A thousand clones...
Hey Readers:
Following is the latest article about my project which appeared on my company website's blog. We have now finished the complete study and analysis of annotating the Incyte Gene Collection and have discovered 1072 novel genes which are not available in any other commercial collections.
Here is the article:
A thousand clones
To be exact,1072. That is the number of human Incyte Gene Collection (IGC) clones that we found to contain an exact match to an entire RefSeq CDS (January 6, 2006 release), but for which there is no exact match to an MGC clone (February 23, 2006 release). At the risk of sounding self-congratulatory: I told you so! (See previous blog.)In this collection, which I will refer to as the IGC Non-MGC Set, you will find both novel clones and NOVEL CLONES. In many cases, there are one or more close MGC counterparts that differ from the IGC/RefSeq sequence by only one or two base pairs. Some may well be legitimate single nucleotide polymorphisms (SNPs) that did not have the good fortune to be included in RefSeq. These may or may not be functionally distinct from the IGC clone. In other cases, the closest MGC counterpart is a splice variant of the IGC/RefSeq sequence and likely codes for a polypeptide with a distinct function. In still other cases, there is no MGC counterpart within the same UniGene cluster.Never mind all that, you might be thinking with some impatience. How many druggable genes are there? I have not yet attempted grouping into gene families, but I did quickly spot some caspases, cytochrome p450s, and an adenylate cyclase. I encourage you to have a look for yourself by downloading the new spreadsheet from our website by again navigating to Genomics > Mammalian Resources > cDNAs > Incyte Gene Collection and clicking on the data file icon under the ordering information for IHS1380. You will note that there are actually 1135 line items, because there are sometimes multiple RefSeq accessions corresponding to the same CDS.By the way, all of the IGC clones containing an exact match to an entire RefSeq CDS (a total of 4116 clones) can now be found using our online clone query when searching by RefSeq accession, gene symbol, or UniGene cluster. So next time you search on our website, you are even more likely to turn up a useful clone. More to come…
Following is the latest article about my project which appeared on my company website's blog. We have now finished the complete study and analysis of annotating the Incyte Gene Collection and have discovered 1072 novel genes which are not available in any other commercial collections.
Here is the article:
A thousand clones
To be exact,1072. That is the number of human Incyte Gene Collection (IGC) clones that we found to contain an exact match to an entire RefSeq CDS (January 6, 2006 release), but for which there is no exact match to an MGC clone (February 23, 2006 release). At the risk of sounding self-congratulatory: I told you so! (See previous blog.)In this collection, which I will refer to as the IGC Non-MGC Set, you will find both novel clones and NOVEL CLONES. In many cases, there are one or more close MGC counterparts that differ from the IGC/RefSeq sequence by only one or two base pairs. Some may well be legitimate single nucleotide polymorphisms (SNPs) that did not have the good fortune to be included in RefSeq. These may or may not be functionally distinct from the IGC clone. In other cases, the closest MGC counterpart is a splice variant of the IGC/RefSeq sequence and likely codes for a polypeptide with a distinct function. In still other cases, there is no MGC counterpart within the same UniGene cluster.Never mind all that, you might be thinking with some impatience. How many druggable genes are there? I have not yet attempted grouping into gene families, but I did quickly spot some caspases, cytochrome p450s, and an adenylate cyclase. I encourage you to have a look for yourself by downloading the new spreadsheet from our website by again navigating to Genomics > Mammalian Resources > cDNAs > Incyte Gene Collection and clicking on the data file icon under the ordering information for IHS1380. You will note that there are actually 1135 line items, because there are sometimes multiple RefSeq accessions corresponding to the same CDS.By the way, all of the IGC clones containing an exact match to an entire RefSeq CDS (a total of 4116 clones) can now be found using our online clone query when searching by RefSeq accession, gene symbol, or UniGene cluster. So next time you search on our website, you are even more likely to turn up a useful clone. More to come…
posted by Puneet Wadhwa at
10:46 AM
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