NASA GeneLab

NASA GeneLab provides a RESTful Application Programming Interfaces (API) to its full-text search, and data and metadata retrieval capabilities. The API provides a choice of standard web output formats, either JavaScript Object Notation (JSON) or Hyper Text Markup Language (HTML), of query results. The GeneLab Data Query API returns metadata on data files associated with dataset(s), including the location of these files for download via https. The GeneLab Metadata Query API returns entire sets of metadata for input dataset accession numbers. The GeneLab Dataset Search API can be used to search dataset metadata by keywords and/or metadata. It can also be used to provide search of three other omics databases: the National Institutes of Health (NIH) / National Center for Biotechnology Information's (NCBI) Gene Expression Omnibus (GEO); the European Bioinformatics Institute's (EBI) Proteomics Identification (PRIDE); the Argonne National Laboratory's (ANL) Metagenomics Rapid Annotations using Subsystems Technology (MG-RAST).

Data Query API

Syntax

https://genelab-data.ndc.nasa.gov/genelab/data/glds/files/{GLDS_STUDY_IDs}/?page={CURRENT_PAGE_NUMBER}&size={RESULTS_PER_PAGE}

Returns: JSON-formatted response

Parameters	Data Type	Notes	Values	Required
{GLDS_STUDY_IDs}	Integers	Comma separated list with mixture of single GLDS accession numbers and ranges	ex. 87-95,137	Yes
{CURRENT_PAGE_NUMBER}	Integer	Current page number in pagination	Starts from 0	No
{RESULTS_PER_PAGE}	Integer	Number of results returned per page in pagination	Max 25 results per page	No

Example requests:

Single study request using GLDS accession number
- https://genelab-data.ndc.nasa.gov/genelab/data/glds/files/87
Multiple studies request using combination of range and comma separated list
- https://genelab-data.ndc.nasa.gov/genelab/data/glds/files/137,87-95,13,20-50

NOTE: study_files element in the JSON response has the remote_url attribute, which can be used to obtain the specific download URL for the file by prefacing with the GeneLab data server address, https://genelab-data.ndc.nasa.gov . In the example query/response below, the first study file for GLDS-87 study in the response below can be downloaded from https://genelab-data.ndc.nasa.gov/datamanager/file/Home/genelab/genelab-data/GLDS-87/metadata/GLDS-87_metadata_Zanello_STS135-ISA.zip

Example Requests:

Single Study Request:

https://genelab-data.ndc.nasa.gov/genelab/data/glds/files/87

Response:

 {
 "hits": 1,
 "input": "87",
 "studies": {
 "GLDS-87": {
 "file_count": 7,
 "study_files": [
 {
 "date_created": 1516405876433,
 "file_name": "GLDS-87_metadata_Zanello_STS135-ISA.zip",
 "file_size": 4809,
 "remote_url": "/datamanager/file/Home/genelab/genelab-data/GLDS-87/metadata/GLDS-87_metadata_Zanello_STS135-ISA.zip"
 },
 {
 "date_created": 1506008634109,
 "file_name": "GLDS-87_microarray_14R_(Mouse430_2).CEL.gz",
 "file_size": 6374949,
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_14R_(Mouse430_2).CEL.gz"
 },
 {
 "date_created": 1506008634109,
 "file_name": "GLDS-87_microarray_16R_(Mouse430_2).CEL.gz",
 "file_size": 6274393,
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_16R_(Mouse430_2).CEL.gz"
 },
 {
 "date_created": 1506008634109,
 "file_name": "GLDS-87_microarray_20R_(Mouse430_2).CEL.gz",
 "file_size": 6384622,
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_20R_(Mouse430_2).CEL.gz"
 },
 {
 "date_created": 1506008634109,
 "file_name": "GLDS-87_microarray_52R_(Mouse430_2).CEL.gz",
 "file_size": 6297226,
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_52R_(Mouse430_2).CEL.gz"
 },
 {
 "date_created": 1506008634109,
 "file_name": "GLDS-87_microarray_54R_(Mouse430_2).CEL.gz",
 "file_size": 6017124,
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_54R_(Mouse430_2).CEL.gz"
 },
 {
 "date_created": 1506008634109,
 "file_name": "GLDS-87_microarray_58R_(Mouse430_2).CEL.gz",
 "file_size": 6329707,
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_58R_(Mouse430_2).CEL.gz"
 }
 ]
 }
 },
 "success": true,
 "total_hits": 2,
 "valid_input": [
 "87"
 ]
}

Multiple Study Data Files Request:

https://genelab-data.ndc.nasa.gov/genelab/data/glds/files/137,86-87

Response:

 {
 "hits": 3,
 "input": "137,86-87",
 "studies": {
 "GLDS-137": {
 "study_files": [
 {
 "file_name": "GLDS-137_metadata_RR3-Liver.zip",
 "remote_url": "/datamanager/file/Home/genelab/genelab-data/GLDS-137/metadata/GLDS-137_metadata_RR3-Liver.zip",
 "file_size": 9408,
 "date_created": 1522174143201
 },
 {
 "file_name": "GLDS-137_transcriptomics_RR3-BSL-B1.tar.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-137/transcriptomics/GLDS-137_transcriptomics_RR3-BSL-B1.tar.gz",
 "file_size": 14879922202,
 "date_created": 1506008636839
 },
 {
 "file_name": "GLDS-137_transcriptomics_RR3-BSL-B2.tar.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-137/transcriptomics/GLDS-137_transcriptomics_RR3-BSL-B2.tar.gz",
 "file_size": 15103810246,
 "date_created": 1506008636839
 },
 ...
 ...
 {
 "file_name": "GLDS-137_proteomics_RR3_Liver_raw.tar.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-137/proteomics/GLDS-137_proteomics_RR3_Liver_raw.tar.gz",
 "file_size": 19986955105,
 "date_created": 1506008636839
 }
 ],
 "file_count": 39,
 "study_metadata": {
 "date_created": 1522174145534,
 "isa2json": {
 ...
 ...
 },
 "date_modified": 1522174145534
 }
 },
 "GLDS-87": {
 "study_files": [
 {
 "file_name": "GLDS-87_metadata_Zanello_STS135-ISA.zip",
 "remote_url": "/datamanager/file/Home/genelab/genelab-data/GLDS-87/metadata/GLDS-87_metadata_Zanello_STS135-ISA.zip",
 "file_size": 4809,
 "date_created": 1516405876433
 },
 {
 "file_name": "GLDS-87_microarray_14R_(Mouse430_2).CEL.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_14R_(Mouse430_2).CEL.gz",
 "file_size": 6374949,
 "date_created": 1506008634109
 },
 {
 "file_name": "GLDS-87_microarray_16R_(Mouse430_2).CEL.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_16R_(Mouse430_2).CEL.gz",
 "file_size": 6274393,
 "date_created": 1506008634109
 },
 {
 "file_name": "GLDS-87_microarray_20R_(Mouse430_2).CEL.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_20R_(Mouse430_2).CEL.gz",
 "file_size": 6384622,
 "date_created": 1506008634109
 },
 {
 "file_name": "GLDS-87_microarray_52R_(Mouse430_2).CEL.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_52R_(Mouse430_2).CEL.gz",
 "file_size": 6297226,
 "date_created": 1506008634109
 },
 {
 "file_name": "GLDS-87_microarray_54R_(Mouse430_2).CEL.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_54R_(Mouse430_2).CEL.gz",
 "file_size": 6017124,
 "date_created": 1506008634109
 },
 {
 "file_name": "GLDS-87_microarray_58R_(Mouse430_2).CEL.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-87/microarray/GLDS-87_microarray_58R_(Mouse430_2).CEL.gz",
 "file_size": 6329707,
 "date_created": 1506008634109
 }
 ],
 "file_count": 7,
 "study_metadata": {
 "date_created": 1516405879029,
 "isa2json": {
 ...
 ...
 },
 "date_modified": 1516405879029
 }
 },
 "GLDS-86": {
 "study_files": [
 {
 "file_name": "GLDS-86_metadata_GSE65477-ISA.zip",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-86/metadata/GLDS-86_metadata_GSE65477-ISA.zip",
 "file_size": 4659,
 "date_created": 1506008635554
 },
 {
 "file_name": "GLDS-86_epigenomics_SRR1781971_1.fastq.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-86/epigenomics/GLDS-86_epigenomics_SRR1781971_1.fastq.gz",
 "file_size": 1438278406,
 "date_created": 1506008635554
 },
 {
 "file_name": "GLDS-86_epigenomics_SRR1781971_2.fastq.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-86/epigenomics/GLDS-86_epigenomics_SRR1781971_2.fastq.gz",
 "file_size": 1425601005,
 "date_created": 1506008635554
 },
 {
 "file_name": "GLDS-86_epigenomics_SRR1781972_1.fastq.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-86/epigenomics/GLDS-86_epigenomics_SRR1781972_1.fastq.gz",
 "file_size": 1432085756,
 "date_created": 1506008635554
 },
 ...
 ...
 {
 "file_name": "GLDS-86_epigenomics_SRR1781978_2.fastq.gz",
 "remote_url": "/datamanager/file/Home/Public/genelab/GLDS-86/epigenomics/GLDS-86_epigenomics_SRR1781978_2.fastq.gz",
 "file_size": 3851398439,
 "date_created": 1506008635554
 }
 ],
 "file_count": 17,
 "study_metadata": {
 "date_created": 1506008631030,
 "isa2json": {
 ...
 ...
 },
 "date_modified": 1506008631030
 }
 }
 },
 
 "success": true,
 "total_hits": 3,
 "valid_input": ["86, "87", "137"]
 
}

GeneLab Metadata API

Syntax

https://genelab-data.ndc.nasa.gov/genelab/data/glds/meta/{GLDS_STUDY_ID}

Parameters	Data Type	Notes	Values	Required
{GLDS_STUDY_ID}	Integer	Single GLDS accession number	Example: 87	Yes

Single Study Metadata Request:

Example: https://genelab-data.ndc.nasa.gov/genelab/data/glds/meta/137

Returns: JSON-formatted response

Response:

 {
 "hits": 1, 
 "input": "137", 
 "study": {
 "GLDS-137": {
 "isa2json": {
 "additionalInformation": {
 "assays": {
 "a_rr3_liver_DNA_methylation_profiling_nucleotide_sequencing-txt": {
 "header": [
 {
 "encoded": false, 
 "field": "a100000samplename", 
 "title": "Sample Name", 
 "width": 200
 }, 
 ...
 ...
 {
 "encoded": false, 
 "field": "a100022deriveddatafile", 
 "title": "Derived Data File", 
 "width": 200
 }, 
 {
 "columns": [
 {
 "encoded": false, 
 "field": "a100017commentexport", 
 "title": "Export", 
 "width": 200
 }
 ], 
 "title": "Comment"
 }
 ], 
 "raw": [
 {
 "a100000samplename": "RR3_BSL_B1_LVR", 
 "a100001protocolref": "nucleic acid extraction", 
 ...
 ...
 "a100022deriveddatafile": ""
 }, 
 ...
 ...
 {
 "a100000samplename": "RR3_GC_G7_LVR", 
 "a100001protocolref": "nucleic acid extraction", 
 ...
 ...
 "a100022deriveddatafile": ""
 }
 ], 
 "table": [
 {
 "a100000samplename": "RR3_BSL_B1_LVR", 
 "a100001protocolref": "nucleic acid extraction", 
 ...
 ...
 "a100022deriveddatafile": ""
 }, 
 ...
 ...
 {
 "a100000samplename": "RR3_GC_G7_LVR", 
 "a100001protocolref": "nucleic acid extraction", 
 ...
 ...
 "a100022deriveddatafile": ""
 }
 ]
 }, 
 "a_rr3_liver_protein_expression_profiling_mass_spectrometry-txt": {
 "header": [
 {
 "encoded": false, 
 "field": "a100000samplename", 
 "title": "Sample Name", 
 "width": 200
 }, 
 ...
 ...
 {
 "encoded": false, 
 "field": "a100033proteinassignmentfile", 
 "title": "Protein Assignment File", 
 "width": 200
 }, 
 {
 "columns": [
 {
 "encoded": false, 
 "field": "a100001commentcorefacilitysamplename", 
 "title": "Core Facility Sample Name", 
 "width": 200
 }, 
 ...
 ...
 {
 "encoded": false, 
 "field": "a100034commentbyonicoutputfile", 
 "title": "Byonic Output File", 
 "width": 200
 }
 ], 
 "title": "Comment"
 }
 ], 
 "raw": [
 {
 "a100000samplename": "RR3_BSL_B1_LVR", 
 "a100001commentcorefacilitysamplename": "B1", 
 ...
 ...
 "a100034commentbyonicoutputfile": "170322_SHLai....byspec2_20170326_Byonic.mzid"
 }, 
 ...
 ...
 {
 "a100000samplename": "RR3_FLT_F6_LVR", 
 "a100001commentcorefacilitysamplename": "F6", 
 ...
 ...
 "a100034commentbyonicoutputfile": "170322_SHLai....byspec2_20170326_Byonic.mzid"
 }
 ], 
 "table": [
 {
 "a100000samplename": "RR3_BSL_B1_LVR", 
 "a100001commentcorefacilitysamplename": "B1", 
 ...
 ...
 "a100034commentbyonicoutputfile": "170322_SHLai....byspec2_20170326_Byonic.mzid"
 }, 
 ...
 ...
 {
 "a100000samplename": "RR3_FLT_F6_LVR", 
 "a100001commentcorefacilitysamplename": "F6", 
 ...
 ...
 "a100034commentbyonicoutputfile": "170322_SHLai....byspec2_20170326_Byonic.mzid"
 }
 ]
 }, 
 "a_rr3_liver_transcription_profiling_nucleotide_sequencing-txt": {
 "header": [
 ...
 ...
 ], 
 "raw": [
 ...
 ...
 ], 
 "table": [
 ...
 ...
 ]
 }
 }, 
 "description": {
 "assays": [
 {
 "Assay Type": "transcription profiling", 
 "Device Platform": "Illumina", 
 "Device Type": "nucleotide sequencing"
 }, 
 {
 "Assay Type": "protein expression profiling", 
 "Device Platform": "LTQ Orbitrap Velos (Thermo Scientific)", 
 "Device Type": "mass spectrometry"
 }, 
 {
 "Assay Type": "DNA methylation profiling", 
 "Device Platform": "Illumina", 
 "Device Type": "nucleotide sequencing"
 }
 ], 
 "factors": [
 {
 "Ontology: Concept": "Weightlessness", 
 "factor": "Microgravity"
 }, 
 {
 "Ontology: Concept": "treatment", 
 "factor": "Treatment"
 }
 ]
 }, 
 "ontologies": {
 "OBI:0000626": {
 "@context": {
 "@vocab": "http://data.bioontology.org/metadata/", 
 "cui": "http://data.bioontology.org/metadata/umlscui", 
 "definition": "http://data.bioontology.org/metadata/skosdefinition", 
 "obsolete": "http://data.bioontology.org/metadata/owlobsolete", 
 "prefLabel": "http://data.bioontology.org/metadata/skosprefLabel", 
 "semanticType": "http://data.bioontology.org/metadata/umlssemanticType", 
 "synonym": "http://data.bioontology.org/metadata/skossynonym"
 }, 
 "@id": "http://purl.obolibrary.org/obo/OBI_0000626", 
 "@type": "http://www.w3.org/2002/07/owl#Class", 
 "cui": [], 
 "definition": [
 "DNA sequencing is a sequencing process which uses deoxyribonucleic acid as input and results in a the creation of DNA sequence information artifact using a DNA sequencer instrument."
 ], 
 "links": {
 "@context": {
 "ancestors": "http://www.w3.org/2002/07/owl#Class", 
 "children": "http://www.w3.org/2002/07/owl#Class", 
 "descendants": "http://www.w3.org/2002/07/owl#Class", 
 "instances": "http://data.bioontology.org/metadata/Instance", 
 "mappings": "http://data.bioontology.org/metadata/Mapping", 
 "notes": "http://data.bioontology.org/metadata/Note", 
 "ontology": "http://data.bioontology.org/metadata/Ontology", 
 "parents": "http://www.w3.org/2002/07/owl#Class", 
 "self": "http://www.w3.org/2002/07/owl#Class", 
 "tree": "http://www.w3.org/2002/07/owl#Class", 
 "ui": "http://www.w3.org/2002/07/owl#Class"
 }, 
 "ancestors": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/ancestors", 
 "children": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/children", 
 "descendants": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/descendants", 
 "instances": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/instances", 
 "mappings": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/mappings", 
 "notes": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/notes", 
 "ontology": "http://data.bioontology.org/ontologies/OBI", 
 "parents": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/parents", 
 "self": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626", 
 "tree": "http://data.bioontology.org/ontologies/OBI/classes/http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626/tree", 
 "ui": "http://bioportal.bioontology.org/ontologies/OBI?p=classes&conceptid=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FOBI_0000626"
 }, 
 "obsolete": false, 
 "prefLabel": "DNA sequencing", 
 "semanticType": [], 
 "synonym": [
 "nucleotide sequencing"
 ]
 }, 
 ...
 ...
 }, 
 "organisms": {
 "links": {
 "musmusculus": "Mus musculus "
 }, 
 "ontologies": {
 "musmusculus": {
 "@context": {
 "@vocab": "http://data.bioontology.org/metadata/", 
 "cui": "http://data.bioontology.org/metadata/umlscui", 
 "definition": "http://data.bioontology.org/metadata/skosdefinition", 
 "obsolete": "http://data.bioontology.org/metadata/owlobsolete", 
 "prefLabel": "http://data.bioontology.org/metadata/skosprefLabel", 
 "semanticType": "http://data.bioontology.org/metadata/umlssemanticType", 
 "synonym": "http://data.bioontology.org/metadata/skossynonym"
 }, 
 "@id": "http://purl.bioontology.org/ontology/NCBITAXON/10090", 
 "@type": "http://www.w3.org/2002/07/owl#Class", 
 "cui": [
 "C0025914"
 ], 
 "definition": [], 
 "links": {
 "@context": {
 "ancestors": "http://www.w3.org/2002/07/owl#Class", 
 "children": "http://www.w3.org/2002/07/owl#Class", 
 "descendants": "http://www.w3.org/2002/07/owl#Class", 
 "instances": "http://data.bioontology.org/metadata/Instance", 
 "mappings": "http://data.bioontology.org/metadata/Mapping", 
 "notes": "http://data.bioontology.org/metadata/Note", 
 "ontology": "http://data.bioontology.org/metadata/Ontology", 
 "parents": "http://www.w3.org/2002/07/owl#Class", 
 "self": "http://www.w3.org/2002/07/owl#Class", 
 "tree": "http://www.w3.org/2002/07/owl#Class", 
 "ui": "http://www.w3.org/2002/07/owl#Class"
 }, 
 "ancestors": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/ancestors", 
 "children": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/children", 
 "descendants": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/descendants", 
 "instances": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/instances", 
 "mappings": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/mappings", 
 "notes": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/notes", 
 "ontology": "http://data.bioontology.org/ontologies/NCBITAXON", 
 "parents": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/parents", 
 "self": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090", 
 "tree": "http://data.bioontology.org/ontologies/NCBITAXON/classes/http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090/tree", 
 "ui": "http://bioportal.bioontology.org/ontologies/NCBITAXON?p=classes&conceptid=http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FNCBITAXON%2F10090"
 }, 
 "obsolete": false, 
 "prefLabel": "Mus musculus", 
 "semanticType": [
 "http://purl.bioontology.org/ontology/STY/T015"
 ], 
 "synonym": [
 "mouse "
 ]
 }
 }
 }, 
 "samples": {
 "s_RR3_Liver-txt": {
 "header": [
 {
 "encoded": false, 
 "field": "a100000sourcename", 
 "title": "Source Name", 
 "width": 200
 }, 
 ...
 ...
 {
 "encoded": false, 
 "field": "a100047parametervaluesamplestoragemethod", 
 "title": "Parameter Value[Sample Storage Method]", 
 "width": 200
 }, 
 {
 "columns": [
 {
 "encoded": false, 
 "field": "a100002characteristicsorganism", 
 "title": "Organism", 
 "width": 200
 }, 
 ...
 ...
 {
 "encoded": false, 
 "field": "a100019characteristicscarcassweight", 
 "title": "Carcass weight", 
 "width": 200
 }
 ], 
 "title": "Characteristics"
 }, 
 {
 "columns": [
 {
 "encoded": false, 
 "field": "a100001commentsourcedescription", 
 "title": "Source description", 
 "width": 200
 }, 
 ...
 ...
 {
 "encoded": false, 
 "field": "a100052commentlsdabiospecimensubjectid", 
 "title": "LSDA Biospecimen Subject ID", 
 "width": 200
 }
 ], 
 "title": "Comment"
 }, 
 {
 "columns": [
 {
 "encoded": false, 
 "field": "a100023factorvaluetreatment", 
 "title": "Treatment", 
 "width": 200
 }, 
 {
 "encoded": false, 
 "field": "a100026factorvaluemicrogravity", 
 "title": "Microgravity", 
 "width": 200
 }
 ], 
 "title": "Factor Value"
 }
 ], 
 "raw": [
 {
 "a100000sourcename": "Liv-4 CB1", 
 "a100001commentsourcedescription": "previously dissected", 
 ...
 ...
 "a100051commentlsdabiospecimensourceid": "5417", 
 "a100052commentlsdabiospecimensubjectid": "551"
 }, 
 ...
 ...
 {
 "a100000sourcename": "Liv-4 CF6", 
 "a100001commentsourcedescription": "previously dissected", 
 ...
 ...
 "a100051commentlsdabiospecimensourceid": "5415", 
 "a100052commentlsdabiospecimensubjectid": "549"
 }
 ], 
 "table": [
 {
 "a100000sourcename": "Liv-4 CB1", 
 "a100001commentsourcedescription": "previously dissected", 
 ...
 ...
 "a100051commentlsdabiospecimensourceid": "5417", 
 "a100052commentlsdabiospecimensubjectid": "551 degree Celsius"
 }, 
 ...
 ...
 {
 "a100000sourcename": "Liv-4 CF6", 
 "a100001commentsourcedescription": "previously dissected", 
 ...
 ...
 "a100051commentlsdabiospecimensourceid": "5415", 
 "a100052commentlsdabiospecimensubjectid": "549 degree Celsius"
 }
 ]
 }
 }
 }, 
 "comments": [
 {
 "name": "Last Opened With Configuration", 
 "value": ""
 }, 
 {
 "name": "Created with configuration", 
 "value": ""
 }, 
 {
 "name": "Created With Configuration", 
 "value": ""
 }
 ], 
 "description": "", 
 "identifier": "1499794379203", 
 "ontologySourceReferences": [
 {
 "description": "Medical Subject Headings", 
 "file": "http://data.bioontology.org/ontologies/MESH", 
 "name": "MESH", 
 "version": "13"
 }, 
 {
 "description": "Ontology for Biomedical Investigations", 
 "file": "http://data.bioontology.org/ontologies/OBI", 
 "name": "OBI", 
 "version": "32"
 }, 
 ...
 ...
 {
 "description": "Units of Measurement Ontology", 
 "file": "http://data.bioontology.org/ontologies/UO", 
 "name": "UO", 
 "version": "43"
 }, 
 {
 "description": "", 
 "file": "", 
 "name": "", 
 "version": ""
 }
 ], 
 "people": [], 
 "publicReleaseDate": "", 
 "publications": [], 
 "studies": [
 {},
 {}
 ], 
 "submissionDate": "", 
 "title": "Investigation"
 }
 }
 },
 
 "success": true
}

GLDS Public RESTful Dataset Search API

Syntax 1 (returns JSON response)

https://genelab-data.ndc.nasa.gov/genelab/data/search?<PARAMETER-LIST>

parameters	definition	values
term	search keyword	string
from	starting page	integer (single value)
size	search result display count	integer (single value)
type	datasource	cgene , nih_geo, ebi_pride, mg_rast (accepts multiple value separated by comma separated)
sort	sort field	string (Field Name)
order	sort order	ASC - ascending order; DESC - descending order
ffield	filter field	string (should always be pared with fvalue); append .raw to the end of the field to use the exact match index; see metadata queries above for field names and example values
fvalue	filter value	string (should always be pared with ffield)

POST and GET requests accept the URL encoded name/value pairs for submission

Example: https://genelab-data.ndc.nasa.gov/genelab/data/search?term=space&from=0&type=cgene,nih_geo_gse&ffield=links&fvalue=GPL16417&ffield=Data%20Source%20Accession.raw&fvalue=GSE82255

Syntax2 (returns HTML response):

https://genelab-data.ndc.nasa.gov/genelab/search_studies/?q=<SEARCH-TERMS>& data_source =<DATASOURCE (see table below)>

Example: https://genelab-data.ndc.nasa.gov/genelab/search_studies/?q=cancer&data_source=cgene

https://genelab-data.ndc.nasa.gov/genelab/search_studies/?q=mouse%20AND%20liver&data_source=cgene

Data sources

Datasource	Query Parameter	Usage
C-GENE	cgene	Search authoritative data records in NASA GeneLab Data Repository
NIH GSE	nih_geo_gse	Search authoritative data records in NIH Gene Expression Omnibus database
EBI	ebi_pride	Search authoritative data records in the European Bioinformatics Institute Proteomics Identification database
MG-RAST	mg_rast	Search authoritative data records in the Metagenomic Rapid Annotations using Subsystems Technology database

Boolean Operators

Operator
AND	ALL search terms must be present (default boolean search)
OR	ANY of your search terms can be present
NOT	exclude words from your search

If no conjunctive or disjunctive operator specified, the default is "AND"

For more information, visit https://api.nasa.gov/.

GeneLab Public API

Contents:

Data Query API

Syntax

Returns: JSON-formatted response

Example requests:

Example Requests:

Response:

Multiple Study Data Files Request:

Response:

GeneLab Metadata API

Syntax

Single Study Metadata Request:

Returns: JSON-formatted response

Response:

GLDS Public RESTful Dataset Search API

Syntax 1 (returns JSON response)

Syntax2 (returns HTML response):

Follow Us

Contacts

Site Information

Other Resources

GeneLab Public API

Contents:

Data Query API

Syntax

Returns: JSON-formatted response

Example requests:

Example Requests:

Response:

Multiple Study Data Files Request:

Response:

GeneLab Metadata API

Syntax

Single Study Metadata Request:

Returns: JSON-formatted response

Response:

GLDS Public RESTful Dataset Search API

Syntax 1 (returns JSON response)

Syntax2 (returns HTML response):

Follow Us

Newsletter Signup

Contacts

Site Information

Other Resources