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Paper · 20033038

Complex landscapes of somatic rearrangement in human breast cancer genomes.

Stephens PJ and 32 others. Nature, 2009. Cited by 660 papers, by iCite.

11 sourcespapers-2026-11-12-0.1.0

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ConductScience Library. Complex landscapes of somatic rearrangement in human breast cancer genomes. Papers, record 20033038. Release papers-2026-11-12-0.1.0, 12 Nov 2026. https://conductscience.org/library/papers/20033038

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Paper

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

Title
Complex landscapes of somatic rearrangement in human breast cancer genomes.
PubMed
Journal
Nature
PubMed
Year
2009
PubMed
Publication types
Journal Article, Research Support, N.I.H., Extramural, Research Support, Non-U.S. Gov't
PubMed
Citations, by iCite
660
iCite
Relative citation ratio, by iCite
12.1
iCite
Revised in PubMed
2025-05-29
PubMed

Authors33

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

OrderAuthorForenameKindORCID iD
1Stephens PJPhilip J
2McBride DJDavid J
3Lin MLMeng-Lay
4Varela IIgnacio
5Pleasance EDErin D
6Simpson JTJared T
7Stebbings LALucy A
8Leroy CCatherine
9Edkins SSarah
10Mudie LJLaura J

1 to 10 of 33Source PubMed

See all 33 authors

Topics11

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

MeSH termMajor
Breast NeoplasmsMajor topic
Chromosome AberrationsMajor topic
Gene RearrangementMajor topic
Genome, HumanMajor topic
Cell Line, Tumor
Cells, Cultured
DNA Breaks
Female
Genomic Library
Humans
Sequence Analysis, DNA

Source PubMed

Grants5

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
CA089393NCI NIH HHSUnited StatesP50CA089393PubMed and NIHNIH RePORTER
P50 CA089393NCI NIH HHSUnited StatesP50CA089393PubMed and NIHNIH RePORTER
BREAST CANCER NOW RESEARCH CENTREBreast Cancer NowUnited KingdomPubMedPubMed
088340Wellcome TrustUnited KingdomPubMedPubMed
077012/Z/05/ZWellcome TrustUnited KingdomPubMedPubMed

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 corrections0

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

None in this release.

References37

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

OrderPMIDTitleJournalYearIn PapersSource
111,591,649SSAHA: a fast search method for large DNA databases.Genome Res2001https://conductscience.org/library/papers/11591649PubMed
215,054,488Fusion genes and rearranged genes as a linear function of chromosome aberrations in cancer.Nat Genet2004https://conductscience.org/library/papers/15054488PubMed
312,938,088Translocation and gross deletion breakpoints in human inherited disease and cancer I: Nucleotide composition and recombination-associated motifs.Hum Mutat2003https://conductscience.org/library/papers/12938088PubMed
49,462,753A novel ETV6-NTRK3 gene fusion in congenital fibrosarcoma.Nat Genet1998https://conductscience.org/library/papers/9462753PubMed
515,907,771Mechanism of DNA double-strand break repair by non-homologous end joining.DNA Repair (Amst)2005https://conductscience.org/library/papers/15907771PubMed
610,963,602Molecular portraits of human breast tumours.Nature2000https://conductscience.org/library/papers/10963602PubMed
716,446,704Unlocking pathology archives for molecular genetic studies: a reliable method to generate probes for chromogenic and fluorescent in situ hybridization.Lab Invest2006https://conductscience.org/library/papers/16446704PubMed
812,788,976End-sequence profiling: sequence-based analysis of aberrant genomes.Proc Natl Acad Sci U S A2003https://conductscience.org/library/papers/12788976PubMed
915,826,831ETV6: a versatile player in leukemogenesis.Semin Cancer Biol2005https://conductscience.org/library/papers/15826831PubMed
1012,127,394Coping with complexity. multivariate analysis of tumor karyotypes.Cancer Genet Cytogenet2002https://conductscience.org/library/papers/12127394PubMed

1 to 10 of 37

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Cited by470

The papers in our copy of PubMed whose reference list names this one, newest first. iCite, which reads more sources, counts 660 citations.

PMIDTitleJournalYearIn PapersSource
42,601,667Ionizing Radiation and Ultraviolet Light Irradiation-Associated DNA Damage Increasing Genomic Instability Risk.Cancer Sci2026https://conductscience.org/library/papers/42601667PubMed
42,375,369Integrated genomic and immunophenotypic profiling reveals monoclonal origin, smoking-driven evolution and heterogeneous microenvironment in pulmonary adenosquamous carcinoma.Front Immunol2026https://conductscience.org/library/papers/42375369PubMed
42,192,203NeoCircle: pre- and post-operative circulating tumor DNA dynamics predicts survival in neoadjuvant-treated early breast cancer.EMBO Mol Med2026https://conductscience.org/library/papers/42192203PubMed
42,135,449ESR1 fusion proteins in breast cancer: distinguishing oncogenic drivers from passenger events.Oncogene2026https://conductscience.org/library/papers/42135449PubMed
42,021,344SVScope improves somatic structural variations detection via graph-genome optimization.Genome Biol2026https://conductscience.org/library/papers/42021344PubMed
41,844,151Microhomology-mediated end joining acts directly on replication forks to repair single-ended double-strand breaks.Mol Cell2026https://conductscience.org/library/papers/41844151PubMed
41,784,675Breast cancer inequities: the intersectional role of social epidemiology and tumor biology.Cancer Causes Control2026https://conductscience.org/library/papers/41784675PubMed
41,674,664Leveraging a chromosomal instability-based signature to predict the prognosis and immune landscape of breast cancer.Genes Dis2026https://conductscience.org/library/papers/41674664PubMed
41,102,953Targeting Key Molecular Mechanisms in Triple-Negative Breast Cancer Therapies with Natural Compounds.Curr Pharm Des2026https://conductscience.org/library/papers/41102953PubMed
40,966,517Profiling BRCA1-BRCT interactions and their functional relevance at amino acid resolution.Nucleic Acids Res2025https://conductscience.org/library/papers/40966517PubMed

1 to 10 of 470

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Genes96

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

GeneNCBI Gene IDLinked byIn GenesSource
ABL125PubTator's text mininghttps://conductscience.org/library/genes/25NCBI Gene
ALK238PubTator's text mininghttps://conductscience.org/library/genes/238NCBI Gene
APC324PubTator's text mininghttps://conductscience.org/library/genes/324NCBI Gene
ASIC240PubTator's text mininghttps://conductscience.org/library/genes/40NCBI Gene
BRAF673PubTator's text mininghttps://conductscience.org/library/genes/673NCBI Gene
BRCA1672PubTator's text mininghttps://conductscience.org/library/genes/672NCBI Gene
BRCA2675PubTator's text mininghttps://conductscience.org/library/genes/675NCBI Gene
CADPS293,664PubTator's text mininghttps://conductscience.org/library/genes/93664NCBI Gene
CCNF899PubTator's text mininghttps://conductscience.org/library/genes/899NCBI Gene
CYTH19,267PubTator's text mininghttps://conductscience.org/library/genes/9267NCBI Gene

1 to 10 of 96

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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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