Methods

The lists below are collections of cancer related genes that were used to generate a comprehensive list (allOnco) that is comprised of the union of all lists. For each of the component lists, the table below indicates the composition and origin of each. For cancer genes identified in organisms other than human, the nearest human homologs were identified and added to the allOnco list. All lists have been reconciled with current HGNC or NCBI gene IDs where outdated synonyms were used. If we used your list please help us both by checking our interpretations.

Set Descriptions

Set Size Species Description Link Citation
Atlas 989 human "Genes: hybrid gene found in at least one cancer case, or gene amplification or homozygous deletion found in a significant subset of cases in a given cancer-type." http://atlasgeneticsoncology.org Huret JL, Minor SL, Dorkeld F, Dessen P, Bernheim A. Atlas of genetics and cytogenetics in oncology and haematology, an interactive database.
Nucleic Acids Res. 2000 Jan 1;28(1):349-51.
CANgenes 189 human 191 common genes that were mutated at significant frequency in all tumors of human breast and colorectal cancers. http://www.sciencemag.org/.../1133427_som_tables.zip The consensus coding sequences of human breast and colorectal cancers.
Science. 2006 Oct 13;314(5797):268-74
CIS (RTCGD) 587 multiple Retroviral insertional mutagenesis in mouse hematopoietic tumors. http://variation.osu.edu/rtcgd/ Akagi K, Suzuki T, Stephens RM, Jenkins NA, Copeland NG. RTCGD: retroviral tagged cancer gene database.
Nucleic Acids Res. 2004 Jan 1;32(Database issue):D523-7.
Human Lymphoma 38 human A list of lymphoid-specific oncogenes compiled by Marina Cavazzana-Calvo and colleagues humanLymph (tsv /xls) N/A
Miscellaneous 187 multiple From Cold Spring Harbor Retroviruses Chapter on Oncogenes, an early version of the CIS database, a list from Dr. Tony Hunter, and misc. additions from the literature. Miscellaneous (tsv /xls) Retroviruses, Coffin et al., ed. Cold Spring Harbor Press, Cold Spring Harbor, NY
Sanger 452 human Compilation from literature: "genes that are mutated and causally implicated in cancer development" http://www.sanger.ac.uk/genetics/CGP/Census/ Futreal PA, Coin L, Marshall M, Down T, Hubbard T, Wooster R, Rahman N,
Nucl. Acids Res. (2007) 35 (suppl 1): D721-D726. doi: 10.1093/nar/gkl811
Vogelstein 420 human Cancer genes related to chromosomal breakpoints http://www.sciencemag.org/content/339/6127/1546.full Vogelstein B, Papadopoulos N, Velculescu VE, Zhou S, Diaz LA Jr, Kinzler KW.
Science. 2013 Mar 29;339(6127):1546-58. doi: 10.1126/science.1235122.

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