The Exomes of the NCI-60 Panel: A Genomic Resource for Cancer Biology and Systems Pharmacology
Cancer Res July 15, 2013 73:4372-4382; Published OnlineFirst July 15, 2013; http://cancerres.aacrjournals.org/content/73/14/4372.long
Posts Tagged ‘cancer’
The Exomes of the NCI-60 Panel: A Genomic Resource for Cancer Biology and Systems Pharmacology
July 20, 2013Skin Cancer on the Rise in Young Women – NYTimes.com
July 14, 2013http://well.blogs.nytimes.com/2013/07/05/skin-cancer-on-the-rise-in-young-women
Deciding how much sun you want… is like asking how much cyanide you want: @nytimes on skin cancer http://bit.ly/15slMNB via @BlossomJar
QT:’
Even a few sunburns can significantly raise your risk of skin cancer, Dr. Brewer said.
“Deciding how much sun you want to get is like asking how much cyanide you want in your breakfast cereal,” he said. “There is no amount of tan that is healthy.”
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Mutational heterogeneity in cancer and the search for new cancer-associated genes : Nature : Nature Publishing Group
June 17, 2013Accounting for mutational heterogeneity in identifying cancer genes… MutSigCV by @broadinstitute via @notSoJunkDNA: http://bit.ly/14EPvVx http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12213.html doi:10.1038/nature12213
cancer drivers identification
June 8, 2013Integrated analysis of recurrent properties of cancer genes to identify novel drivers
Criteria 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.
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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. “
linkstream2 microblog 