<@id>1@id>
GenePageGeneralInfo_ManuallyCurated.txt
File contains general information on all the manually curated gene pages in Xenbase.
TSV
XenbaseGenePageDump.pl
perl
Xenbase gene ID|gene symbol|gene name|gene function|gene synonyms|JGI ID
1
0
<@id>2@id>
GenePageToJgiTropicalisScaffoldMapping_4.1.txt
File contains a mapping of all Xenbase gene pages to their parent 4.1 JGI models
TSV
GenePageToJgiTropicalisScaffoldMapping_4.pl
perl
Xenbase gene ID|gene symbol|JGI Model Name|JGI Scaffold Name|JGI Scaffold Start Position|JGI Scaffold End Position|JGI Scaffold Strand
1
0
<@id>3@id>
GenePageNcbiEstMapping_laevis.txt
File contains a mapping of NCBI Xenopus laevis ESTs to Xenbase gene pages
TSV
GenePageNcbiEstMapping_laevis.pl
perl
Xenbase gene ID|gene symbol|NCBI ESTs
ESTs are presented with the format: accession,evalue. Each EST is separated by a | pipe symbol.
1
0
<@id>4@id>
GenePageNcbiEstMapping_tropicalis.txt
File contains a mapping of NCBI Xenopus tropicalis ESTs to Xenbase gene pages
TSV
GenePageNcbiEstMapping_tropicalis.pl
perl
Xenbase gene ID|gene symbol|NCBI ESTs
ESTs are presented with the format: accession,evalue. Each EST is separated by a | pipe symbol.
1
0
<@id>5@id>
GenePageAffymetrix_tropicalis1.0.txt
File contains a mapping of Affymetrix 1.0 expression IDs to Xenbase gene pages
TSV
GenePageAffymetrix_tropicalis1.pl
perl
Xenbase gene ID|gene symbol|Affymetrix IDs
Affymetrix IDs for a given gene page are comma-separated
1
0
<@id>6@id>
GenePageAffymetrix_laevis1.0.txt
File contains a mapping of Affymetrix 1.0 expression IDs to Xenbase gene pages
TSV
GenePageAffymetrix_laevis1.pl
perl
Xenbase gene ID|gene symbol|Affymetrix IDs
Affymetrix IDs for a given gene page are comma-separated
1
0
<@id>7@id>
GenePageInteractants.txt
File contains a list of gene interactants for each gene page in Xenbase based on co-citation in the literature.
TSV
GenePageInteractants.pl
perl
Xenbase gene ID|gene symbol|interactant|ID:interactant symbol:co-citation occurrence
Interactants for a given gene page are comma-separated
1
0
<@id>8@id>
GenePageTropicalisEntrezGeneUnigeneMapping.txt
File contains a mapping of Xenopus tropicalis NCBI Entrez Gene and Unigene IDs for each gene page in Xenbase
TSV
GenePageTropicalisEntrezGeneUnigeneMapping.pl
perl
Xenbase gene ID|gene symbol|Entrez Gene ID|Unignene ID
1
0
<@id>9@id>
GenePageLaevisEntrezGeneUnigeneMapping.txt
File contains a mapping of Xenopus laevis NCBI Entrez Gene and Unigene IDs for each gene page in Xenbase
TSV
GenePageLaevisEntrezGeneUnigeneMapping.pl
perl
Xenbase gene ID|gene symbol|Entrez Gene ID|Unignene ID
1
0
<@id>10@id>
GenePageAnatomyOntologyMapping.txt
File contains a mapping of Xenbase gene pages to Xenopus Anatomy Ontology (XAO) development stages and tissues. The anatomy data is pooled from the tropicalis and laevis frog species. Expression data is obtained from cDNA libraries as well as images from large scale screens, community submissions and publications
TSV
GenePageAnatomyOntologyMapping.pl
perl
Xenbase gene ID|gene symbol|start stage|end stage|tissues
Stage information is provided as a range from the earliest point of expression to the latest Tissues are provided as a comma-separated list
1
0
<@id>11@id>
GenePageEnsemblModelMapping.txt
File contains a mapping of Xenbase gene pages to Ensembl Xentr4.1 models.
TSV
EnsemblGenePageMapping.pl
perl
Xenbase gene ID|gene symbol|Ensembl model name
1
0
<@id>12@id>
XenbaseGeneModels.gff3.gz
All of the Xenopus tropicalis genemodels from Xentr 4.1 dumped out in GFF3 format
GFF3
XenbaseGeneModels.pl
perl
1
0
<@id>13@id>
GeneExpression_tropicalis.txt
File contains a listing of expression patterns for xenopus tropicalis.
TSV
GeneExpression_tropicalis.pl
perl
Xenbase gene ID|gene symbol|genotype|anatomical tissue|start stage|end stage|assay|evidence ID(image ID)|experiment ID|literature ID|source|curation status
Note that the fields 'anatomical tissue', 'start stage' and 'end stage' are of the format 'XAO_ID XAO_Name'
1
0
<@id>14@id>
GeneExpression_laevis.txt
File contains a listing of expression patterns for xenopus laevis.
TSV
GeneExpression_laevis.pl
perl
Xenbase gene ID|gene symbol|genotype|anatomical tissue|start stage|end stage|assay|evidence ID(image ID)|experiment ID|literature ID|source|curation status
Note that the fields 'anatomical tissue', 'start stage' and 'end stage' are of the format 'XAO_ID XAO_Name'
1
0
<@id>15@id>
TropicalisGenePages_NoModel.txt
File contains a listing of Xenbase gene pages created using an NCBI xenopus tropicalis Entrez Gene entry as a seed. These gene pages have no genomic gene model associated with them. These models will contain, where applicable, xenopus laevis gene data.
TSV
TropicalisGenePages_NoModel.pl
perl
Xenbase gene ID|gene symbol|tropicalis unigene ID|tropicalis Entrez Gene ID
1
0
<@id>16@id>
LaevisGenePages_NoModel.txt
File contains a listing of Xenbase gene pages created using an NCBI xenopus laevis Entrez Gene entry as a seed. These pages have no genomic gene model and no corresponding xenopus tropicalis genetic data associated with them.
TSV
LaevisGenePages_NoModel.pl
perl
Xenbase gene ID|gene symbol|laevis unigene ID|laevis Entrez Gene ID
1
1
<@id>17@id>
XenbaseGenePage_JgiModel_Transcripts.gz
File contains a list of JGI 4.1 transcript sequences associated with Xenbase gene pages.
fasta
XenbaseGenePage_JgiModel_Transcripts.pl
perl
>JGI transcript ID|JGI model name|Xenbase gene page ID|Xenbase gene page symbol
1
0
<@id>18@id>
NcbiProteinXenbaseGene_tropicalis.txt
File contains a list of NCBI tropicalis proteins mapped to the appropriate Xenbase genepage ID
TSV
NcbiProteinXenbaseGene_tropicalis.pl
perl
gi|accession|Xenbase gene ID|Xenbase gene symbol
1
0
<@id>19@id>
NcbiProteinXenbaseGene_laevis.txt
File contains a list of NCBI laevis proteins mapped to the appropriate Xenbase genepage ID
TSV
NcbiProteinXenbaseGene_laevis.pl
perl
gi|accession|Xenbase gene ID|Xenbase gene symbol
1
0
<@id>20@id>
NcbiMrnaXenbaseGene_tropicalis.txt
File contains a list of NCBI tropicalis mRNAs mapped to the appropriate Xenbase genepage ID.
TSV
NcbiMrnaXenbaseGene_tropicalis.pl
perl
gi|accession|Xenbase gene ID|Xenbase gene symbol
1
0
<@id>21@id>
NcbiMrnaXenbaseGene_laevis.txt
File contains a list of NCBI laevis mRNAs mapped to the appropriate Xenbase genepage ID
TSV
NcbiMrnaXenbaseGene_laevis.pl
perl
gi|accession|Xenbase gene ID|Xenbase gene symbol
1
0
<@id>22@id>
GeneGoTerms.txt
File contains a list of XB-GENE IDs mapped to GO terms
TSV
GeneGoTerms.pl
perl
Xenbase gene ID|gene symbol|GO Ids
The list of GO IDs is comma separated
1
0
<@id>23@id>
XenbaseGeneHumanOrthologMapping.txt
File contains a mapping of XB-GENEPAGE IDs and annotation to human Entrez Gene IDs
TSV
XenbaseGeneHumanOrthologMapping.pl
perl
Human Entrez Gene ID|Xenbase genepage ID|Xenbase gene symbol|Xenbase gene name
1
0
<@id>24@id>
XenbaseGeneMouseOrthologMapping.txt
ile contains a mapping of XB-GENEPAGE IDs and annotation to mouse Entrez Gene IDs
TSV
XenbaseGeneMouseOrthologMapping.pl
perl
Mouse Entrez Gene ID|Xenbase genepage ID|Xenbase gene symbol|Xenbase gene name
1
0
<@id>25@id>
XenbaseGeneZebrafishOrthologMapping.txt
File contains a mapping of XB-GENEPAGE IDs and annotation to zebrafish Entrez Gene IDs
TSV
XenbaseGeneZebrafishOrthologMapping.pl
perl
Zebrafish Entrez Gene ID|Xenbase genepage ID|Xenbase gene symbol|Xenbase gene name
1
0
<@id>26@id>
XenbaseGenepageToGeneIdMapping.txt
File contains the mapping of XB-GENEPAGE IDs, the primary identifier for a genepage to XB-GENE IDs for individual tropicalis and laevis genes.
TSV
XenbaseGenepageToGeneIdMapping.pl
perl
XB-GENEPAGE ID|XB-GENE IDs for tropicalis and laevis
The XB-GENE IDs are tab delimited. The gene symbol is tab del from corresponding XB-GENE ID
1
0
<@id>27@id>
JgiToXenbaseGenePage_4.1.txt
File contains the mapping JGI tropicalis models to Xenbase gene page IDs.
TSV
JgiToXenbaseGenePage_4.pl
perl
model name|Xenbase tropicalis gene ID|gene symbol|gene name
1
0
<@id>28@id>
JgiToXenbaseGenePage_7.1.txt
File contains the mapping JGI tropicalis models to Xenbase gene page IDs.
TSV
JgiToXenbaseGenePage_7.pl
perl
model name|Xenbase tropicalis gene ID|gene symbol|gene name
1
0
<@id>29@id>
GenePageToJgiTropicalisScaffoldMapping_7.1.txt
File contains a mapping of all Xenbase gene pages to their parent 7.1 JGI models
TSV
GenePageToJgiTropicalisScaffoldMapping_7.pl
perl
Xenbase gene ID|gene symbol|JGI Model Name|JGI Scaffold Name|JGI Scaffold Start Position|JGI Scaffold End Position|JGI Scaffold Strand
1
0
<@id>30@id>
GeneExpPerTissue_laevis.txt
File contains a listing of expression patterns for xenopus laevis.
TSV
GeneExpPerTissue_laevis.pl
perl
col_speciesGeneId|col_speciesGeneSymbol|col_wildType|col_anatomyXaoId col_anatomyItem|col_startStageXaoId col_startStage|col_endStageXaoId col_endStage|col_experiment|XB-IMG-col_imageId|XB-EXP-col_experimentId|col_source|XB-ART-col_xenPaperId|col_annotStatus
Note that the fields 'anatomical tissue', 'start stage' and 'end stage' are of the format 'XAO_ID XAO_Name'
1
0
<@id>31@id>
GeneExpPerTissue_tropicalis.txt
File contains a listing of expression patterns for xenopus laevis.
TSV
GeneExpPerTissue_tropicalis.pl
perl
col_speciesGeneId|col_speciesGeneSymbol|col_wildType|col_anatomyXaoId col_anatomyItem|col_startStageXaoId col_startStage|col_endStageXaoId col_endStage|col_experiment|XB-IMG-col_imageId|XB-EXP-col_experimentId|col_source|XB-ART-col_xenPaperId|col_annotStatus
Note that the fields 'anatomical tissue', 'start stage' and 'end stage' are of the format 'XAO_ID XAO_Name'
1
0
<@id>32@id>
GenePageAffymetrix_laevis2.0.txt
File contains a mapping of Affymetrix 2.0 expression IDs to Xenbase gene pages
TSV
GenePageAffymetrix_laevis2.pl
perl
Xenbase gene ID|gene symbol|Affymetrix IDs
Affymetrix IDs for a given gene page are comma-separated
1
0
<@id>33@id>
GenePageToJgiTropicalisScaffoldMapping_8.0.txt
File contains a mapping of all Xenbase gene pages to their parent 8.0 JGI models
TSV
GenePageToJgiTropicalisScaffoldMapping_8.pl
perl
Xenbase gene ID|gene symbol|JGI Model Name|JGI Scaffold Name|JGI Scaffold Start Position|JGI Scaffold End Position|JGI Scaffold Strand
1
0
<@id>34@id>
GenePageToJgiLaevisScaffoldMapping_6.0.txt
File contains a mapping of all Xenbase gene pages to their parent 6.0 JGI models
TSV
GenePageToJgiLaevisScaffoldMapping_6.pl
perl
Xenbase gene ID|gene symbol|JGI Model Name|JGI Scaffold Name|JGI Scaffold Start Position|JGI Scaffold End Position|JGI Scaffold Strand
1
0
<@id>35@id>
GenePageToJgiLaevisScaffoldMapping_7.1.txt
File contains a mapping of all Xenbase gene pages to their parent 7.1 JGI models
TSV
GenePageToJgiLaevisScaffoldMapping_7.pl
perl
Xenbase gene ID|gene symbol|JGI Model Name|JGI Scaffold Name|JGI Scaffold Start Position|JGI Scaffold End Position|JGI Scaffold Strand
1
0
<@id>36@id>
GenePageToJgiLaevisScaffoldMapping_8.0.txt
File contains a mapping of all Xenbase gene pages to their parent 8.0 JGI models
TSV
GenePageToJgiLaevisScaffoldMapping_8.pl
perl
Xenbase gene ID|gene symbol|JGI Model Name|JGI Scaffold Name|JGI Scaffold Start Position|JGI Scaffold End Position|JGI Scaffold Strand
0
0
<@id>37@id>
InSituHybridization_laevis.txt
File contains a mapping of all Xenbase gene pages with stage, image and curation method
TSV
InSituHybridization_laevis.pl
perl
Xenbase gene ID|gene symbol|ModelID|StartStage|EndStage|XenbaseImage|CurationMethod
1
0
<@id>38@id>
InSituHybridization_tropicalis.txt
File contains a mapping of all Xenbase gene pages with stage, image and curation method
TSV
InSituHybridization_tropicalis.pl
perl
Xenbase gene ID|gene symbol|ModelID|StartStage|EndStage|XenbaseImage|CurationMethod
1
0
<@id>39@id>
JgiToXenbaseGenePage_8.0.txt
File contains the mapping JGI tropicalis models to Xenbase gene page IDs.
TSV
JgiToXenbaseGenePage_8.pl
perl
model name|Xenbase tropicalis gene ID|gene symbol|gene name
1
0
<@id>40@id>
LiteratureMatchedGenesByPaper.txt
NA
TSV
LiteratureMatchedGenesByPaper.pl
perl
Article|pubMedID|genePageId_and_Symbol
genePageId_and_Symbol listing comma separated
1
0
<@id>41@id>
Trop4.1EnsemblToHumanEnsemblMapping.txt
NA
TSV
Trop4.pl
perl
NA
1
0
<@id>42@id>
TropicalisGenePage_NoModel.fasta
File contains a listing of Xenbase gene pages created using an NCBI xenopus tropicalis Entrez Gene entry as a seed. These gene pages have no genomic gene model associated with them. These models will contain, where applicable, xenopus laevis gene data.
fasta
TropicalisGenePage_NoModel.pl
perl
Xenbase gene ID|gene symbol|tropicalis unigene ID|tropicalis Entrez Gene ID
1
0
<@id>43@id>
XenbaseGeneNonEntrezOrthologMapping.txt
File contains a listing of Xenbase gene pages with OMIM, ZFIN, MGI and GEISHA
TSV
XenbaseGeneNonEntrezOrthologMapping.pl
perl
Xenbase|OMIM|MGI|ZFIN|GEISHA
1
0
<@id>44@id>
XenbaseOmimData.txt
File contains a listing of Xenbase gene pages with OMIM gene, disease and laevis and trop identifiers
TSV
XenbaseOmimData.pl
perl
XB Umbrella Gene ID| Gene Symbol| Human Entrez ID| OMIM Gene ID| OMIM Disease IDs(;)| XB tropicalis ID| Entrez tropicalis ID| XB laevis-L ID| laevis-L Symbol| Entrez laevis-L ID| XB laevis-S ID| laevis-S Symbol| Entrez laevis-S ID
1
0
<@id>45@id>
GeneKoTerms.txt
File contains a list of XB-GENE IDs mapped to KEGG terms
TSV
GeneKoTerms.pl
perl
Xenbase gene ID|gene symbol|KEGG Ids
The list of KEGG IDs is comma separated
1
0
<@id>46@id>
GeneExternalRef.txt
File contains a list of XB-GENE IDs with external entities
TSV
GeneExternalRef.pl
perl
Xenbase gene ID|gene symbol|gene name|NCBI taxon ID|Entrez ID|JGI IDs (delimited)|Uniprot IDs (delimited)|ENSEMBL IDs (delimited)
The list of IDs is pipe delimited
1
0
<@id>47@id>
XenbaseGeneUniprotMapping.txt
File contains a list of XB-GENE IDs with external ref for UniprotKB
TSV
UniprotDump.pl
perl
Uniprot IDs|DR|Xenbase|Xenbase gene ID|gene symbol
1
0
<@id>48@id>
GenePageIntProTerms.txt
File contains a list of XB-GENE IDs mapped to InterPro terms
TSV
GenePageIntProTerms.pl
perl
XB GenePage|Xenbase gene ID|gene symbol|IPRO Ids
The list of IPRO IDs is comma separated
1
0
<@id>50@id>
exp_data_aged_clone_amended.csv
File contains a list of XB-CLONE IDs age report since last mod. Monthly refresh and email on 27th.
CSV
exp_data_aged_clone_amended.pl
perl
AGED_FROM_CHANGE,ADD_AMEND_DATE,CLONE_ID,XB_CLONE,NAME,ORGANISM_ID,DESCRIPTION
1
0
<@id>51@id>
XenbaseGenepageToCoCitedGeneIdMapping.txt
File contains co-cited information on all the gene pages in Xenbase.
TSV
XenbaseGenepageToCoCitedGeneIdMapping.pl
perl
Xenbase gene ID|gene symbol|co_cited_idList|co_cited_symbolList
pipe delimited xb-gene co_cited_idList;pipe delimited co_cited_symbolList
1
0
<@id>52@id>
GeneFeat_AnatItem_MarkerImp.tab
File contains anatomy item to gene page markers in Xenbase.
TSV
XAO_GeneFeatureMarkerImpExp.pl
perl
NAME|ANATOMY_ITEM_ID|ANAT_REF|LIST_FEATURE_RELATED|LIST_SYMBOL_NAMES
comma delimited xb-gene LIST_FEATURE_RELATED;comma delimited LIST_SYMBOL_NAMES
1
0
<@id>53@id>
GenePageToJgiTropicalisScaffoldMapping_9.1.txt
File contains a mapping of all Xenbase gene pages to their parent 9.1 JGI models
TSV
GenePageToJgiTropicalisScaffoldMapping_9_1.pl
perl
Xenbase gene ID|gene symbol|JGI Model Name|JGI Scaffold Name|JGI Scaffold Start Position|JGI Scaffold End Position|JGI Scaffold Strand
1
0
<@id>54@id>
JgiToXenbaseGenePage_9.1.txt
File contains the mapping JGI tropicalis models to Xenbase gene page IDs.
TSV
JgiToXenbaseGenePage_9_1.pl
perl
model name|Xenbase tropicalis gene ID|gene symbol|gene name
1
0
<@id>55@id>
geo_metadat.txt
File contains GSE metadata and jbrowse job run data
TSV
GEOMetaDump.pl
perl
GSE_ID|CONTACTPERSON|SERIESTITLE|SUMMARY|CONTRIBUTORS|EXPDESIGN|PUBMEDID|PAPER_ID|SRA_STUDY_NUM|TRACKNAME|ASSAY|STAGE|TISSUE|PUBLICATION|GSM|CAT_HIERARCHY|STRAIN|SPECIES_VERSION|EXT_SPECIES_VERSION|STATUS_LIST|GSE_ROOT_FOLDER|GSE_SPECIES_VER_ROOT_FOLDER|GSE_BW_ROOT_FOLDER|GSE_TPM_ROOT_FOLDER|GSE_DE_ROOT_FOLDER|GSE_PEAK_ROOT_FOLDER|GSE_README_FILE
1
0
<@id>56@id>
geo_srr_metadata.txt
File contains the GEO SRR metadata.
TSV
GEOMetaDump.pl
perl
GSE_ID|RECNUM|CONTACTPERSON|SERIESTITLE|SUMMARY|CONTRIBUTORS|EXPDESIGN|PUBMEDID|PAPER_ID|SRA_STUDY_NUM|SRR|URL_SRR_SOURCE|GSM|SRA|SRX|ASSAYTYPE|LIBRARYLAYOUT|SRP|BIOPROJECT
1
0
<@id>57@id>
GeneGenomeHumanOrtho_xl9_1.txt
File contains a list of XB-GENE IDs with Human Ortholog and HGNC dbxrefs
TSV
GeneGenomeHumanOrtho.pl
perl
XENBASE_GENE_ID|SYMBOL|XENBASE_GENEPAGE_ID|XENBASE_TRANSCRIPT_ID|ENTREZ_GENE_ID|MODEL_NAME|NCBI_GENE_ID|DB_ID|GENOME_ASSEMBLY|ENSEMBL|HGNC_ID|ORTHOLOG_HUMAN_SYMBOL|ORTHOLOG_HUMAN_ENTREZ
The list of IDs is pipe separated
1
0
<@id>58@id>
GeneGenomeHumanOrtho_xl9_2.txt
File contains a list of XB-GENE IDs with Human Ortholog and HGNC dbxrefs
TSV
GeneGenomeHumanOrtho.pl
perl
XENBASE_GENE_ID|SYMBOL|XENBASE_GENEPAGE_ID|XENBASE_TRANSCRIPT_ID|ENTREZ_GENE_ID|MODEL_NAME|NCBI_GENE_ID|DB_ID|GENOME_ASSEMBLY|ENSEMBL|HGNC_ID|ORTHOLOG_HUMAN_SYMBOL|ORTHOLOG_HUMAN_ENTREZ
The list of IDs is pipe separated
1
0
<@id>59@id>
GeneGenomeHumanOrtho_xt9_1.txt
File contains a list of XB-GENE IDs with Human Ortholog and HGNC dbxrefs
TSV
GeneGenomeHumanOrtho.pl
perl
XENBASE_GENE_ID|SYMBOL|XENBASE_GENEPAGE_ID|XENBASE_TRANSCRIPT_ID|ENTREZ_GENE_ID|MODEL_NAME|NCBI_GENE_ID|DB_ID|GENOME_ASSEMBLY|ENSEMBL|HGNC_ID|ORTHOLOG_HUMAN_SYMBOL|ORTHOLOG_HUMAN_ENTREZ
The list of IDs is pipe separated
1
0
<@id>60@id>
GeneGenomeHumanOrtho_pivot_xl.txt
File contains a list of XLaevis XB-GENE IDs with Human Ortholog and HGNC dbxrefs
TSV
GeneGenomeHumanOrtho.pl
perl
XENBASE_GENE_ID|SYMBOL|ENTREZ_GENE_ID|JGI_XL_GENOME_7_1_GENE|JGI_XL_GENOME_9_1_GENE|XB_XL_GENOME_9_2_GENE|ENSEMBL|HGNC_ID|ORTHOLOG_HUMAN_SYMBOL|ORTHOLOG_HUMAN_ENTREZ
The list of IDs is pipe separated
1
0
<@id>61@id>
GeneGenomeHumanOrtho_pivot_xt.txt
File contains a list of XTrop XB-GENE IDs with Human Ortholog and HGNC dbxrefs
TSV
GeneGenomeHumanOrtho.pl
perl
XENBASE_GENE_ID|SYMBOL|ENTREZ_GENE_ID|JGI_XT_GENOME_7_1_GENE|JGI_XT_GENOME_8_0_GENE|XB_XT_GENOME_9_1_GENE|ENSEMBL|HGNC_ID|ORTHOLOG_HUMAN_SYMBOL|ORTHOLOG_HUMAN_ENTREZ
The list of IDs is pipe separated
1
0
<@id>62@id>
cur_exp_geo_pipe_run.txt
File contains a list of GEO GSE for GEO pipeline processing
TSV
GEORunfileGen.pl
perl
LABEL_OLD|LABEL|BIGWIG|TRACKNAME|ASSAY|STAGE|TISSUE|PUBLICATION|PAPER|LAB|GSE_ID|GSM|CAT_HIERARCHY|BIN_ID|CTRL_BIN_ID|STRAIN|IS_FOR_BIGWIG|SPECIES_VERSION|EXT_SPECIES_VERSION|SPECIES_VERSION_DBXREF|STATUS_LIST|STATUS_IDS|GSE_ROOT_FOLDER|GSE_SPECIES_VER_ROOT_FOLDER|GSE_BW_ROOT_FOLDER|GSE_TPM_ROOT_FOLDER|GSE_DE_ROOT_FOLDER|GSE_PEAK_ROOT_FOLDER|GSE_README_FILE
The list of IDs is pipe separated
1
0
<@id>63@id>
jbrunfile_all.txt
File contains a list of GEO GSE with bigwig and paths
TSV
GEORunfileGen.pl
perl
XENBASE_GENE_ID|SYMBOL|XENBASE_GENEPAGE_ID|XENBASE_TRANSCRIPT_ID|ENTREZ_GENE_ID|MODEL_NAME|NCBI_GENE_ID|DB_ID|GENOME_ASSEMBLY|ENSEMBL|HGNC_ID|ORTHOLOG_HUMAN_SYMBOL|ORTHOLOG_HUMAN_ENTREZ
The list of IDs is pipe separated
1
0
<@id>64@id>
GeneMondoRef.txt
File contains a list of MONDO and HPID
TSV
GeneMondoRef.pl
perl
XENBASE_GENE_ID|SYMBOL|XENBASE_GENEPAGE_ID|XENBASE_TRANSCRIPT_ID|ENTREZ_GENE_ID|ENSEMBL|HGNC_ID|ORTHOLOG_HUMAN_SYMBOL|ORTHOLOG_HUMAN_ENTREZ|HUMAN_GENE_ID|NCBI_TAXON|MONDO|HPID|EFOID
The list of IDs is pipe separated
1
0
<@id>65@id>
GenePhenoRef.txt
File contains a list of Gene and Pheno
TSV
GenePhenoRef.pl
perl
XENBASE_GENE_ID|SYMBOL|XENBASE_GENEPAGE_ID|ENTREZ_GENE_ID|PRIMARYGENETICENTITY|NCBI_TAXON|XENBASE_PHENO_ID|XPO_DBXREF_ID|PHENO_TERM_ID|PHENO_STM|TERM_ORDER|PUBMED|CROSSREF_PUB|TARGET_GENE|EVIDENCE_LABEL|QUALIFIER|ANNOTATION_TYPE|REF_TYPE
n_a
1
0