A question on GO annotations
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@narinder-singh-sahni-1912
Last seen 9.6 years ago
Hi, I have recently downloaded the dataset accompanying the 2002 article "A gene expression signature as a predictor of survival in breast cancer" by van De Vijver et al. published in the New England Journal of Medicine. There are a total of 24,496 spots on the array out of which 10,159 are contigs with unknown annotations, i.e. 41% of the total data are not annotated. The data set is now almost 4 years old. Have these contigs been annotated now, and if so where can I find information on them. Thanks in advance. Narinder S. Sahni
Survival Survival • 755 views
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@sean-davis-490
Last seen 12 weeks ago
United States
On Wednesday 18 October 2006 01:44, Narinder Singh Sahni wrote: > Hi, > > I have recently downloaded the dataset accompanying the 2002 article "A > gene expression signature as a predictor of survival in breast cancer" by > van De Vijver et al. published in the New England Journal of Medicine. > > There are a total of 24,496 spots on the array out of which 10,159 are > contigs with unknown annotations, i.e. 41% of the total data are not > annotated. > > The data set is now almost 4 years old. Have these contigs been annotated > now, and if so where can I find information on them. What are the accessions used? Genbank or IMAGE Clone ID? Sean
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@oosting-j-path-412
Last seen 9.6 years ago
I have used this dataset for a practical. The attached script shows how I have annotated the data using data that translates the contig to accession numbers and batchgenefinder to retrieve EntrezGene ids and Locuslink. I hope the comments are clear enough to help you on your way. Jan >I have recently downloaded the dataset accompanying the 2002 article "A gene expression signature as a predictor >survival in breast cancer" by van De Vijver et al. published in the New England Journal of Medicine. > >There are a total of 24,496 spots on the array out of which 10,159 are contigs with unknown annotations, i.e. 41% of the >total data are not annotated. > >The data set is now almost 4 years old. Have these contigs been annotated now, and if so where can I find information on >them.
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