Harold Pimentel - Publications, H-index & Citations

Harold Pimentel

university of california, los angeles

22H指数

63论文数

4.2W被引数

收录论文 19

发表时间

Cell villages and Dirichlet modeling map human cell fitness genetics 细胞群落与狄利克雷模型绘制人类细胞适应性遗传图谱

American Journal of Human Genetics

IF8.1

2026-08-03

OAAI

Chloe Hanson; Timothy Derebenskiy; Ana Rodriguez Vega; Yashika S. Kamte; Rachel G. Fox; Laila Sathe; Hannah Lambing; Tyler E. Dietterich; Derek Hawes; Ralda Nehme; Olli Pietiläinen; Aarno Palotie; Patrick Allard; Harold Pimentel; Michael F. Wells

Multiplexed perturbation enables scalable pooled screens 多重扰动可实现可扩展的池化屏幕

Nature Methods

IF32.1

2026-05-25

PREAI

Stefan Oberlin; Neil Q. Tay; Albert Xue; Ruzbeh Mosadeghi; Harold Pimentel; Michael T. McManus

Rosace-AA: enhancing interpretation of deep mutational scanning data with amino acid substitution and position-specific insights

Bioinformatics Advances

IF2.8

2026-01-01

PREAI

Rao, Jingyou; Wang, Mingsen; Howard, Matthew K.; Macdonald, Christian; Fraser, James S.; Coyote-Maestas, Willow; Pimentel, Harold

Mapping kinase domain resistance mechanisms for the MET receptor tyrosine kinase via deep mutational scanning

ELIFE

IF0

2025-02-17

OAAI

Estevam, Gabriella O.; Linossi, Edmond; Rao, Jingyou; Macdonald, Christian B.; Ravikumar, Ashraya; Chrispens, Karson M.; Capra, John A.; Coyote-Maestas, Willow; Pimentel, Harold; Collisson, Eric A.; Jura, Natalia; Fraser, James S.

dotears: Scalable and consistent directed acyclic graph estimation using observational and interventional data dotears: 使用观察数据和干预数据进行的可扩展且一致的 DAG 估计

ISCIENCE

IF4.1

2025-02-01

OAAI

Xue, Albert; Rao, Jingyou; Sankararaman, Sriram; Pimentel, Harold

kallisto, bustools and kb-python for quantifying bulk, single-cell and single-nucleus RNA-seq

NATURE PROTOCOLS

IF16

2024-10-10

PREAI

Sullivan, Delaney K.; Min, Kyung Hoi (Joseph); Hjorleifsson, Kristjan Eldjarn; Luebbert, Laura; Holley, Guillaume; Moses, Lambda; Gustafsson, Johan; Bray, Nicolas L.; Pimentel, Harold; Booeshaghi, A. Sina; Melsted, Pall; Pachter, Lior

Rosace: a robust deep mutational scanning analysis framework employing position and mean-variance shrinkage

GENOME BIOLOGY

IF9.4

2024-05-24

OAAI

Rao, Jingyou; Xin, Ruiqi; Macdonald, Christian; Howard, Matthew K.; Estevam, Gabriella O.; Yee, Sook Wah; Wang, Mingsen; Fraser, James S.; Coyote-Maestas, Willow; Pimentel, Harold

Genetic interactions drive heterogeneity in causal variant effect sizes for gene expression and complex traits

AMERICAN JOURNAL OF HUMAN GENETICS

IF8.1

2022-07-01

OAAI

Patel, Roshni A.; Musharoff, Shaila A.; Spence, Jeffrey P.; Pimentel, Harold; Tcheandjieu, Catherine; Mostafavi, Hakhamanesh; Sinnott-Armstrong, Nasa; Clarke, Shoa L.; Smith, Courtney J.; Durda, Peter P.; Taylor, Kent D.; Tracy, Russell; Liu, Yongmei; Johnson, W. Craig; Aguet, Francois; Ardlie, Kristin G.; Gabriel, Stacey; Smith, Josh; Nickerson, Deborah A.; Rich, Stephen S.; Rotter, Jerome I.; Tsao, Philip S.; Assimes, Themistocles L.; Pritchard, Jonathan K.

Intron retention is a source o neoepitopes in cancer

NATURE BIOTECHNOLOGY

IF41.7

2018-08-16

217

OAAI

Smart, Alicia C.; Margolis, Claire A.; Pimentel, Harold; He, Meng Xiao; Miao, Diana; Adeegbe, Dennis; Fugmann, Tim; Wong, Kwok-Kin; Van Ailen, Eliezer M.

RNA-based tumor neoantigens from intron retention

CANCER RESEARCH

IF16.6

2018-07-01

PREAI

Margolis, Claire A.; Smart, Alicia C.; Adeegbe, Dennis; Miao, Diana; He, Meng Xiao; Pimentel, Harold; Fugmann, Tim; Wong, Kwok-Kin; Van Allen, Eliezer M.

Gene-level differential analysis at transcript-level resolution

GENOME BIOLOGY

IF9.4

2018-04-12

OAAI

Yi, Lynn; Pimentel, Harold; Bray, Nicolas L.; Pachter, Lior

Differential analysis of RNA-seq incorporating quantification uncertainty

NATURE METHODS

IF32.1

2017-06-05

1.1K

OAAI

Pimentel, Harold; Bray, Nicolas L.; Puente, Suzette; Melsted, Pall; Pachter, Lior

Near-optimal probabilistic RNA-seq quantification (vol 34, pg 525, 2016)

NATURE BIOTECHNOLOGY

IF41.7

2016-08-09

4.6K

OAAI

Bray, Nicolas L.; Pimentel, Harold; Melsted, Pall; Pachter, Lior

Near-optimal probabilistic RNA-seq quantification

NATURE BIOTECHNOLOGY

IF41.7

2016-04-04

1.8K

PREAI

Bray, Nicolas L.; Pimentel, Harold; Melsted, Pall; Pachter, Lior

A dynamic intron retention program enriched in RNA processing genes regulates gene expression during terminal erythropoiesis

NUCLEIC ACIDS RESEARCH

IF13.1

2015-11-03

156

OAAI

Pimentel, Harold; Parra, Marilyn; Gee, Sherry L.; Mohandas, Narla; Pachter, Lior; Conboy, John G.

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks (vol 7, pg 562, 2012)

NATURE PROTOCOLS

IF16

2014-09-25

OAAI

Trapnell, Cole; Roberts, Adam; Goff, Loyal; Pertea, Geo; Kim, Daehwan; Kelley, David R.; Pimentel, Harold; Salzberg, Steven L.; Rinn, John L.; Pachter, Lior

A dynamic alternative splicing program regulates gene expression during terminal erythropoiesis

NUCLEIC ACIDS RESEARCH

IF13.1

2014-01-17

OAAI

Pimentel, Harold; Parra, Marilyn; Gee, Sherry; Ghanem, Dana; An, Xiuli; Li, Jie; Mohandas, Narla; Pachter, Lior; Conboy, John G.

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions TopHat2: 在存在插入，缺失和基因融合的情况下转录组的准确比对

GENOME BIOLOGY

IF9.4

2013-04-25

9.8K

OAAI

Kim, Daehwan; Pertea, Geo; Trapnell, Cole; Pimentel, Harold; Kelley, Ryan; Salzberg, Steven L.

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

NATURE PROTOCOLS

IF16

2012-03-01

1.1W

OAAI

Trapnell, Cole; Roberts, Adam; Goff, Loyal; Pertea, Geo; Kim, Daehwan; Kelley, David R.; Pimentel, Harold; Salzberg, Steven L.; Rinn, John L.; Pachter, Lior

研究方向