Magdalena Skipper @Magda_Skipper5m
Out last Thursday, a News Feature – Privacy protections: The genome hacker @NatureNews @erlichya
http://www.nature.com/news/privacy-protections-the-genome-hacker-1.12940
Posts Tagged ‘#genomics’
Privacy protections: The genome hacker : Nature News & Comment
May 13, 2013Criteria for inference of chromothripsis in cancer genomes Cell. 2013 – PubMed – NCBI
May 11, 2013the shattering of chromosomes, w. 7 criteriaKorbel & Campbell
Collections of Simultaneously Altered Genes as Biomarkers of Cancer Cell Drug Response
May 6, 2013http://cancerres.aacrjournals.org/content/73/6/1699.long
Nice use of CCLE dataset which is an improvement over NCI-60
Some interesting mutation assessor tools featured at Automated Personal Genome Analysis
May 6, 2013CRAVAT
Cancer-Related Analysis of VAriants Toolkit
http://www.cravat.us/
Carter H, Douville C, Yeo G, Stenson PD, Cooper DN, Karchin R (2013) Identifying Mendelian disease genes with the Variant Effect Scoring Tool
BMC Genomics. In press
VAAST
http://www.yandell-lab.org/software/vaast.html
(explicit acknowledgement of VAT)
CHASM and SNVBox:
toolkit for detecting biologically important single nucleotide mutations in cancer.
http://www.ncbi.nlm.nih.gov/pubmed/21685053
http://www.chasmsoftware.org
Vogelstein v. Lander, Round 1
May 6, 2013http://ecerami.github.io/vogelstein-v-lander-round1.html
Short list of 140 drivers v an ever growing list
Science. 2013 Mar 29;339(6127):1546-58. doi: 10.1126/science.1235122. Cancer genome landscapes.
Vogelstein B, Papadopoulos N, Velculescu VE, Zhou S, Diaz LA Jr, Kinzler KW. QT:”
To date, these studies have revealed ~140 genes that, when altered by intragenic mutations, can promote or “drive” tumorigenesis. A typical tumor contains two to eight of these “driver gene” mutations; the remaining mutations are passengers that confer no selective growth advantage. Driver genes can be classified into 12 signaling pathways that regulate three core cellular processes: cell fate, cell survival, and genome maintenance.
”
Lessons from the Cancer Genome
http://www.cell.com/abstract/S0092-8674(13)00288-2
QT:”
Systematic studies of the cancer genome have exploded in recent years. These studies have revealed scores of new cancer genes, including many in processes not previously known to be causal targets in cancer. “
Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNA
May 4, 2013Patients’ Genes Seen as Future of Cancer Care – NYTimes.com
April 29, 2013http://www.nytimes.com/2013/04/22/health/patients-genes-seen-as-future-of-cancer-care.html Features new WCMC Belfer building
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