January 2011
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Dave's article summary
He et al., 2011
He X, Zhang Y, Yu Z. An Mpeg (macrophage expressed gene) from the Pacific oyster Crassostrea gigas: molecular characterization and gene expression, Fish and Shellfish Immunology (2011), doi: 10.1016/j.fsi.2011.01.009
This study identifies and characterizes the macrophage expressed gene (Mpeg) in the pacific oyster which they have called Cg-Mpeg1. Unfortunately this article did...
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Joe Felsenstein speaks Monday, January 24th at 9am PST on “What poultry breeders and guinea pigs have to tell us about statistical nonmolecular phylogenetics”
Peer review: Trial by Twitter : Nature News →
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Not looking good
In this study both hard clams and bay scallops were exposed to 4 pCO2 conditions that included 250, 390, 750, and 1500ppm. Larvae were obtained from a local hatchery in New York and cultured in 1 liter beakers at an approximate density of 0.2/ml. Larve were fed T-sio and twice weekly larvae were gently poured onto a 64 um mesh so condition could be assessed and water changed. To discourage growth...
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from PAG poster
Reporting from warm & sunny SD
Plant & Animal Genome - Day 1
There were a number of highlights today, not the least of which is a new vocabulary word to put into your nerdy genomic lexicon, ready: isotigs. Familiarize yourself with this one, it feels like a running theme here already. For example, Paula Veronese’s talk entitled, ‘The Hidden Transcriptome in Plant-Microbe Interactions’, highlighted the...
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Oysterpedia iPhone App →
Watchnot a good start for the MS route
Neuroskeptic: The Wheel of Peer Review →
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I believe you will need a Windows Live Account.
Doc for test driving MS collaboration →
I believe you will need a Windows Live Account.
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Ocean Acidification at High Latitudes: Potential... →
Cummings et al. compared an Antarctic bivalve’s physiological response to three pCO2/pH levels corresponding to current Antarctic pH (7.99), pH in the year 2100 (7.78), and Antarctic pH 20,000 years ago (8.32). Their experiment lasted 120 days and they took mantle tissue for gene expression (HSP70 and chitin synthase, CSH) at day 21. Hsp70 expression was lowest at 7.99 and relatively...
Above and beyond the genes : UMNews →
epigenetics
Above and beyond the genes : UMNews →
epigenetics
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from PAG poster
WatchEmma’s SICB Presentation
Tip of the Week: Twitter in Bioinformatics →
NCBI-SRA: Pacific oyster 454 Data Released →
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Facing the Firehose
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Facing the Firehose
Rethinking the gene » Scienceline →
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Dave’s January Goals; Short sweet and to the...
1. Follow up on Oyster/Cu/Vt project started in class last quarter. Finish qPCR results and begin writing sections of the paper.
2. Come up with a game plan for the hard clam QPX samples. This is contingent on obtaining QPX data for the samples we have.
3. Get some gene expression data from the “tissue immersion” QPX experiment (This didnt have a name before but I’ll just stick to the...
