Bo Li
Bo Li
Assistant Investigator, Center for Immunology & Inflammatory Diseases, Massachusetts General
Verified email at broadinstitute.org - Homepage
TitleCited byYear
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
B Li, CN Dewey
BMC bioinformatics 12 (1), 323, 2011
68372011
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
BJ Haas, A Papanicolaou, M Yassour, M Grabherr, PD Blood, J Bowden, ...
Nature protocols 8 (8), 1494, 2013
36532013
RNA-Seq gene expression estimation with read mapping uncertainty
B Li, V Ruotti, RM Stewart, JA Thomson, CN Dewey
Bioinformatics 26 (4), 493-500, 2010
7822010
Evaluation of de novo transcriptome assemblies from RNA-Seq data
B Li, N Fillmore, Y Bai, M Collins, JA Thomson, R Stewart, CN Dewey
Genome biology 15 (12), 553, 2014
1762014
Discovering transcription factor binding sites in highly repetitive regions of genomes with multi-read analysis of ChIP-Seq data
D Chung, PF Kuan, B Li, R Sanalkumar, K Liang, EH Bresnick, C Dewey, ...
PLoS computational biology 7 (7), 2011
802011
STAR-Fusion: fast and accurate fusion transcript detection from RNA-Seq
B Haas, A Dobin, N Stransky, B Li, X Yang, T Tickle, A Bankapur, ...
BioRxiv, 120295, 2017
452017
PROBer provides a general toolkit for analyzing sequencing-based toeprinting assays
B Li, A Tambe, S Aviran, L Pachter
Cell systems 4 (5), 568-574. e7, 2017
122017
Metrics for rapid quality control in RNA structure probing experiments
K Choudhary, NP Shih, F Deng, M Ledda, B Li, S Aviran
Bioinformatics 32 (23), 3575-3583, 2016
122016
Nuclei multiplexing with barcoded antibodies for single-nucleus genomics
JT Gaublomme, B Li, C McCabe, A Knecht, Y Yang, E Drokhlyansky, ...
Nature communications 10 (1), 1-8, 2019
92019
Perm-seq: mapping Protein-DNA interactions in segmental duplication and highly repetitive regions of genomes with Prior-Enhanced read mapping
X Zeng, B Li, R Welch, C Rojo, Y Zheng, CN Dewey, S Keleş
PLoS computational biology 11 (10), 2015
92015
Decoding human fetal liver haematopoiesis
DM Popescu, RA Botting, E Stephenson, K Green, S Webb, L Jardine, ...
Nature 574 (7778), 365-371, 2019
62019
Cumulus: a cloud-based data analysis framework for large-scale single-cell and single-nucleus RNA-seq
B Li, J Gould, Y Yang, S Sarkizova, M Tabaka, O Ashenberg, Y Rosen, ...
bioRxiv, 823682, 2019
12019
Computational analysis of RNA-Seq data in the absence of aknown genome
B Li
The University of Wisconsin-Madison, 2013
12013
Thousands of novel unannotated proteins expand the MHC I immunopeptidome in cancer
T Ouspenskaia, T Law, KR Clauser, S Klaeger, S Sarkizova, F Aguet, B Li, ...
bioRxiv, 2020
2020
Neoantigens from translated unannotated open reading frames in cancer
T Ouspenskaia, TE Law, KR Clauser, S Klaeger, DB Keskin, B Li, ...
Cancer Research 79 (13 Supplement), 566-566, 2019
2019
A single-cell and single-nucleus RNA-seq toolbox for fresh and frozen human tumors
M Slyper, CBM Porter, O Ashenberg, J Waldman, E Drokhlyansky, ...
bioRxiv, 761429, 2019
2019
Genetic predisposition to myeloproliferative neoplasms implicates hematopoietic stem cell biology
EL Bao, SK Nandakumar, X Liao, AG Bick, J Karjalainen, M Tabaka, ...
bioRxiv, 790626, 2019
2019
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Articles 1–17