Posts Tagged ‘mrs’
interesting perspective on cancer research in wsj + upcoming book
Wednesday, October 9th, 2019The focus is on improving detection vs. treatment of late stage disease.
https://www.wsj.com/articles/cancer-is-still-beating-uswe-need-a-new-start-11570206319
genome-wide starr-seq + sources of experimental bias
Monday, August 13th, 2018quite relevant
https://www.nature.com/articles/nmeth.4534
Resolving systematic errors in widely used enhancer activity assays in human cells
Felix Muerdter
, Łukasz M Boryń
, Ashley R Woodfin
, Christoph Neumayr
, Martina Rath
, Muhammad A Zabidi
, Michaela Pagani
, Vanja Haberle
, Tomáš Kazmar
, Rui R Catarino
, Katharina Schernhuber
, Cosmas D Arnold
& Alexander Stark
Nature Methods volume 15, pages141–149 (2018)
Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay: Cell
Thursday, August 18th, 2016Identification of…expr.-Modulating Variants using #MPRA, by @sabeti_lab http://www.cell.com/cell/fulltext/S0092-8674(16)30421-4 Some w. allelic skew related to PWM change
Learning the Sequence Determinants of Alternative Splicing from Millions of Random Sequences: Cell
Sunday, April 24th, 2016Learning the…Determinants of Alternative #Splicing [in a largely linear model] from Millions of Random Sequences
http://www.cell.com/cell/abstract/S0092-8674(15)01271-4
** Rosenberg et al Cell. 2015
Builds a model of splicing using a library of randomized sequence Also, builds a generalized model for predicting effect of a SNP in the Geuvadis RNAseq
7mer model does well with lots of data
Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study : Nature Biotechnology : Nature Publishing Group
Friday, October 10th, 2014Multiplatform assessment of #transcriptome profiling [w.] RNAseq http://www.nature.com/nbt/journal/v32/n9/full/nbt.2972.html Nice plots showing great effect of poly-A selection