Li, Bo

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

Li, B., & Dewey, C. N. (2011) · BMC Bioinformatics

Genomics and Phylogenetic StudiesSingle-cell and spatial transcriptomics

Cited by 22,179

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

Haas, B. J., Papanicolaou, A., Yassour, M., Grabherr, M., Blood, P. D., Bowden, J., Couger, M. B., Eccles, D., Li, B., Lieber, M., et al. (2013) · Nature Protocols

Genomics and Phylogenetic StudiesSingle-cell and spatial transcriptomics

Cited by 8,464

Whole-genome analyses resolve early branches in the tree of life of modern birds

Jarvis, E. D., Mirarab, S., Aberer, A. J., Li, B., Houde, P., Li, C., Ho, S. Y. W., Faircloth, B. C., Nabholz, B., Howard, J. T., et al. (2014) · Science

Genomics and Phylogenetic StudiesEvolution and Paleontology Studies

Cited by 1,901

RNA-Seq gene expression estimation with read mapping uncertainty

Li, B., Ruotti, V., Stewart, R. M., Thomson, J. A., & Dewey, C. N. (2010) · Bioinformatics

Genomics and Phylogenetic StudiesGene expression and cancer classification

Cited by 1,198

Resistance to checkpoint blockade therapy through inactivation of antigen presentation

Sade-Feldman, M., Jiao, Y. J., Chen, J. H., Rooney, M. S., Barzily-Rokni, M., Eliane, J.-P., Bjorgaard, S. L., Hammond, M. R., Vitzthum, H., Blackmon, S. M., et al. (2017) · Nature Communications

Cancer Immunotherapy and BiomarkersImmunotherapy and Immune Responses

Cited by 1,005

Accuracy assessment of fusion transcript detection via read-mapping and de novo fusion transcript assembly-based methods

Haas, B. J., Dobin, A., Li, B., Stransky, N., Pochet, N., & Regev, A. (2019) · Genome biology

Genomics and Phylogenetic StudiesRNA Research and Splicing

Cited by 646

Decoding human fetal liver haematopoiesis

Popescu, D.-M., Botting, R. A., Stephenson, E., Green, K., Webb, S., Jardine, L., Calderbank, E. F., Polanski, K., Goh, I., Efremova, M., et al. (2019) · Nature

Hematopoietic Stem Cell TransplantationSingle-cell and spatial transcriptomics

Cited by 606

The posteriorizing gene Gbx2 is a direct target of Wnt signalling and the earliest factor in neural crest induction

Li, B., Kuriyama, S., Moreno, M., & Mayor, R. (2009) · Development

Developmental Biology and Gene RegulationWnt/β-catenin signaling in development and cancer

Cited by 149

Multiplexed, image-based pooled screens in primary cells and tissues with PerturbView

Kudo, T., Meireles, A. M., Moncada, R., Chen, Y., Wu, P., Gould, J., Hu, X., Kornfeld, O., Jesudason, R., Foo, C., et al. (2025) · Nature Biotechnology

Single-cell and spatial transcriptomicsCRISPR and Genetic Engineering

Cited by 74

PROBer Provides a General Toolkit for Analyzing Sequencing-Based Toeprinting Assays

Li, B., Tambe, A., Aviran, S., & Pachter, L. (2017) · Cell Systems

RNA modifications and cancerGenomics and Phylogenetic Studies

Cited by 15

Prober: A general toolkit for analyzing sequencing-based ‘toeprinting’ assays

Li, B., Tambe, A., Aviran, S., & Pachter, L. (2016) · Cell Systems

RNA modifications and cancerGenomics and Phylogenetic Studies

Cited by 15