Posts Tagged ‘from’

Dissertation regulations

March 7, 2015

The Yale graduate school regulations governing dissertations includes a paragraph that indicates that only two dissertation committee members need Yale appointments:

QT:{{
“Registered doctoral candidates must have a principal adviser with an appointment on the Graduate School faculty. The Graduate School requires that each dissertation be read by at least three persons but not more than five, at least two of whom are ladder or ladder-track faculty members at Yale. All readers must hold the Ph.D. degree as well as a faculty position or be considered otherwise qualified to evaluate the dissertation…”
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http://www.yale.edu/printer/bulletin/htmlfiles/grad/policies-and-regulations.html#dissertation

Private Link by bitly

March 4, 2015

http://blog.bitly.com/post/31527664770/public-and-private-whats-the-difference

Genotype to phenotype relationships in autism spectrum disorders : Nature Neuroscience : Nature Publishing Group

February 26, 2015

Genotype to phenotype relationships in ASD http://www.nature.com/neuro/journal/v18/n2/abs/nn.3907.html Expression differences in #brain development for LOF-containing, M v F, &c

Also, netbag finds subnets assoc w autism

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

February 21, 2015

Human & mouse [mRNA] #methylomes revealed by m6A-seq http://www.nature.com/nature/journal/v485/n7397/full/nature11112.html Conservation across species & conditions (for most sites)

Dan Dominissini,
Sharon Moshitch-Moshkovitz,
Schraga Schwartz,
…
Rotem Sorek
& Gideon Rechavi

Nature 485, 201–206 (10 May 2012) doi:10.1038/nature11112

High-resolution mapping reveals a conserved, widespread, dynamic meiotically regulated mRNA methylation program

February 21, 2015

High-res mapping reveals a conserved…mRNA methylation program http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3956118/ Predicting methyl sites w/ seq., structure & position

Cell. 2013 Dec 5; 155(6): 1409–1421.
Published online 2013 Nov 21. doi: 10.1016/j.cell.2013.10.047 PMCID: PMC3956118
NIHMSID: NIHMS550466

High-resolution mapping reveals a conserved, widespread, dynamic meiotically regulated mRNA methylation program

Schraga Schwartz,1,* Sudeep D. Agarwala,2,* Maxwell R. Mumbach,1 Marko Jovanovic,1 Philipp Mertins,1 Alexander Shishkin,1 Yuval Tabach,3,4 Tarjei S Mikkelsen,1 Rahul Satija,1 Gary Ruvkun,3,4 Steven A. Carr,1 Eric S. Lander,1,5,6 Gerald R. Fink,1,2,8 and Aviv Regev 1,7,8

Automated analysis of high-throughput B-cell sequencing data reveals a high frequency of novel immunoglobulin V gene segment alleles

February 17, 2015

Analysis of high-throughput B-cell sequencing
http://www.pnas.org/content/early/2015/02/05/1417683112.abstract Successful locus-level application of #personalgenome construction

wifi issues

February 13, 2015

http://osxdaily.com/2015/01/27/os-x-10-10-2-yosemite-released-mac-bug-fixes/

What makes art popular?

February 7, 2015

What Makes Art Popular?…Luck & #Opinion of Others
http://www.fastcocreate.com/3027193/what-makes-art-popular-science-says-its-luck-and-the-opinion-of-others Author buys 15k copies of his book to create a bestseller

PLOS Genetics: A Massively Parallel Pipeline to Clone DNA Variants and Examine Molecular Phenotypes of Human Disease Mutations

February 7, 2015

Massively Parallel Pipeline to Clone DNA Variants & Examine…Disease
Mutations http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1004819 CloneSeq leverages NextGen sequencing

With the advance of sequencing technologies, tens of millions of genomic variants have been discovered in the human population. However, there is no available method to date that is capable of determining the functional impact of these variants on a large scale, which has increasingly become a huge bottleneck for the development of population genetics and personal genomics. Clone-seq and comparative interactome-profiling pipeline is a first to address this issue.

Can be coupled to many readouts.

Price AL, Kryukov GV, de Bakker PI, Purcell SM, Staples J, Wei LJ, Sunyaev SR. Pooled association tests for rare variants in exon-resequencing studies. American Journal of Human Genetics (2010) 86: 832-838.

February 1, 2015

Pooled association tests for rare variants in exon-resequencing http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3032073 Simulation shows advantage of mult. rarity thresholds

Price AL, Kryukov GV, de Bakker PI, Purcell SM, Staples J, Wei LJ,
Sunyaev SR. Pooled association tests for rare variants in
exon-resequencing studies. American Journal of Human Genetics (2010)
86: 832-838.

SUMMARY

Multiple studies indicate strong association between rare variants and
resulting phenotype. This paper describes a population-genetics
simulation framework to study the influence of variant allele
frequency on the corresponding phenotype. In a prior study, causal
relationship between variants and phenotype was resolved by performing
association test on set of variants having allele frequency below a
fixed threshold. However, here it is observed that simulation
frameworks based on a variable allele frequency threshold provide
higher accuracy in association test compared to the fixed allele
frequency model. In addition, inclusion of predicted functional
effects of variants (Polyphen-2 scores) increases the accuracy of the
variable frequency threshold model. Overall, this paper describes a novel methodology, which can be
used to explore the association between rare variants and various
diseases.