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FACADE : a fast and sensitive algorithm for the segmentation and calling of high resolution array CGH data
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Gain of 7p and loss of 8p have previously been reported to occur specifically in EGFR-mutated adenocarcinomas.
“While gain of 7p and loss of 8p have been previously reported to occur specifically in EGFR mutated adenocarcinomas16, 17, gain of 16p was a novel association.”
From Integrative Genomic Analyses Identifies GGA2 as a Cooperative Driver of EGFR-Mediated Lung Tumorigenesis (2019) · cites this paper as [16]
The Results and Discussion section evaluates FACADE using the BT474 breast-cancer cell line and describes a gain on chromosome 11p, not the claimed association. Searches for EGFR-mutated adenocarcinoma and gains of 7p or losses of 8p found no passage in our copy addressing that association. (LLM, conf=0.75)
Experimental — accuracy not yet measuredDUSP4 has been shown to suppress EGFRMUT LAC through negative feedback control of EGFR signaling, and its loss relieves this suppression, increasing cell growth.
“Likewise, DUSP4 has been shown to suppress EGFRMUT LAC through negative feedback control of EGFR signaling and its loss relieves this suppression, increasing cell growth16.”
From Integrative Genomic Analyses Identifies GGA2 as a Cooperative Driver of EGFR-Mediated Lung Tumorigenesis (2019) · cites this paper as [16]
DUSP4 encodes a dual-specificity phosphatase that downregulates EGFR signaling and has previously been identified as a potential cooperating tumor suppressor gene in EGFRMUT tumors.
“DUSP4 encodes a dual-specificity phosphatase that acts to downregulate EGFR signaling and has previously been identified as a potential cooperating tumor suppressor gene in EGFRMUT tumors16.”
From Integrative Genomic Analyses Identifies GGA2 as a Cooperative Driver of EGFR-Mediated Lung Tumorigenesis (2019) · cites this paper as [16]
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Research works printed but not linked: 23
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- Venkatraman, 2007, A faster circular binary segmentation algorithm for the analysis of array CGH data, Bioinformatics, 23, 657, 10.1093/bioinformatics/btl646 · DOI
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Cited by
Sorted by citations
Genome structural variation discovery and genotyping
Alkan, C., Coe, B. P., & Eichler, E. E. (2011) · Nature Reviews Genetics · doi:10.1038/nrg2958 · Cited by 1,630
Self-citationO’Farrell, H., Harbourne, B., Kurlawala, Z., Inoue, Y., Nagelberg, A. L., Martinez, V. D., Lu, D., Oh, M. H., Coe, B. P., Thu, K. L., et al. (2019) · Journal of Thoracic Oncology · doi:10.1016/j.jtho.2018.12.004 · Cited by 23
Self-citation
Metadata
- Authors
- Coe, B. P., Chari, R., MacAulay, C., & Lam, W. L.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2010-06-15
- Volume
- 38
- Issue
- 15
- Pages
- e157-e157
- ISSN
- 1362-4962
- 0305-1048
- PMC
- PMC2926625
- Cited by
- 14
- References
- 0
- Language
- en
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