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Paper · 16199517

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.

Subramanian A and 10 others. Proc Natl Acad Sci U S A, 2005. Cited by 42,788 papers, by iCite.

11 sourcespapers-2026-11-12-0.1.0

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ConductScience Library. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Papers, record 16199517. Release papers-2026-11-12-0.1.0, 12 Nov 2026. https://conductscience.org/library/papers/16199517

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Paper

PubMed's record of the paper, with iCite's citation figures. No abstract is shown.

Title
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
PubMed
Journal
Proc Natl Acad Sci U S A
PubMed
Year
2005
PubMed
Publication types
Journal Article
PubMed
Citations, by iCite
42,788
iCite
Relative citation ratio, by iCite
934
iCite
Revised in PubMed
2026-03-31
PubMed

Authors11

The authors in the order PubMed's record lists them, with the ORCID iDs it states.

OrderAuthorForenameKindORCID iD
1Subramanian AAravind
2Tamayo PPablo
3Mootha VKVamsi K
4Mukherjee SSayan
5Ebert BLBenjamin L
6Gillette MAMichael A
7Paulovich AAmanda
8Pomeroy SLScott L
9Golub TRTodd R
10Lander ESEric S

1 to 10 of 11Source PubMed

See all 11 authors

Topics11

NLM's MeSH indexing of the paper, its major topics first.

MeSH termMajor
Gene Expression ProfilingMajor topic
Oligonucleotide Array Sequence AnalysisMajor topic
Cell Line, Tumor
Female
Genes, p53
Genome
Humans
Leukemia, Myeloid, Acute
Lung Neoplasms
Male
Precursor Cell Lymphoblastic Leukemia-Lymphoma

Source PubMed

Grants2

Each grant PubMed's record writes, matched to the NIH project NIH's grant and paper links name for this paper, and each of those links the record does not write.

Grant, as the record writes itAgencyCountryNIH projectStated bySource
R01 CA109467NCI NIH HHSUnited StatesR01CA109467PubMed and NIHNIH RePORTER
T32 CA009172NCI NIH HHSUnited StatesT32CA009172PubMed and NIHNIH RePORTER

Trials0

The trials whose ClinicalTrials.gov record lists the paper, and the trial numbers the paper's PubMed record names.

None in this release.

Comments and corrections1

PubMed's comments and corrections, NLM's own indexing: retractions first, then expressions of concern, errata and updates, and comments last.

KindPMIDTitleIn Papers
Comment in16,230,612Application of a priori established gene sets to discover biologically important differential expression in microarray data.https://conductscience.org/library/papers/16230612

Source PubMed

References33

The papers the reference list in PubMed's record names, those in our copy of PubMed, in the list's order.

OrderPMIDTitleJournalYearIn PapersSource
111,731,795MLL translocations specify a distinct gene expression profile that distinguishes a unique leukemia.Nat Genet2002https://conductscience.org/library/papers/11731795PubMed
215,735,639Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals.Nature2005https://conductscience.org/library/papers/15735639PubMed
312,101,249The immunosuppressant rapamycin mimics a starvation-like signal distinct from amino acid and glucose deprivation.Mol Cell Biol2002https://conductscience.org/library/papers/12101249PubMed
412,118,244Gene-expression profiles predict survival of patients with lung adenocarcinoma.Nat Med2002https://conductscience.org/library/papers/12118244PubMed
512,226,738A role for hypoxia and hypoxia-inducible transcription factors in tumor physiology.J Mol Med (Berl)2002https://conductscience.org/library/papers/12226738PubMed
612,370,818Cloning and characterization of the common fragile site FRA6F harboring a replicative senescence gene and frequently deleted in human tumors.Oncogene2002https://conductscience.org/library/papers/12370818PubMed
712,429,693Xist RNA and the mechanism of X chromosome inactivation.Annu Rev Genet2002https://conductscience.org/library/papers/12429693PubMed
812,540,299MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data.Genome Biol2003https://conductscience.org/library/papers/12540299PubMed
912,584,122Identifying differentially expressed genes using false discovery rate controlling procedures.Bioinformatics2003https://conductscience.org/library/papers/12584122PubMed
1012,649,177
A novel gene, MSI2, encoding a putative RNA-binding protein is recurrently rearranged at disease progression of chronic myeloid leukemia and forms a fusion gene with HOXA9 as a result of the cryptic t(7;17)(p15;q23).
Cancer Res2003https://conductscience.org/library/papers/12649177PubMed

1 to 10 of 33

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Cited by34,814

The papers in our copy of PubMed whose reference list names this one, newest first. iCite, which reads more sources, counts 42,788 citations.

PMIDTitleJournalYearIn PapersSource
42,989,090Madecassic acid orchestrates DDX17-dependent pathway suppression of ferroptosis to mitigate myocardial ischemic/reperfusion injury.Cell Mol Biol Lett2026https://conductscience.org/library/papers/42989090PubMed
42,989,021ParetoRx: A Multiobjective Radiogenomic Framework Integrating Pareto Optimization and Q-Learning for Exploratory Compound Prioritization in Non-Small Cell Lung Cancer.J Imaging Inform Med2026https://conductscience.org/library/papers/42989021PubMed
42,988,793SWI/SNF subunit SMARCD1 deficiency promotes clear cell renal cell carcinoma progression via mitochondrial reprogramming.Nat Commun2026https://conductscience.org/library/papers/42988793PubMed
42,986,514Integrated bulk and single-cell transcriptomic analyses prioritize candidate genes associated with lysosomes and ferroptosis in rheumatoid arthritis synovium.Clin Rheumatol2026https://conductscience.org/library/papers/42986514PubMed
42,985,778Notch/NF-κB crosstalk signaling controls SASP gene expression during brain aging.Nucleic Acids Res2026https://conductscience.org/library/papers/42985778PubMed
42,984,670Integrated manufacturing platform for cortical organoids reveals early phosphatase and prefoldin dysregulation in MAPT V337M neurons.NPJ Dement2026https://conductscience.org/library/papers/42984670PubMed
42,984,500MR-supported candidate genes and pathway analysis between ischemic stroke and osteoporosis: an integrated multi-omics study.Front Immunol2026https://conductscience.org/library/papers/42984500PubMed
42,983,839LRRK2 G2019S variant is associated with transcriptional changes in Parkinson's disease human myeloid cells under proinflammatory environment.J Neuroinflammation2026https://conductscience.org/library/papers/42983839PubMed
42,983,745SCG3 and YAP1 define molecular subtypes of small cell carcinoma of the cervix with divergent multi-omics features and prognostic outcomes.J Transl Med2026https://conductscience.org/library/papers/42983745PubMed
42,983,723Loss of FCN3 links cirrhotic matrix stiffness to YAP activation in HCC.J Transl Med2026https://conductscience.org/library/papers/42983723PubMed

1 to 10 of 34,814

See all 34,814 cited by

Genes0

The genes the Gene search release ties to the paper: Swiss-Prot's references first, then PubTator's text mining.

None in this release.

Drugs0

The drugs whose trials, in the Pipelines release, list the paper.

None in this release.

Data0

The data bank entries PubMed's record names. Trial numbers are under Trials.

None in this release.

Data dates

The date of each source this release read.

PubMed
2026-11-06
PubMed
iCite
2026-11-05
iCite
PMC's ID file
2026-11-05
PMC's ID file
NIH RePORTER's grant and paper links
2026-11-01
NIH RePORTER's grant and paper links
Trials
2026-11-12
Gene search
2026-11-11
Pipelines
2026-09-18

Sources 11

  • ChEMBL, through Open TargetsCC BY-SA 3.0
  • ClinicalTrials.govNo license stated
  • HGNCCC0
  • iCiteCC BY 4.0
  • NCBI GenePublic domain (US government)
  • NIH RePORTER's grant and paper linksPublic domain
  • Open TargetsCC0 1.0
  • PMC's ID filePublic domain (US government)
  • PubMedNLM's terms
  • PubTator 3Public domain
  • UniProtCC BY 4.0
Each source's terms
  • ChEMBL, through Open TargetsCC BY-SA 3.0, for the parts from ChEMBL. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
  • ClinicalTrials.govnone stated
  • HGNCCC0: https://www.genenames.org/about/license/
  • iCiteCC BY 4.0
  • NCBI GeneNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
  • NIH RePORTER's grant and paper linksPublic domain (NIH RePORTER)
  • Open TargetsCC0 1.0. Open Targets asks that users cite its latest paper: Buniello et al. 2025, Open Targets Platform: facilitating therapeutic hypotheses building in drug discovery, Nucleic Acids Research 53(D1):D1467, PMID 39657122. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
  • PMC's ID fileNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
  • PubMedNLM's terms
  • PubTator 3Public domain
  • UniProtCC BY 4.0. UniProt's licence file: "All databases and documents in the UniProt FTP directory may be copied and redistributed freely, without advance permission, provided that this copyright statement is reproduced with each copy." UniProt asks that users cite its latest paper: The UniProt Consortium, UniProt: the Universal Protein Knowledgebase in 2025, Nucleic Acids Research 53:D609-D617, https://doi.org/10.1093/nar/gkae1010. Read on 9 Nov 2026 at https://www.uniprot.org/help/license

ClinicalTrials.gov's data carry an international copyright outside the United States: https://clinicaltrials.gov/about-site/terms-conditions.

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