{"data":{"id":"10.6084/m9.figshare.801077","type":"dois","attributes":{"doi":"10.6084/m9.figshare.801077","prefix":"10.6084","suffix":"m9.figshare.801077","identifiers":[],"alternateIdentifiers":[],"creators":[{"name":"Kao, Damian","nameType":"Personal","givenName":"Damian","familyName":"Kao","affiliation":[],"nameIdentifiers":[]}],"titles":[{"title":"Aboobaker Lab Schmidtea mediterranea transcriptome dataset"}],"publisher":"figshare","container":{},"publicationYear":2013,"subjects":[{"subject":"60102 Bioinformatics","subjectScheme":"FOR"},{"subject":"FOS: Computer and information sciences","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Computer and information sciences","subjectScheme":"Fields of Science and Technology (FOS)"}],"contributors":[],"dates":[{"date":"2013-09-17","dateType":"Created"},{"date":"2015-12-02","dateType":"Updated"},{"date":"2013","dateType":"Issued"}],"language":null,"types":{"ris":"DATA","bibtex":"misc","citeproc":"dataset","schemaOrg":"Dataset","resourceType":"Dataset","resourceTypeGeneral":"Dataset"},"relatedIdentifiers":[],"relatedItems":[],"sizes":["127344254 Bytes"],"formats":[],"version":null,"rightsList":[{"rights":"Creative Commons Attribution 4.0 International","rightsUri":"https://creativecommons.org/licenses/by/4.0/legalcode","schemeUri":"https://spdx.org/licenses/","rightsIdentifier":"cc-by-4.0","rightsIdentifierScheme":"SPDX"}],"descriptions":[{"description":"This fileset contains data associated with the consolidated Schmidtea mediterranea transcriptome. The publication associated with this fileset is currently under review. This transcriptome was consolidated using 5 independently assembled transcriptomes: -Blythe MJ, Kao D, Malla S, Rowsell J, Wilson R, et al. (2010) A Dual Platform Approach to Transcript Discovery for the Planarian Schmidtea Mediterranea to Establish RNAseq for Stem Cell and Regeneration Biology. PLoS ONE 5(12): e15617. doi:10.1371/journal.pone.0015617 -Catherine Adamidi, Yongbo Wang, Dominic Gruen, et al. (2011) De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics. Genome Research 2011. doi:10.1101/gr.113779.110 -Thomas Sandmann, Matthias C Vogg, Suthira Owlarn, et al. (2011) The head-regeneration transcriptome of the planarian Schmidtea mediterranea. Genome Biology 2011, 12:R76 doi:10.1186/gb-2011-12-8-r76 -Resch AM, Palakodeti D, Lu Y-C, Horowitz M, Graveley BR (2012) Transcriptome Analysis Reveals Strain-Specific and Conserved Stemness Genes in Schmidtea mediterranea. PLoS ONE 7(4): e34447. doi:10.1371/journal.pone.0034447 -Labbé, R. M., Irimia, M., Currie, K. W., Lin, A., Zhu, S. J., Brown, D. D.R., Ross, E. J., Voisin, V., Bader, G. D., Blencowe, B. J. and Pearson, B. J. (2012), A Comparative Transcriptomic Analysis Reveals Conserved Features of Stem Cell Pluripotency in Planarians and Mammals. STEM CELLS, 30: 1734–1745. doi: 10.1002/stem.1144 The following files are included in this fileset: OX_smed_1.0.fa - transcriptome sequences in fasta format. OX_smed_1.0.blast - cleaned blast results for transcriptome. Hits to hypotheticals or unknowns are filtered out. OX_smed_1.0.go - Gene ontology results for transcriptome. OX_smed_1.0.pfam - PFAM HMM-A scan results for transcriptome. OX_smed_1.0.tf - Potential transcription factors found in the transcriptome using DBD transcription factor database. OX_smed_1.0.source - The source transcripts/EST that made up each consolidated transcript. OX_Gtig_0.1.fa - G. tigrina transcriptome assembled from Roche 454 reads. Supp01-08 - Supplemental files for publication in submission.","descriptionType":"Abstract"}],"geoLocations":[],"fundingReferences":[],"xml":"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