Harold Pimentel

Also affiliated with University of California, San Francisco

Biochemistry, Genetics and Molecular Biology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

1in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 1 indexed paper attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

Papers

Driven by 15 papers. Top paper: “TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions”.

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Genome Biology(2013)10.1186/gb-2013-14-4-r36

N/A

22.2DataRank · unranked

13778 citations

Geo Pertea, Cole Trapnell, Harold Pimentel, Ryan Kelley, Steven L Salzberg +1 more

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

Nature Protocols(2012)10.1038/nprot.2012.016

N/A

1.4DataRank · unranked

12835 citations

Adam Roberts, Reenal Pattni, Daehwan Kim, Cheryl A. Keller, Harold Pimentel +5 more

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

The American Journal of Human Genetics(2022)10.1016/j.ajhg.2022.05.014

N/A

0.663DataRank · unranked

82 citations

Shaila Musharoff, Jeffrey P. Spence, Harold Pimentel, Catherine Tcheandjieu, Hakhamanesh Mostafavi +19 more

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

eLife(2024)10.7554/elife.101882

N/A

0.396DataRank · unranked

13 citations

Edmond M. Linossi, J. N. K. Rao, Christian B. Macdonald, Ashraya Ravikumar, Karson M Chrispens +7 more

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

eLife(2025)10.7554/elife.101882.3

N/A

0.269DataRank · unranked

5 citations

Edmond M. Linossi, J. N. K. Rao, Christian B. Macdonald, Ashraya Ravikumar, Karson M Chrispens +7 more

dotears: Scalable, consistent DAG estimation using observational and interventional data

arXiv (Cornell University)(2023)10.48550/arxiv.2305.19215

N/A

0DataRank · unranked

0 citations

J. N. K. Rao, Sriram Sankararaman, Harold Pimentel, Albert Xue

dotears: Scalable and consistent directed acyclic graph estimation using observational and interventional data

iScience(2024)10.1016/j.isci.2024.111673

N/A

0DataRank · unranked

2 citations

J. N. K. Rao, Sriram Sankararaman, Harold Pimentel, Albert Xue

Accounting for isoform expression increases power to identify genetic regulation of gene expression

PLoS Computational Biology(2024)10.1371/journal.pcbi.1011857

N/A

0DataRank · unranked

3 citations

Harold Pimentel, Nathan LaPierre

An evolved AAV variant enables efficient genetic engineering of murine T cells

Cell(2023)10.1016/j.cell.2022.12.022

N/A

0DataRank · unranked

97 citations

Jonathan Ark, Angela To, Sylvanie Clouden, Gabriella C. Reeder, Joseph J. Muldoon +13 more

A model for accurate quantification of CRISPR effects in pooled FACS screens

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.06.17.599448

N/A

0DataRank · unranked

4 citations

Jacob W. Freimer, Maya M. Arce, Christian M. Garrido, Alexander Marson, Jonathan K. Pritchard +1 more

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

Bioinformatics Advances(2025)10.1093/bioadv/vbaf218

N/A

0DataRank · unranked

1 citations

Mingsen Wang, Matthew Jungsuk Howard, Christian B. Macdonald, James S. Fraser, Willow Coyote‐Maestas +2 more

Accurate variant effect estimation in FACS-based deep mutational scanning data with Lilace

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.06.24.661380

N/A

0DataRank · unranked

0 citations

J. N. K. Rao, Matthew K. Howard, Christian B. Macdonald, Noah F. Greenwald, Willow Coyote‐Maestas +2 more

Cell villages and Dirichlet modeling map human cell fitness genetics

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.09.26.678880

N/A

0DataRank · unranked

0 citations

Timothy Derebenskiy, Ana Rodriguez Vega, Yashika S. Kamte, Rachel Fox, Hannah Lambing +6 more

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

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.21.568164

N/A

0DataRank · unranked

30 citations

Kyung Hoi Min, Kristján Eldjárn Hjörleifsson, Laura Luebbert, Guillaume Holley, Lambda Moses +7 more

Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase

Cell(2020)10.1016/j.cell.2019.12.012

N/A

0DataRank · unranked

153 citations

Phillip A. Dumesic, Harold Pimentel, Ammar Nasif, Caitlin I. Stoddard, Jordan E. Burke +12 more