Paul Zumbo
Paul Zumbo
Senior Staff Associate of Computational Genomics, Weill Cornell Medical College
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Comprehensive analysis of mRNA methylation reveals enrichment in 3′ UTRs and near stop codons
KD Meyer, Y Saletore, P Zumbo, O Elemento, CE Mason, SR Jaffrey
Cell 149 (7), 1635-1646, 2012
Genetic diagnosis by whole exome capture and massively parallel DNA sequencing
M Choi, UI Scholl, W Ji, T Liu, IR Tikhonova, P Zumbo, A Nayir, ...
Proceedings of the National Academy of Sciences 106 (45), 19096-19101, 2009
Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data
F Rapaport, R Khanin, Y Liang, M Pirun, A Krek, P Zumbo, CE Mason, ...
Genome biology 14 (9), 1-13, 2013
A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium
SEQC Consortium
Nature biotechnology 32 (9), 903, 2014
Detecting and correcting systematic variation in large-scale RNA sequencing data
S Li, PP Łabaj, P Zumbo, P Sykacek, W Shi, L Shi, J Phan, PY Wu, ...
Nature biotechnology 32 (9), 888-895, 2014
Sex-specific and lineage-specific alternative splicing in primates
R Blekhman, JC Marioni, P Zumbo, M Stephens, Y Gilad
Genome research 20 (2), 180-189, 2010
Relapse-specific mutations in NT5C2 in childhood acute lymphoblastic leukemia
JA Meyer, J Wang, LE Hogan, JJ Yang, S Dandekar, JP Patel, Z Tang, ...
Nature genetics 45 (3), 290, 2013
TOX is a critical regulator of tumour-specific T cell differentiation
AC Scott, F Dündar, P Zumbo, SS Chandran, CA Klebanoff, M Shakiba, ...
Nature 571 (7764), 270-274, 2019
Geospatial resolution of human and bacterial diversity with city-scale metagenomics
E Afshinnekoo, C Meydan, S Chowdhury, D Jaroudi, C Boyer, N Bernstein, ...
Cell systems 1 (1), 72-87, 2015
Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study
S Li, SW Tighe, CM Nicolet, D Grove, S Levy, W Farmerie, A Viale, ...
Nature biotechnology 32 (9), 915-925, 2014
A hybrid mechanism of action for BCL6 in B cells defined by formation of functionally distinct complexes at enhancers and promoters
K Hatzi, Y Jiang, C Huang, F Garrett-Bakelman, MD Gearhart, ...
Cell reports 4 (3), 578-588, 2013
An optimized algorithm for detecting and annotating regional differential methylation
S Li, FE Garrett-Bakelman, A Akalin, P Zumbo, R Levine, BL To, ID Lewis, ...
BMC bioinformatics 14 (5), 1-9, 2013
The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics
L Pipes, S Li, M Bozinoski, R Palermo, X Peng, P Blood, S Kelly, ...
Nucleic acids research 41 (D1), D906-D914, 2013
Genome-scale screens identify JNK–JUN signaling as a barrier for pluripotency exit and endoderm differentiation
QV Li, G Dixon, N Verma, BP Rosen, M Gordillo, R Luo, C Xu, Q Wang, ...
Nature genetics 51 (6), 999-1010, 2019
Mining the archives: a cross-platform analysis of gene expression profiles in archival formalin-fixed paraffin-embedded tissues
AF Webster, P Zumbo, J Fostel, J Gandara, SD Hester, L Recio, ...
Toxicological Sciences 148 (2), 460-472, 2015
Introduction to differential gene expression analysis using RNA-seq
F Dündar, L Skrabanek, P Zumbo
Appl. Bioinformatics, 1-67, 2015
Adaptable haemodynamic endothelial cells for organogenesis and tumorigenesis
B Palikuqi, DHT Nguyen, G Li, R Schreiner, AF Pellegata, Y Liu, ...
Nature 585 (7825), 426-432, 2020
Standardizing the next generation of bioinformatics software development with BioHDF (HDF5)
CE Mason, P Zumbo, S Sanders, M Folk, D Robinson, R Aydt, M Gollery, ...
Advances in Computational Biology, 693-700, 2010
Features of circulating parainfluenza virus required for growth in human airway
LM Palermo, M Uppal, L Skrabanek, P Zumbo, S Germer, NC Toussaint, ...
MBio 7 (2), 2016
Modern methods for delineating metagenomic complexity
E Afshinnekoo, C Meydan, S Chowdhury, D Jaroudi, C Boyer, N Bernstein, ...
Cell systems 1 (1), 6-7, 2015
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