Athma Pai
Athma Pai
Assistant Professor, UMass Chan Medical School
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Understanding mechanisms underlying human gene expression variation with RNA sequencing
JK Pickrell, JC Marioni, AA Pai, JF Degner, BE Engelhardt, E Nkadori, ...
Nature 464 (7289), 768-772, 2010
DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines
JT Bell, AA Pai, JK Pickrell, DJ Gaffney, R Pique-Regi, JF Degner, Y Gilad, ...
Genome biology 12 (1), R10, 2011
NOTCH2 mutations cause Alagille syndrome, a heterogeneous disorder of the notch signaling pathway
R McDaniell, DM Warthen, PA Sanchez-Lara, A Pai, ID Krantz, DA Piccoli, ...
The American Journal of Human Genetics 79 (1), 169-173, 2006
DNase I sensitivity QTLs are a major determinant of human expression variation
JF Degner, AA Pai, R Pique-Regi, JB Veyrieras, DJ Gaffney, JK Pickrell, ...
Nature 482 (7385), 390-394, 2012
Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data
R Pique-Regi, JF Degner, AA Pai, DJ Gaffney, Y Gilad, JK Pritchard
Genome research 21 (3), 447-455, 2011
Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data
JF Degner, JC Marioni, AA Pai, JK Pickrell, E Nkadori, Y Gilad, ...
Bioinformatics 25 (24), 3207, 2009
RNA-seq: impact of RNA degradation on transcript quantification
I Gallego Romero, AA Pai, J Tung, Y Gilad
BMC biology 12, 1-13, 2014
Noisy splicing drives mRNA isoform diversity in human cells
JK Pickrell, AA Pai, Y Gilad, JK Pritchard
PLoS genetics 6 (12), e1001236, 2010
Controls of nucleosome positioning in the human genome
DJ Gaffney, G McVicker, AA Pai, YN Fondufe-Mittendorf, N Lewellen, ...
PLoS genetics 8 (11), e1003036, 2012
Deciphering the genetic architecture of variation in the immune response to Mycobacterium tuberculosis infection
LB Barreiro, L Tailleux, AA Pai, B Gicquel, JC Marioni, Y Gilad
Proceedings of the National Academy of Sciences 109 (4), 1204-1209, 2012
Dissecting the regulatory architecture of gene expression QTLs
DJ Gaffney, JB Veyrieras, JF Degner, R Pique-Regi, AA Pai, GE Crawford, ...
Genome biology 13, 1-15, 2012
A genome-wide study of DNA methylation patterns and gene expression levels in multiple human and chimpanzee tissues
AA Pai, JT Bell, JC Marioni, JK Pritchard, Y Gilad
PLoS genetics 7 (2), e1001316, 2011
Bacterial infection remodels the DNA methylation landscape of human dendritic cells
A Pacis, L Tailleux, AM Morin, J Lambourne, JL MacIsaac, V Yotova, ...
Genome research 25 (12), 1801-1811, 2015
The genetic and mechanistic basis for variation in gene regulation
AA Pai, JK Pritchard, Y Gilad
PLoS genetics 11 (1), e1004857, 2015
A divalent siRNA chemical scaffold for potent and sustained modulation of gene expression throughout the central nervous system
JF Alterman, BMDC Godinho, MR Hassler, CM Ferguson, D Echeverria, ...
Nature biotechnology 37 (8), 884-894, 2019
The contribution of RNA decay quantitative trait loci to inter-individual variation in steady-state gene expression levels
AA Pai, CE Cain, O Mizrahi-Man, S De Leon, N Lewellen, JB Veyrieras, ...
Public Library of Science 8 (10), e1003000, 2012
Widespread shortening of 3’untranslated regions and increased exon inclusion are evolutionarily conserved features of innate immune responses to infection
AA Pai, G Baharian, A Pagé Sabourin, JF Brinkworth, Y Nédélec, ...
PLoS genetics 12 (9), e1006338, 2016
The kinetics of pre-mRNA splicing in the Drosophila genome and the influence of gene architecture
AA Pai, T Henriques, K McCue, A Burkholder, K Adelman, CB Burge
elife 6, e32537, 2017
Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters
Y Chen, AA Pai, J Herudek, M Lubas, N Meola, AI Järvelin, R Andersson, ...
Nature genetics 48 (9), 984-994, 2016
Self-inactivating, all-in-one AAV vectors for precision Cas9 genome editing via homology-directed repair in vivo
R Ibraheim, PWL Tai, A Mir, N Javeed, J Wang, TC Rodríguez, ...
Nature communications 12 (1), 6267, 2021
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