{"data":{"id":"10.6084/m9.figshare.10252949","type":"dois","attributes":{"doi":"10.6084/m9.figshare.10252949","prefix":"10.6084","suffix":"m9.figshare.10252949","identifiers":[],"alternateIdentifiers":[],"creators":[{"name":"Danchin, Etienne","nameType":"Personal","givenName":"Etienne","familyName":"Danchin","affiliation":[],"nameIdentifiers":[{"schemeUri":"https://orcid.org","nameIdentifier":"https://orcid.org/0000-0003-4146-5608","nameIdentifierScheme":"ORCID"}]}],"titles":[{"title":"List of predicted secreted proteins of M. enterolobii (genome V1, INRA/JKI)"}],"publisher":"figshare","container":{},"publicationYear":2020,"subjects":[{"subject":"70308 Crop and Pasture Protection (Pests, Diseases and Weeds)","subjectScheme":"FOR"},{"subject":"FOS: Agriculture, forestry and fisheries","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"},{"subject":"FOS: Agriculture, forestry and fisheries","subjectScheme":"Fields of Science and Technology (FOS)"}],"contributors":[],"dates":[{"date":"2019-11-05","dateType":"Created"},{"date":"2020-02-07","dateType":"Updated"},{"date":"2020","dateType":"Issued"}],"language":null,"types":{"ris":"DATA","bibtex":"misc","citeproc":"dataset","schemaOrg":"Dataset","resourceType":"Dataset","resourceTypeGeneral":"Dataset"},"relatedIdentifiers":[],"relatedItems":[],"sizes":["99460 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":"Predicted Secretome of M. enterolobii genome (V1, INRA/JKI)\u003cbr\u003e\u003cbr\u003eStrategy:\u003cbr\u003e1. Use SignalP 4.0 that better discriminate between SP and N-terminal TM\u003cbr\u003ePut the -m 'file' option to produce a FASTA with cleaved SP\u003cbr\u003e\u003cbr\u003esignalp -f short -m MentV1-cleaved.fa -t euk MentV1.pep.fa \u0026gt; MentV1.SP\u003cbr\u003e\u003cbr\u003e--\u0026gt; there are 6,065 proteins with a predicted SP.\u003cbr\u003e\u003cbr\u003e2. Use TMHMM-2.0 to predict TMs on the cleaved FASTA sequences.\u003cbr\u003e\u003cbr\u003etmhmm --short MentV1-cleaved.fa \u0026gt; MentV1-cleaved-TM-short.txt\u003cbr\u003e\u003cbr\u003e--\u0026gt; there are 1,092 proteins with a SP and at least one TM (that is not included within the SP).\u003cbr\u003eThus 4,973 proteins with SP and no TM.\u003cbr\u003e\u003cbr\u003e3. Generate a list of sequences with predicted SP an no predicted TM\u003cbr\u003eThe accession numbers for the 4,973 proteins with SP and no TM is saved in MentV1.SP-no-TM.acc\u003cbr\u003e","descriptionType":"Abstract"}],"geoLocations":[],"fundingReferences":[],"xml":"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","url":"https://figshare.com/articles/List_of_predicted_secreted_proteins_of_M_enterolobii_genome_V1_INRA_JKI_/10252949","contentUrl":null,"metadataVersion":1,"schemaVersion":"http://datacite.org/schema/kernel-4","source":"mds","isActive":true,"state":"findable","reason":null,"viewCount":0,"viewsOverTime":[],"downloadCount":0,"downloadsOverTime":[],"referenceCount":0,"citationCount":0,"citationsOverTime":[],"partCount":0,"partOfCount":0,"versionCount":0,"versionOfCount":0,"created":"2020-01-22T13:21:21.000Z","registered":"2020-01-22T13:21:21.000Z","published":"2020","updated":"2020-08-26T11:32:41.000Z"},"relationships":{"client":{"data":{"id":"figshare.ars","type":"clients"}},"provider":{"data":{"id":"otjm","type":"providers"}},"media":{"data":{"id":"10.6084/m9.figshare.10252949","type":"media"}},"references":{"data":[]},"citations":{"data":[]},"parts":{"data":[]},"partOf":{"data":[]},"versions":{"data":[]},"versionOf":{"data":[]}}}}