In light of NGS, shall we call it "genome profiling" to expand the work from 'gene expression'? "genome profiling" can also include the work of SNP identification etc. -Simon
From: Ra [mailto:[email protected]] Sent: Monday, September 10, 2012 11:35 AM To: Helena Deus Cc: Michel Dumontier; [email protected]; Michael Miller; HCLS; [email protected]; Lin MD, Simon Subject: Re: Expression RDF note I can provide support for ngs. Currently I'm working on RnaSeq and our lab start from raw samples so I have the chance, I'm sure you too, to have an overview of the compete production of the data. To better understand my topics the page of the lab http://www.ingm.org/research/researchprojects/ib if you have any question please feel free to drop an email. I also worked on bacteria assembly SNP and ancient DNA. Chip seq is in plan. Il giorno 10/set/2012 18:24, "Helena Deus" <[email protected]<mailto:[email protected]>> ha scritto: All, we discussed, at some point, that NGS data should be supported by the note. should we call it transcriptomic representation note instead? both the term "gene expression" and the note itself are still associated with microarrays, a completelly different strategy from NGS. but both are related to transcriptomics. Best Lena Helena F. Deus, PhD Unit Leader, Bioinformatics and Computational Biology Digital Enterprise Research Institute [email protected]<mailto:[email protected]> +353 91 495 270<tel:%2B353%2091%20495%20270> On Sep 10, 2012, at 5:13 PM, Lin MD, Simon wrote: The W3C gene expression note is also of interest to me. I would be happy to contribute a use case of Gene Screening from Next Generation Sequencing. What is the time line of this project? I might not be able to work on it much till the end of Sept. With regard to meetings, I am open and flexible. Thanks! -Simon ================================================== Simon Lin, MD | Director, Biomedical Informatics Research Center | Marshfield Clinic Research Foundation | 1000 N Oak Ave, Marshfield, WI 54449 | 715-221-7299 | [email protected]<mailto:[email protected]> |www.marshfieldclinic.org/birc<http://www.marshfieldclinic.org/birc> For scheduling assistance, please contact Crystal Gumz, Administrative Secretary | 715-221-6403 |[email protected]<mailto:[email protected]> From: Michel Dumontier [mailto:[email protected]<mailto:[email protected]>] Sent: Monday, September 10, 2012 10:56 AM To: Michael Miller Cc: HCLS; [email protected]<mailto:[email protected]>; [email protected]<mailto:[email protected]>; [email protected]<mailto:[email protected]> Subject: Expression RDF note Hi, While I was at a very productive BioHackathon, Raoul and Chisato (cc'd) expressed interest in the W3C gene expression note. https://docs.google.com/document/d/1A5-3tOsifPWPpETBKU-ZA9d7O7wK_nBzTFUBEe-0Bzo/edit?authkey=CK-y8Y8C&authkey=CK-y8Y8C I'm now teaching every Monday between 10am and 11:30am EDT, so I would prefer that the time be changed for me to participate. However, with participants in North America, Europe and Japan, our scheduling may become significantly more challenging. Suggestions? m. -- Michel Dumontier Associate Professor of Bioinformatics, Carleton University Chair, W3C Semantic Web for Health Care and the Life Sciences Interest Group http://dumontierlab.com ________________________________ The contents of this message may contain private, protected and/or privileged information. If you received this message in error, you should destroy the e-mail message and any attachments or copies, and you are prohibited from retaining, distributing, disclosing or using any information contained within. Please contact the sender and advise of the erroneous delivery by return e-mail or telephone. Thank you for your cooperation. ______________________________________________________________________ The contents of this message may contain private, protected and/or privileged information. If you received this message in error, you should destroy the e-mail message and any attachments or copies, and you are prohibited from retaining, distributing, disclosing or using any information contained within. Please contact the sender and advise of the erroneous delivery by return e-mail or telephone. Thank you for your cooperation.
