of USTC"],"givenName":"Aobo","familyName":"Chen","name":"Chen, Aobo","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Mengyuan","familyName":"Liu","name":"Liu, Mengyuan","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xuan Wu Hospital of the Capital Medical University"],"givenName":"Hang","familyName":"Cao","name":"Cao, Hang","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University Hospital of Bern"],"givenName":"Lorenzo","familyName":"Cacialgli","name":"Cacialgli, Lorenzo","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xiangya Hospital Central South University"],"givenName":"YuanJin","familyName":"Gong","name":"Gong, YuanJin","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Xiangya Hospital Central South University"],"givenName":"Jia","familyName":"Hu","name":"Hu, Jia","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Chongqing University Three Gorges Hospital"],"givenName":"Xiaoping","familyName":"Yi","name":"Yi, Xiaoping","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["University of Science and Technology of China"],"givenName":"Xiaosong","familyName":"He","name":"He, Xiaosong","nameIdentifiers":[]}],"titles":[{"title":"Data and code repository for Epilepsia submission: Dynamic limbic–executive decoupling underpins the reciprocal link between pharmacoresistance and depression in temporal lobe epilepsy"}],"publisher":"Zenodo","container":{},"publicationYear":2025,"subjects":[],"contributors":[],"dates":[{"date":"2025-12-23","dateType":"Issued"},{"date":"2025-12-23","dateType":"Submitted"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.18052218","relatedIdentifierType":"DOI"},{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.19462452","relatedIdentifierType":"DOI"},{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.18016887","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository includes a README.md file that provides an overview of the shared folders and files, lists the main software dependencies, and outlines the key steps required to reproduce the primary post-processing analyses reported in the manuscript.\n\nThe repository contains de-identified processed data and custom scripts supporting the manuscript, \"Dynamic limbic-executive decoupling underpins the reciprocal link between drug-resistant state and depression in temporal lobe epilepsy.\" The shared materials are organized into data and scripts directories and are intended primarily to support reproduction of the main dynamic integration, non-negative matrix factorization (NMF), and spatial and gene-related analyses. Raw MRI data are not included due to ethical and privacy restrictions."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"University of Science and Technology of China","funderIdentifier":"10.13039/501100009076","awardTitle":"Research Start-up Fund of USTC"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"82271491"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"W2521183"}],"url":"https://zenodo.org/doi/10.5281/zenodo.17994763","contentUrl":null,"metadataVersion":6,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":4,"versionOfCount":0,"created":"2025-12-22T10:59:58Z","registered":"2025-12-22T10:59:58Z","published":null,"updated":"2026-08-14T01:44:45Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.20499099","type":"dois","attributes":{"doi":"10.5281/zenodo.20499099","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["University of California, Los Angeles"],"givenName":"Delphine","familyName":"Hypolite","name":"Hypolite, Delphine","nameIdentifiers":[]}],"titles":[{"title":"ROMS-NCWEC Pt. Arguello configuration: grid, initial and boundary conditions, WaveWatch3 forcing and representative model output"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-06-01","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsSupplementTo","resourceTypeGeneral":"Model","relatedIdentifier":"10.5281/zenodo.20498888","relatedIdentifierType":"DOI"},{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.20499100","relatedIdentifierType":"DOI"},{"relationType":"IsPartOf","resourceTypeGeneral":"Collection","relatedIdentifier":"1991-9603","relatedIdentifierType":"ISSN"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This dataset contains the input files required to reproduce the Pt. Arguello, CA regional simulation presented in Hypolite et al. (2026, Geoscientific Model Development), using the ROMS-NCWEC model. Files include the curvilinear grid, initial and lateral boundary conditions derived from a parent Central California simulation, WaveWatch3 wave forcing fields at 300 m resolution, and one representative model output snapshot. The simulation is run at uniform 30 m horizontal resolution with 128 vertical sigma levels. The corresponding model code is archived separately at https://doi.org/10.5281/zenodo.20498888."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"SWEL: Surface Waves effects on upwelling and Ecosystem Linkages","awardNumber":"OCE 2343297"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20499099","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":1,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-06-02T17:41:04Z","registered":"2026-06-02T17:41:04Z","published":null,"updated":"2026-08-14T01:21:19Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.20499100","type":"dois","attributes":{"doi":"10.5281/zenodo.20499100","identifiers":[{"identifier":"oai:zenodo.org:20499100","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["University of California, Los Angeles"],"givenName":"Delphine","familyName":"Hypolite","name":"Hypolite, Delphine","nameIdentifiers":[]}],"titles":[{"title":"ROMS-NCWEC Pt. Arguello configuration: grid, initial and boundary conditions, WaveWatch3 forcing and representative model output"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-06-01","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsSupplementTo","resourceTypeGeneral":"Model","relatedIdentifier":"10.5281/zenodo.20498888","relatedIdentifierType":"DOI"},{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.20499099","relatedIdentifierType":"DOI"},{"relationType":"IsPartOf","resourceTypeGeneral":"Collection","relatedIdentifier":"1991-9603","relatedIdentifierType":"ISSN"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This dataset contains the input files required to reproduce the Pt. Arguello, CA regional simulation presented in Hypolite et al. (2026, Geoscientific Model Development), using the ROMS-NCWEC model. Files include the curvilinear grid, initial and lateral boundary conditions derived from a parent Central California simulation, WaveWatch3 wave forcing fields at 300 m resolution, and one representative model output snapshot. The simulation is run at uniform 30 m horizontal resolution with 128 vertical sigma levels. The corresponding model code is archived separately at https://doi.org/10.5281/zenodo.20498888."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"SWEL: Surface Waves effects on upwelling and Ecosystem Linkages","awardNumber":"OCE 2343297"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20499100","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":1,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-06-02T17:41:04Z","registered":"2026-06-02T17:41:04Z","published":null,"updated":"2026-08-14T01:21:18Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.20053989","type":"dois","attributes":{"doi":"10.5281/zenodo.20053989","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["Department of Neuroscience, NYU School of Medicine","Department of Biological Sciences, Marshall University"],"givenName":"Nicholas","familyName":"Kathman","name":"Kathman, Nicholas","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Department of Neuroscience, NYU School of Medicine"],"givenName":"Katherine","familyName":"Nagel","name":"Nagel, Katherine","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-6701-3901"}]}],"titles":[{"title":"Neural dynamics for working memory and evidence integration during olfactory navigation in Drosophila"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"drosophila"},{"subject":"olfaction"},{"subject":"navigation"}],"contributors":[],"dates":[{"date":"2026-05-06","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.20053990","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"Data from \"Neural dynamics for working memory and evidence integration during olfactory navigation in Drosophila\" by Kathman et al. 2026"}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"National Institute of Neurological Disorders and Stroke","funderIdentifier":"10.13039/100000065","awardNumber":"NS127129"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Institute on Deafness and Other Communication Disorders","funderIdentifier":"10.13039/100000055","awardNumber":"DC017979"},{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Odor2Action","awardNumber":"2014217"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20053989","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-07-15T10:34:55Z","registered":"2026-07-15T10:34:56Z","published":null,"updated":"2026-08-14T00:54:21Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.20053990","type":"dois","attributes":{"doi":"10.5281/zenodo.20053990","identifiers":[{"identifier":"oai:zenodo.org:20053990","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["Department of Neuroscience, NYU School of Medicine","Department of Biological Sciences, Marshall University"],"givenName":"Nicholas","familyName":"Kathman","name":"Kathman, Nicholas","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["Department of Neuroscience, NYU School of Medicine"],"givenName":"Katherine","familyName":"Nagel","name":"Nagel, Katherine","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-6701-3901"}]}],"titles":[{"title":"Neural dynamics for working memory and evidence integration during olfactory navigation in Drosophila"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"drosophila"},{"subject":"olfaction"},{"subject":"navigation"}],"contributors":[],"dates":[{"date":"2026-05-06","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.20053989","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"Data from \"Neural dynamics for working memory and evidence integration during olfactory navigation in Drosophila\" by Kathman et al. 2026"}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"National Institute of Neurological Disorders and Stroke","funderIdentifier":"10.13039/100000065","awardNumber":"NS127129"},{"funderIdentifierType":"Crossref Funder ID","funderName":"National Institute on Deafness and Other Communication Disorders","funderIdentifier":"10.13039/100000055","awardNumber":"DC017979"},{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Odor2Action","awardNumber":"2014217"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20053990","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-07-15T10:34:55Z","registered":"2026-07-15T10:34:55Z","published":null,"updated":"2026-08-14T00:54:20Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.19891196","type":"dois","attributes":{"doi":"10.5281/zenodo.19891196","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["ETH Zurich"],"givenName":"Niklas","familyName":"Werner","name":"Werner, Niklas","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-8791-2867"}]},{"nameType":"Personal","givenName":"Florian","familyName":"Franziskakis","name":"Franziskakis, Florian","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-6855-0269"}],"affiliation":[]}],"titles":[{"title":"geo_indicators: Werner et al. (2026). Paleogeographic uncertainty imposes first-order constraint on understanding Earth's climate evolution"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"paleogeography"}],"contributors":[],"dates":[{"date":"2026-04-29","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"SoftwareSourceCode","resourceTypeGeneral":"Software","citeproc":"article","bibtex":"misc","ris":"COMP","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.19891197","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains the code to compute the geoindicators as used in Werner et al. (2026). Paleogeographic uncertainty imposes first-order constraint on understanding Earth's climate evolution. The code is adapted from https://github.com/florianfranz/geo_indicators (© Florian Franziskakis) to make it work with the lower resolution maps used in the study."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Long-term evolution of the Earth from the base of the mantle to the top of the atmosphere: Understanding the mechanisms leading to ‘greenhouse’ and ‘icehouse’ regimes","awardNumber":"213539"}],"url":"https://zenodo.org/doi/10.5281/zenodo.19891196","contentUrl":null,"metadataVersion":2,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-04-30T08:19:59Z","registered":"2026-04-30T08:19:59Z","published":null,"updated":"2026-08-14T00:45:41Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.19891197","type":"dois","attributes":{"doi":"10.5281/zenodo.19891197","identifiers":[{"identifier":"oai:zenodo.org:19891197","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["ETH Zurich"],"givenName":"Niklas","familyName":"Werner","name":"Werner, Niklas","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-8791-2867"}]},{"nameType":"Personal","givenName":"Florian","familyName":"Franziskakis","name":"Franziskakis, Florian","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-6855-0269"}],"affiliation":[]}],"titles":[{"title":"geo_indicators: Werner et al. (2026). Paleogeographic uncertainty imposes first-order constraint on understanding Earth's climate evolution"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"paleogeography"}],"contributors":[],"dates":[{"date":"2026-04-29","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"SoftwareSourceCode","resourceTypeGeneral":"Software","citeproc":"article","bibtex":"misc","ris":"COMP","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.19891196","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains the code to compute the geoindicators as used in Werner et al. (2026). Paleogeographic uncertainty imposes first-order constraint on understanding Earth's climate evolution. The code is adapted from https://github.com/florianfranz/geo_indicators (© Florian Franziskakis) to make it work with the lower resolution maps used in the study."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Long-term evolution of the Earth from the base of the mantle to the top of the atmosphere: Understanding the mechanisms leading to ‘greenhouse’ and ‘icehouse’ regimes","awardNumber":"213539"}],"url":"https://zenodo.org/doi/10.5281/zenodo.19891197","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-04-30T08:19:58Z","registered":"2026-04-30T08:19:59Z","published":null,"updated":"2026-08-14T00:45:40Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.20846433","type":"dois","attributes":{"doi":"10.5281/zenodo.20846433","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Siddharth","familyName":"Bhatnagar","name":"Bhatnagar, Siddharth","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-9178-168X"}]}],"titles":[{"title":"Geneva Energy Balance Model (Gen-EBM) v1.0.0"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"energy balance model"},{"subject":"climate models"},{"subject":"exoplanets"},{"subject":"habitability"},{"subject":"runaway greenhouse"},{"subject":"climate multistability"}],"contributors":[{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Emeline","familyName":"Bolmont","name":"Bolmont, Emeline","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-5657-4503"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Maura","familyName":"Brunetti","name":"Brunetti, Maura","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-8199-223X"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Jerome","familyName":"Kasparian","name":"Kasparian, Jerome","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0003-2398-3882"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Tim","familyName":"Kallioinen","name":"Kallioinen, Tim","nameIdentifiers":[],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Bern"],"givenName":"Marine","familyName":"Leyvraz","name":"Leyvraz, Marine","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0008-1027-0510"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["Université Grenoble Alpes"],"givenName":"Guillaume","familyName":"Chaverot","name":"Chaverot, Guillaume","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0003-4711-3099"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Yonatan Birhanu","familyName":"Haile","name":"Haile, Yonatan Birhanu","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0009-1299-7892"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Dóra","familyName":"Takács","name":"Takács, Dóra","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0009-3813-6652"}],"contributorType":"Researcher"}],"dates":[{"date":"2026-07-02","dateType":"Issued"},{"date":"2026-07-02","dateType":"Submitted","dateInformation":"First upload"}],"language":"en","types":{"schemaOrg":"SoftwareSourceCode","resourceTypeGeneral":"Software","citeproc":"article","bibtex":"misc","ris":"COMP","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.20846434","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"1.0.0","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains Version 1.0.0 of the Geneva Energy Balance Model (Gen-EBM), corresponding to the exact version used in Bhatnagar et al., \"Gen-EBM: an energy balance model for terrestrial planets, Climate multistability from snowball to post-runaway greenhouse climates\", submitted to Astronomy \u0026 Astrophysics.\n\n--------------------------------Repository contents:\n\n\n\nThe src directory contains the frozen version of the Rust source code used to produce all simulations presented in the manuscript.\n\nThe setup_files directory contains the Python utilities used to generate the initial conditions (configuration files) for the different bifurcation diagram experiments. Its subdirectories include:\n\n\n\nscripts_earth_obliquity: setup files for the fiducial Earth configuration.\n\nscripts_rotation: setup files for the planetary rotation experiments (slow rotator, Earth-like rotator and fast rotator).\n\nscripts_MFA: setup files for the mean-flux approximation (MFA) experiments (aquaplanet, Earth-like planet, 100% land-covered planet and 90% land planet).\n\n\n\nThe config_files directory contains the complete set of configuration files used to run the simulations. Its subdirectories include:\n\n\n\nconfig_files_validation: configuration files for the diffusion-coefficient sensitivity experiments used to reproduce Fig. C1.\n\nconfig_files_BD_earth_obliquity: configuration files for the fiducial Earth experiments used to reproduce Figs. 2, 3, 7, and F1.\n\nconfig_files_rotation: configuration files for the planetary rotation experiments used to reproduce Figs. 4, 6, D1, and E1.\n\nconfig_files_MFA: configuration files for the MFA experiments used to reproduce Figs. 5 and G1.\n\n\n\n\n--------------------------------Reproducibility:\n\n\n\nTo reproduce the simulations, users can download Gen-EBM from here. The official release will be made upon acceptance of the manuscript. A frozen version of the model code is archived in this repository under the src directory. \n\nThis archive contains the exact version of Gen-EBM used in the accompanying manuscript, together with all the setup and configuration files required to reproduce the published simulations. Owing to the computational efficiency of the model (see Appendix A.2 of the manuscript), all experiments can be readily regenerated by running the supplied configuration files.\n\n\n--------------------------------Software environment:\n\n\n\nModel version: v1.0.0\n\nGit commit: 03f110c5528c6c79333a857cba3f5ed7935409e6\n\nRust compiler: rustc 1.94.0\n\n\n--------------------------------Version History:\n\nv1: Initial archived release accompanying the manuscript, containing the frozen source code together with the setup and configuration files required to reproduce all experiments presented in the manuscript."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"NCCR PlanetS: Origin, evolution and characterisation of planets (phase II)","awardNumber":"182901"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"NCCR PlanetS: Origin, evolution and characterisation of planets (phase III)","awardNumber":"205606"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Long-term evolution of the Earth from the base of the mantle to the top of the atmosphere: Understanding the mechanisms leading to ‘greenhouse’ and ‘icehouse’ regimes","awardNumber":"213539"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Exploring the interactions between the internal structure, the atmosphere and the tidal evolution of planets around low-mass stars","awardNumber":"215760"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Exploring the interactions between the internal structure, the atmosphere and the tidal evolution of planets around low-mass stars","awardNumber":"197176"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20846433","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-07-02T10:19:00Z","registered":"2026-07-02T10:19:01Z","published":null,"updated":"2026-08-13T23:50:20Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.20846434","type":"dois","attributes":{"doi":"10.5281/zenodo.20846434","identifiers":[{"identifier":"oai:zenodo.org:20846434","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Siddharth","familyName":"Bhatnagar","name":"Bhatnagar, Siddharth","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-9178-168X"}]}],"titles":[{"title":"Geneva Energy Balance Model (Gen-EBM) v1.0.0"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"energy balance model"},{"subject":"climate models"},{"subject":"exoplanets"},{"subject":"habitability"},{"subject":"runaway greenhouse"},{"subject":"climate multistability"}],"contributors":[{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Emeline","familyName":"Bolmont","name":"Bolmont, Emeline","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-5657-4503"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Maura","familyName":"Brunetti","name":"Brunetti, Maura","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0001-8199-223X"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Jerome","familyName":"Kasparian","name":"Kasparian, Jerome","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0003-2398-3882"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Tim","familyName":"Kallioinen","name":"Kallioinen, Tim","nameIdentifiers":[],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Bern"],"givenName":"Marine","familyName":"Leyvraz","name":"Leyvraz, Marine","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0008-1027-0510"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["Université Grenoble Alpes"],"givenName":"Guillaume","familyName":"Chaverot","name":"Chaverot, Guillaume","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0003-4711-3099"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Yonatan Birhanu","familyName":"Haile","name":"Haile, Yonatan Birhanu","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0009-1299-7892"}],"contributorType":"Researcher"},{"nameType":"Personal","affiliation":["University of Geneva"],"givenName":"Dóra","familyName":"Takács","name":"Takács, Dóra","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0009-3813-6652"}],"contributorType":"Researcher"}],"dates":[{"date":"2026-07-02","dateType":"Issued"},{"date":"2026-07-02","dateType":"Submitted","dateInformation":"First upload"}],"language":"en","types":{"schemaOrg":"SoftwareSourceCode","resourceTypeGeneral":"Software","citeproc":"article","bibtex":"misc","ris":"COMP","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.20846433","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"1.0.0","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains Version 1.0.0 of the Geneva Energy Balance Model (Gen-EBM), corresponding to the exact version used in Bhatnagar et al., \"Gen-EBM: an energy balance model for terrestrial planets, Climate multistability from snowball to post-runaway greenhouse climates\", submitted to Astronomy \u0026 Astrophysics.\n\n--------------------------------Repository contents:\n\n\n\nThe src directory contains the frozen version of the Rust source code used to produce all simulations presented in the manuscript.\n\nThe setup_files directory contains the Python utilities used to generate the initial conditions (configuration files) for the different bifurcation diagram experiments. Its subdirectories include:\n\n\n\nscripts_earth_obliquity: setup files for the fiducial Earth configuration.\n\nscripts_rotation: setup files for the planetary rotation experiments (slow rotator, Earth-like rotator and fast rotator).\n\nscripts_MFA: setup files for the mean-flux approximation (MFA) experiments (aquaplanet, Earth-like planet, 100% land-covered planet and 90% land planet).\n\n\n\nThe config_files directory contains the complete set of configuration files used to run the simulations. Its subdirectories include:\n\n\n\nconfig_files_validation: configuration files for the diffusion-coefficient sensitivity experiments used to reproduce Fig. C1.\n\nconfig_files_BD_earth_obliquity: configuration files for the fiducial Earth experiments used to reproduce Figs. 2, 3, 7, and F1.\n\nconfig_files_rotation: configuration files for the planetary rotation experiments used to reproduce Figs. 4, 6, D1, and E1.\n\nconfig_files_MFA: configuration files for the MFA experiments used to reproduce Figs. 5 and G1.\n\n\n\n\n--------------------------------Reproducibility:\n\n\n\nTo reproduce the simulations, users can download Gen-EBM from here. The official release will be made upon acceptance of the manuscript. A frozen version of the model code is archived in this repository under the src directory. \n\nThis archive contains the exact version of Gen-EBM used in the accompanying manuscript, together with all the setup and configuration files required to reproduce the published simulations. Owing to the computational efficiency of the model (see Appendix A.2 of the manuscript), all experiments can be readily regenerated by running the supplied configuration files.\n\n\n--------------------------------Software environment:\n\n\n\nModel version: v1.0.0\n\nGit commit: 03f110c5528c6c79333a857cba3f5ed7935409e6\n\nRust compiler: rustc 1.94.0\n\n\n--------------------------------Version History:\n\nv1: Initial archived release accompanying the manuscript, containing the frozen source code together with the setup and configuration files required to reproduce all experiments presented in the manuscript."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"NCCR PlanetS: Origin, evolution and characterisation of planets (phase II)","awardNumber":"182901"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"NCCR PlanetS: Origin, evolution and characterisation of planets (phase III)","awardNumber":"205606"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Long-term evolution of the Earth from the base of the mantle to the top of the atmosphere: Understanding the mechanisms leading to ‘greenhouse’ and ‘icehouse’ regimes","awardNumber":"213539"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Exploring the interactions between the internal structure, the atmosphere and the tidal evolution of planets around low-mass stars","awardNumber":"215760"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Swiss National Science Foundation","funderIdentifier":"10.13039/501100001711","awardTitle":"Exploring the interactions between the internal structure, the atmosphere and the tidal evolution of planets around low-mass stars","awardNumber":"197176"}],"url":"https://zenodo.org/doi/10.5281/zenodo.20846434","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-07-02T10:19:00Z","registered":"2026-07-02T10:19:01Z","published":null,"updated":"2026-08-13T23:50:19Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.21523117","type":"dois","attributes":{"doi":"10.5281/zenodo.21523117","identifiers":[],"creators":[{"nameType":"Personal","givenName":"Liu","familyName":"Yikuan","name":"Yikuan, Liu","nameIdentifiers":[],"affiliation":[]}],"titles":[{"title":"Processed data and scripts for \"Intensification of Eddy-Induced Turbulent Heat Fluxes Across Major Midlatitude Ocean Fronts Over the Past Three Decades\""}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-07-24","dateType":"Issued"},{"date":"2026-07-24","dateType":"Submitted"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.21523118","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"1.0.0","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"},{"rightsIdentifierScheme":"SPDX","rightsUri":"https://opensource.org/licenses/MIT","schemeUri":"https://spdx.org/licenses/","rights":"MIT License","rightsIdentifier":"mit"},{"rightsUri":"http://rightsstatements.org/vocab/InC/1.0/","rights":"Copyright © 2026 Yikuan Liu"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains the processed data and MATLAB scripts used to reproduce Figures 1–6 and Figures S1–S9 of the manuscript. The processed data are provided as MATLAB MAT files, with separate plotting scripts for each main-text and supporting-information figure. The README documents the file–figure correspondence, variable definitions, units, software requirements, and instructions for reproducing the figures. Original third-party observational and reanalysis products are not redistributed; their sources and exact versions are documented in the manuscript."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"42276010"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Ministry of Science and Technology of the People's Republic of China","funderIdentifier":"10.13039/501100002855","awardTitle":"National Key Research and Development Program of China","awardNumber":"2022YFF0801400"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Department of Science and Technology of Shandong Province","funderIdentifier":"10.13039/100012905","awardTitle":"Shandong Provincial Natural Science Foundation","awardNumber":"ZR2024LQX002"}],"url":"https://zenodo.org/doi/10.5281/zenodo.21523117","contentUrl":null,"metadataVersion":2,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-07-24T04:34:55Z","registered":"2026-07-24T04:34:55Z","published":null,"updated":"2026-08-13T23:40:22Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.21523118","type":"dois","attributes":{"doi":"10.5281/zenodo.21523118","identifiers":[{"identifier":"oai:zenodo.org:21523118","identifierType":"oai"}],"creators":[{"nameType":"Personal","givenName":"Liu","familyName":"Yikuan","name":"Yikuan, Liu","nameIdentifiers":[],"affiliation":[]}],"titles":[{"title":"Processed data and scripts for \"Intensification of Eddy-Induced Turbulent Heat Fluxes Across Major Midlatitude Ocean Fronts Over the Past Three Decades\""}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-07-24","dateType":"Issued"},{"date":"2026-07-24","dateType":"Submitted"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.21523117","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"1.0.0","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"},{"rightsIdentifierScheme":"SPDX","rightsUri":"https://opensource.org/licenses/MIT","schemeUri":"https://spdx.org/licenses/","rights":"MIT License","rightsIdentifier":"mit"},{"rightsUri":"http://rightsstatements.org/vocab/InC/1.0/","rights":"Copyright © 2026 Yikuan Liu"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains the processed data and MATLAB scripts used to reproduce Figures 1–6 and Figures S1–S9 of the manuscript. The processed data are provided as MATLAB MAT files, with separate plotting scripts for each main-text and supporting-information figure. The README documents the file–figure correspondence, variable definitions, units, software requirements, and instructions for reproducing the figures. Original third-party observational and reanalysis products are not redistributed; their sources and exact versions are documented in the manuscript."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"National Natural Science Foundation of China","funderIdentifier":"10.13039/501100001809","awardNumber":"42276010"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Ministry of Science and Technology of the People's Republic of China","funderIdentifier":"10.13039/501100002855","awardTitle":"National Key Research and Development Program of China","awardNumber":"2022YFF0801400"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Department of Science and Technology of Shandong Province","funderIdentifier":"10.13039/100012905","awardTitle":"Shandong Provincial Natural Science Foundation","awardNumber":"ZR2024LQX002"}],"url":"https://zenodo.org/doi/10.5281/zenodo.21523118","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-07-24T04:34:55Z","registered":"2026-07-24T04:34:55Z","published":null,"updated":"2026-08-13T23:40:21Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.21225552","type":"dois","attributes":{"doi":"10.5281/zenodo.21225552","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["University of Hawaiʻi at Mānoa"],"givenName":"Lauric","familyName":"Reynes","name":"Reynes, Lauric","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-0223-4332"}]}],"titles":[{"title":"Genomic datasets and metadata for speciation analyses in the red alga Amansia glomerata"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"speciation"},{"subject":"Population/genetics","subjectScheme":"MeSH"},{"subject":"speciation genomics"},{"subject":"Seaweed","subjectScheme":"MeSH"},{"subject":"Alga","subjectScheme":"GEMET"},{"subject":"Hawaii"},{"subject":"Evolutionary biology","subjectScheme":"EuroSciVoc"}],"contributors":[],"dates":[{"date":"2026-07-06","dateType":"Issued"}],"language":"en","types":{"schemaOrg":"ScholarlyArticle","resourceTypeGeneral":"Text","citeproc":"article-journal","bibtex":"article","ris":"RPRT","resourceType":"Data paper"},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.21225553","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains a VCF file comprising 58,563 SNPs genotyped across 174 diploid tetrasporophytes of the red alga Amansia glomerata, generated using ddRADseq. These data were used in the analyses presented in manuscript HDY-26-A0103, entitled “Reproductive Isolation and Differential Introgression Shape the Genomic Landscape of the Red Alga Amansia glomerata in the Hawaiian Archipelago\" published in Heredity. The repository also contains associated metadata and FASTA sequence files, including both variant and invariant sites, used for demographic inference analyses.\n\n\n\nMetadata associated with the VCF file, with one row corresponding to each sample and include the following columns: sample ID, laboratory identification number (ARS), sequencing index barcode, barcode sequence, sampling site and coordinates, sampling date, transect information, DNA extraction date, and DNA concentration measured using Qubit. Additionally, results of downstream analyses, including lineage identity, sNMF ancestry coefficients, and hybrid index from INTROGRESS, are provided in the same table.\n\nMultilocus fasta sequences containing both variant and invariant positions for demographic inferences using DILS; subset 1 to 5 (see associated manuscript).\n\nIndividual raw reads are available in FASTQ.gz format in NCBI (BioProject PRJNA1425114)."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardNumber":"DEB-2242142"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Gordon and Betty Moore Foundation","funderIdentifier":"10.13039/100000936","awardNumber":"Postdocotral fellowship, Univeristy of Hawaii"}],"url":"https://zenodo.org/doi/10.5281/zenodo.21225552","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-07-06T18:45:01Z","registered":"2026-07-06T18:45:01Z","published":null,"updated":"2026-08-13T23:35:40Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.21225553","type":"dois","attributes":{"doi":"10.5281/zenodo.21225553","identifiers":[{"identifier":"oai:zenodo.org:21225553","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["University of Hawaiʻi at Mānoa"],"givenName":"Lauric","familyName":"Reynes","name":"Reynes, Lauric","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-0223-4332"}]}],"titles":[{"title":"Genomic datasets and metadata for speciation analyses in the red alga Amansia glomerata"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[{"subject":"speciation"},{"subject":"Population/genetics","subjectScheme":"MeSH"},{"subject":"speciation genomics"},{"subject":"Seaweed","subjectScheme":"MeSH"},{"subject":"Alga","subjectScheme":"GEMET"},{"subject":"Hawaii"},{"subject":"Evolutionary biology","subjectScheme":"EuroSciVoc"}],"contributors":[],"dates":[{"date":"2026-07-06","dateType":"Issued"}],"language":"en","types":{"schemaOrg":"ScholarlyArticle","resourceTypeGeneral":"Text","citeproc":"article-journal","bibtex":"article","ris":"RPRT","resourceType":"Data paper"},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.21225552","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This repository contains a VCF file comprising 58,563 SNPs genotyped across 174 diploid tetrasporophytes of the red alga Amansia glomerata, generated using ddRADseq. These data were used in the analyses presented in manuscript HDY-26-A0103, entitled “Reproductive Isolation and Differential Introgression Shape the Genomic Landscape of the Red Alga Amansia glomerata in the Hawaiian Archipelago\" published in Heredity. The repository also contains associated metadata and FASTA sequence files, including both variant and invariant sites, used for demographic inference analyses.\n\n\n\nMetadata associated with the VCF file, with one row corresponding to each sample and include the following columns: sample ID, laboratory identification number (ARS), sequencing index barcode, barcode sequence, sampling site and coordinates, sampling date, transect information, DNA extraction date, and DNA concentration measured using Qubit. Additionally, results of downstream analyses, including lineage identity, sNMF ancestry coefficients, and hybrid index from INTROGRESS, are provided in the same table.\n\nMultilocus fasta sequences containing both variant and invariant positions for demographic inferences using DILS; subset 1 to 5 (see associated manuscript).\n\nIndividual raw reads are available in FASTQ.gz format in NCBI (BioProject PRJNA1425114)."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardNumber":"DEB-2242142"},{"funderIdentifierType":"Crossref Funder ID","funderName":"Gordon and Betty Moore Foundation","funderIdentifier":"10.13039/100000936","awardNumber":"Postdocotral fellowship, Univeristy of Hawaii"}],"url":"https://zenodo.org/doi/10.5281/zenodo.21225553","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-07-06T18:45:00Z","registered":"2026-07-06T18:45:01Z","published":null,"updated":"2026-08-13T23:35:39Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.17140117","type":"dois","attributes":{"doi":"10.5281/zenodo.17140117","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["The University of Texas at Arlington"],"givenName":"Joswin Valerian","familyName":"Concessao","name":"Concessao, Joswin Valerian","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["The University of Texas at Arlington"],"givenName":"Michelle","familyName":"Hummel","name":"Hummel, Michelle","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-5524-2547"}]},{"nameType":"Personal","affiliation":["The University of Texas at Arlington"],"givenName":"Chengkai","familyName":"Li","name":"Li, Chengkai","nameIdentifiers":[]}],"titles":[{"title":"Network analysis of Harrison County, Mississippi, traffic during Hurricane Ida (2021)"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-04-24","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.17140118","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This dataset was developed as part of the study \"Resilience in the Wake of Storms: Unveiling Spatiotemporal Mobility Dynamics of Gulf Coast Communities Through Crowd-Sourced Data\".  It contains code, datasets, and notebooks used to analyze small-network motifs and node-set transitions in origin–destination traffic during Hurricane Ida. The analysis extracts 4-node motifs from daily origin–destination graphs, tracks motif counts and node-set transitions across time windows, and produces figures and results used in the study."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Leveraging Crowdsourced Data to Assess Spatiotemporal Patterns of Resilience in Diverse Gulf Coast Communities Impacted by Natural Hazards","awardNumber":"2053588"}],"url":"https://zenodo.org/doi/10.5281/zenodo.17140117","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-04-24T18:33:47Z","registered":"2026-04-24T18:33:47Z","published":null,"updated":"2026-08-13T23:31:50Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.17140118","type":"dois","attributes":{"doi":"10.5281/zenodo.17140118","identifiers":[{"identifier":"oai:zenodo.org:17140118","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["The University of Texas at Arlington"],"givenName":"Joswin Valerian","familyName":"Concessao","name":"Concessao, Joswin Valerian","nameIdentifiers":[]},{"nameType":"Personal","affiliation":["The University of Texas at Arlington"],"givenName":"Michelle","familyName":"Hummel","name":"Hummel, Michelle","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0000-0002-5524-2547"}]},{"nameType":"Personal","affiliation":["The University of Texas at Arlington"],"givenName":"Chengkai","familyName":"Li","name":"Li, Chengkai","nameIdentifiers":[]}],"titles":[{"title":"Network analysis of Harrison County, Mississippi, traffic during Hurricane Ida (2021)"}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-04-24","dateType":"Issued"}],"language":null,"types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.17140117","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":null,"rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rights":"Creative Commons Attribution 4.0 International","rightsIdentifier":"cc-by-4.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This dataset was developed as part of the study \"Resilience in the Wake of Storms: Unveiling Spatiotemporal Mobility Dynamics of Gulf Coast Communities Through Crowd-Sourced Data\".  It contains code, datasets, and notebooks used to analyze small-network motifs and node-set transitions in origin–destination traffic during Hurricane Ida. The analysis extracts 4-node motifs from daily origin–destination graphs, tracks motif counts and node-set transitions across time windows, and produces figures and results used in the study."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Leveraging Crowdsourced Data to Assess Spatiotemporal Patterns of Resilience in Diverse Gulf Coast Communities Impacted by Natural Hazards","awardNumber":"2053588"}],"url":"https://zenodo.org/doi/10.5281/zenodo.17140118","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-04-24T18:33:47Z","registered":"2026-04-24T18:33:47Z","published":null,"updated":"2026-08-13T23:31:49Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.19713245","type":"dois","attributes":{"doi":"10.5281/zenodo.19713245","identifiers":[],"creators":[{"nameType":"Personal","affiliation":["University of Nebraska-Lincoln"],"givenName":"Charles","familyName":"Moloney","name":"Moloney, Charles","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0005-0589-5389"}]}],"titles":[{"title":"Replication Package for \"Leveraging Code Embeddings to Identify and Address Blind Spots in Benchmark Creation\""}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-05-06","dateType":"Issued"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"HasVersion","relatedIdentifier":"10.5281/zenodo.19713246","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"1.0.0","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"http://www.apache.org/licenses/LICENSE-2.0","schemeUri":"https://spdx.org/licenses/","rights":"Apache License 2.0","rightsIdentifier":"apache-2.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This replication package contains the code and artifacts used in \"Leveraging Code Embeddings to Identify and Address Blind Spots in Benchmark Creation.\"  Our README contains an explanation of each module used in transformation as well as an outline of steps for fully replicating the results of our experiment."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Collaborative Research: CIRC: Dev: Adaptable Realistic Benchmark Generator for Verification (ARG-V)","awardNumber":"2346327"}],"url":"https://zenodo.org/doi/10.5281/zenodo.19713245","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":2,"versionOfCount":1,"created":"2026-05-06T21:41:53Z","registered":"2026-05-06T21:41:54Z","published":null,"updated":"2026-08-13T23:10:46Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}},{"id":"10.5281/zenodo.19713246","type":"dois","attributes":{"doi":"10.5281/zenodo.19713246","identifiers":[{"identifier":"oai:zenodo.org:19713246","identifierType":"oai"}],"creators":[{"nameType":"Personal","affiliation":["University of Nebraska-Lincoln"],"givenName":"Charles","familyName":"Moloney","name":"Moloney, Charles","nameIdentifiers":[{"nameIdentifierScheme":"ORCID","nameIdentifier":"0009-0005-0589-5389"}]}],"titles":[{"title":"Replication Package for \"Leveraging Code Embeddings to Identify and Address Blind Spots in Benchmark Creation\""}],"publisher":"Zenodo","container":{},"publicationYear":2026,"subjects":[],"contributors":[],"dates":[{"date":"2026-05-06","dateType":"Issued"}],"language":"en","types":{"schemaOrg":"Dataset","resourceTypeGeneral":"Dataset","citeproc":"dataset","bibtex":"misc","ris":"DATA","resourceType":""},"relatedIdentifiers":[{"relationType":"IsVersionOf","relatedIdentifier":"10.5281/zenodo.19713245","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":[],"formats":[],"version":"1.0.0","rightsList":[{"rightsIdentifierScheme":"SPDX","rightsUri":"http://www.apache.org/licenses/LICENSE-2.0","schemeUri":"https://spdx.org/licenses/","rights":"Apache License 2.0","rightsIdentifier":"apache-2.0"}],"descriptions":[{"descriptionType":"Abstract","description":"This replication package contains the code and artifacts used in \"Leveraging Code Embeddings to Identify and Address Blind Spots in Benchmark Creation.\"  Our README contains an explanation of each module used in transformation as well as an outline of steps for fully replicating the results of our experiment."}],"geoLocations":[],"fundingReferences":[{"funderIdentifierType":"Crossref Funder ID","funderName":"U.S. National Science Foundation","funderIdentifier":"10.13039/100000001","awardTitle":"Collaborative Research: CIRC: Dev: Adaptable Realistic Benchmark Generator for Verification (ARG-V)","awardNumber":"2346327"}],"url":"https://zenodo.org/doi/10.5281/zenodo.19713246","contentUrl":null,"metadataVersion":0,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"api","isActive":true,"state":"findable","reason":null,"viewCount":0,"downloadCount":0,"referenceCount":0,"citationCount":0,"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":1,"created":"2026-05-06T21:41:53Z","registered":"2026-05-06T21:41:53Z","published":null,"updated":"2026-08-13T23:10:44Z"},"relationships":{"client":{"data":{"id":"cern.zenodo","type":"clients"}}}}],"meta":{"total":85683,"totalPages":400,"page":1},"links":{"self":"https://api.datacite.org/dois?query=fundingReferences.funderName%3A%22National+Science+Foundation%22","next":"https://api.datacite.org/dois?page%5Bnumber%5D=2\u0026page%5Bsize%5D=25\u0026query=fundingReferences.funderName%3A%22National+Science+Foundation%22"}}