Where do I find gene sequences of cancer genes? I know cancer datasets are restrictive, but can we find the nucleotide sequences of the genes that cause cancer? I would explain a bit more what I am trying to do
Say I have a mutation in BRCA1 at location x. Now how do I find the sequence of BRCA1 gene such that I can look at the neighborhood of location x instead of downloading the whole genome?
2 answers
You can use ENSEMBL genome viewer . Example with BRCA1 : http://www.ensembl.org/Homo_sapiens/Location/View?db=core;g=ENSG00000012048;r=17:43044295-43170245
You can search for gene or genomic region/position
One follow up question. So the link that you shared has the BRCA1 gene in chr17 from location 43,044,295-43,170,245 but in the cancer gene census as suggested by @genomax has BRCA1 gene from location 43045678..43124096 (link: https://cancer.sanger.ac.uk/cosmic/gene/analysis?ln=BRCA1).
Why does this difer?
How about COSMIC census?
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use ensembl or UCSC or NCBI genome browsers for gene of interest (here BRCA1)