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Bo Li
Bo Li
Principal Scientist, Cell and Tissue Genomics, Genentech
Verified email at gene.com - Homepage
Title
Cited by
Cited by
Year
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
B Li, CN Dewey
BMC bioinformatics 12, 1-16, 2011
176152011
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), 1494-1512, 2013
75792013
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
12732010
COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets
TM Delorey, CGK Ziegler, G Heimberg, R Normand, Y Yang, ...
Nature 595 (7865), 107-113, 2021
5862021
Decoding human fetal liver haematopoiesis
DM Popescu, RA Botting, E Stephenson, K Green, S Webb, L Jardine, ...
Nature 574 (7778), 365-371, 2019
4282019
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, ...
Nature medicine 26 (5), 792-802, 2020
4232020
Accuracy assessment of fusion transcript detection via read-mapping and de novo fusion transcript assembly-based methods
BJ Haas, A Dobin, B Li, N Stransky, N Pochet, A Regev
Genome biology 20, 1-16, 2019
4202019
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, 1-21, 2014
2832014
STAR-Fusion: fast and accurate fusion transcript detection from RNA-Seq
BJ Haas, A Dobin, N Stransky, B Li, X Yang, T Tickle, A Bankapur, ...
BioRxiv, 120295, 2017
2292017
Unannotated proteins expand the MHC-I-restricted immunopeptidome in cancer
T Ouspenskaia, T Law, KR Clauser, S Klaeger, S Sarkizova, F Aguet, B Li, ...
Nature biotechnology 40 (2), 209-217, 2022
1762022
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), 2907, 2019
1342019
Cumulus provides cloud-based data analysis for large-scale single-cell and single-nucleus RNA-seq
B Li, J Gould, Y Yang, S Sarkizova, M Tabaka, O Ashenberg, Y Rosen, ...
Nature methods 17 (8), 793-798, 2020
1292020
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), e1002111, 2011
1032011
Inherited myeloproliferative neoplasm risk affects haematopoietic stem cells
EL Bao, SK Nandakumar, X Liao, AG Bick, J Karjalainen, M Tabaka, ...
Nature 586 (7831), 769-775, 2020
1022020
Integrated scRNA-Seq identifies human postnatal thymus seeding progenitors and regulatory dynamics of differentiating immature thymocytes
M Lavaert, KL Liang, N Vandamme, JE Park, J Roels, MS Kowalczyk, B Li, ...
Immunity 52 (6), 1088-1104. e6, 2020
942020
Reference generation and analysis with trinity
BJ Haas, A Papanicolaou, M Yassour, M Grabherr, D Philip, J Bowden, ...
Nat Protoc 8 (8), 1-43, 2014
912014
Blood and immune development in human fetal bone marrow and Down syndrome
L Jardine, S Webb, I Goh, M Quiroga Londoņo, G Reynolds, M Mather, ...
Nature 598 (7880), 327-331, 2021
742021
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
222017
Linking indirect effects of cytomegalovirus in transplantation to modulation of monocyte innate immune function
P Sen, AR Wilkie, F Ji, Y Yang, IJ Taylor, M Velazquez-Palafox, ...
Science Advances 6 (17), eaax9856, 2020
202020
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
192016
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Articles 1–20