Try gene name "RYR1" for testing... -----Original Message----- From: Jennifer Jackson [mailto:[email protected]] Sent: Wednesday, May 12, 2010 10:22 PM To: Yongsheng Bai Cc: Antonio Coelho Subject: Re: Fwd: Re: GenBank ID in your PNAS paper?
Hello YB, Perhaps there is a mix-up about which IDs are being referred to now, since we have discussed several datasets. In the most recent list of IDs you sent, they do not appear to be mouse, example sequence AB004856. But if you are able to find them in other public datasets as mouse, then those are sources that you should consider using. http://www.ncbi.nlm.nih.gov:80/nuccore/3036932 The other list of IDs you sent do appear to be mouse, example sequence M18228 (MGI identifier linked to a Genbank sequence that is not a RefSeq).. http://www.informatics.jax.org/javawi2/servlet/WIFetch?page=sequenceDetail&i d=M18228 http://www.ncbi.nlm.nih.gov:80/nuccore/192496?report=genbank Your original email subject "download hg18 genomic sequences" asked about human data and in subsequent questions the UCSC Genes track table knownToLocusLink was confirmed to have Entrez data labeled as LocusLink (legacy label). We do not store the Entrez Gene ID in the UCSC Genbank tables. The Genbank data represented in the UCSC Genes track table knownToLocusLink is the only source for Entrez Gene IDs - and it is only for RefSeq sequences incorporated into the UCSC Genes track. It is now clear that using GenBank data at NCBI directly is the best solution for your query. We apologize for any inconvenience this may cause you, Best wishes for your research project, Jennifer --------------------------------- Jennifer Jackson UCSC Genome Informatics Group http://genome.ucsc.edu/ On 5/12/10 3:26 PM, Yongsheng Bai wrote: > > Hi Jennifer, > > This is the reply from the author. They are mouse GenBank IDs... > > -------- Original Message -------- > > Subject: Re: GenBank ID in your PNAS paper? > Date: Wed, 12 May 2010 11:22:28 -0500 > From: "Jay Horton" <[email protected]> > To: <[email protected]> > > @page Section1 {size: 8.5in 11.0in; margin: 1.0in 1.25in 1.0in 1.25in; } > P.MsoNormal { MARGIN: 0in 0in 0pt; FONT-FAMILY: "Times New Roman"; > FONT-SIZE: 12pt } LI.MsoNormal { MARGIN: 0in 0in 0pt; FONT-FAMILY: > "Times New Roman"; FONT-SIZE: 12pt } DIV.MsoNormal { MARGIN: 0in 0in > 0pt; FONT-FAMILY: "Times New Roman"; FONT-SIZE: 12pt } A:link { COLOR: > blue; TEXT-DECORATION: underline } SPAN.MsoHyperlink { COLOR: blue; > TEXT-DECORATION: underline } A:visited { COLOR: purple; TEXT-DECORATION: > underline } SPAN.MsoHyperlinkFollowed { COLOR: purple; TEXT-DECORATION: > underline } SPAN.EmailStyle17 { FONT-FAMILY: Arial; COLOR: windowtext; > mso-style-type: personal-compose } DIV.Section1 { page: Section1 } > > yes > > ----- Original Message ----- > *From:* Yongsheng Bai <mailto:[email protected]> > *To:* [email protected] > <mailto:[email protected]> > *Cc:* [email protected] > <mailto:[email protected]> > *Sent:* Wednesday, May 12, 2010 9:56 AM > *Subject:* GenBank ID in your PNAS paper? > > Hi Jay, > > Could you please let me know whether the symbols in the 2^nd column > of suppl. table 5 in your PNAS paper (vol.100 pp.12027-12032) > titled as ?Combined analysis of oligonucleotide?? are all mouse > GenBank IDs? > > Thanks, > > YB > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
