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D-Index & Metrics

Genetics

D-Index
73
Citations
138501
World Ranking
1989
National Ranking
905

Cole Trapnell publication distribution in Genetics in 2026

The chart shows the distribution of publications by all Research.com ranked scientists in the field of Genetics in 2026. The highlighted bar marks where Cole Trapnell sits on this spectrum.

45–54 publications: 6 scientists 55–64 publications: 10 scientists 65–74 publications: 35 scientists 75–84 publications: 84 scientists 85–94 publications: 102 scientists 95–104 publications: 151 scientists 105–114 publications: 175 scientists 115–124 publications: 203 scientists 125–134 publications: 217 scientists 135–144 publications: 205 scientists 145–154 publications: 193 scientists 155–164 publications: 188 scientists 165–174 publications: 170 scientists 175–184 publications: 178 scientists 185–194 publications: 164 scientists 195–204 publications: 173 scientists 205–214 publications: 159 scientists 215–224 publications: 134 scientists 225–234 publications: 143 scientists 235–244 publications: 105 scientists 245–254 publications: 114 scientists 255–264 publications: 92 scientists 265–274 publications: 88 scientists 275–284 publications: 87 scientists 285–294 publications: 80 scientists 295–304 publications: 62 scientists 305–314 publications: 75 scientists 315–324 publications: 67 scientists 325–334 publications: 60 scientists 335–344 publications: 52 scientists 345–354 publications: 40 scientists 355–364 publications: 48 scientists 365–374 publications: 47 scientists 375–384 publications: 46 scientists 385–394 publications: 31 scientists 395–404 publications: 27 scientists 405–414 publications: 40 scientists 415–424 publications: 30 scientists 425–434 publications: 43 scientists 435–444 publications: 29 scientists 445–454 publications: 14 scientists 455–464 publications: 28 scientists 465–474 publications: 21 scientists 475–484 publications: 21 scientists 485–494 publications: 22 scientists 495–504 publications: 17 scientists 505–514 publications: 12 scientists 515–524 publications: 11 scientists 525–534 publications: 8 scientists 535–544 publications: 8 scientists 545–554 publications: 14 scientists 555–564 publications: 4 scientists 565–574 publications: 11 scientists 575–584 publications: 5 scientists 585–594 publications: 11 scientists 595–604 publications: 12 scientists 605–614 publications: 7 scientists 615–624 publications: 6 scientists 625–634 publications: 10 scientists 635–644 publications: 9 scientists 645–654 publications: 10 scientists 655–664 publications: 6 scientists 665–674 publications: 6 scientists 675–684 publications: 6 scientists 685–694 publications: 4 scientists 695–702 publications: 6 scientists 703+ publications: 100 scientists
45 publications 703+

This scientist: 144 publications — 27th percentile

27% of scientists in this discipline score the same or lower.

The last bar groups every scientist with 703 publications or more.

Cole Trapnell D-index placement in Genetics in 2026

The chart shows the D-index (discipline H-index) distribution of Genetics scientists ranked by Research.com in 2026. The highlighted bar marks where Cole Trapnell sits on this spectrum.

40–41 D-Index: 24 scientists 42–43 D-Index: 52 scientists 44–45 D-Index: 84 scientists 46–47 D-Index: 112 scientists 48–49 D-Index: 118 scientists 50–51 D-Index: 141 scientists 52–53 D-Index: 143 scientists 54–55 D-Index: 145 scientists 56–57 D-Index: 179 scientists 58–59 D-Index: 162 scientists 60–61 D-Index: 175 scientists 62–63 D-Index: 191 scientists 64–65 D-Index: 172 scientists 66–67 D-Index: 184 scientists 68–69 D-Index: 164 scientists 70–71 D-Index: 158 scientists 72–73 D-Index: 150 scientists 74–75 D-Index: 136 scientists 76–77 D-Index: 127 scientists 78–79 D-Index: 127 scientists 80–81 D-Index: 111 scientists 82–83 D-Index: 110 scientists 84–85 D-Index: 110 scientists 86–87 D-Index: 84 scientists 88–89 D-Index: 102 scientists 90–91 D-Index: 66 scientists 92–93 D-Index: 72 scientists 94–95 D-Index: 70 scientists 96–97 D-Index: 54 scientists 98–99 D-Index: 60 scientists 100–101 D-Index: 49 scientists 102–103 D-Index: 55 scientists 104–105 D-Index: 45 scientists 106–107 D-Index: 42 scientists 108–109 D-Index: 28 scientists 110–111 D-Index: 39 scientists 112–113 D-Index: 25 scientists 114–115 D-Index: 31 scientists 116–117 D-Index: 29 scientists 118–119 D-Index: 34 scientists 120–121 D-Index: 29 scientists 122–123 D-Index: 29 scientists 124–125 D-Index: 18 scientists 126–127 D-Index: 27 scientists 128–129 D-Index: 22 scientists 130–131 D-Index: 16 scientists 132–133 D-Index: 11 scientists 134–135 D-Index: 17 scientists 136–137 D-Index: 12 scientists 138–139 D-Index: 21 scientists 140–141 D-Index: 4 scientists 142–143 D-Index: 9 scientists 144–145 D-Index: 14 scientists 146–147 D-Index: 6 scientists 148–149 D-Index: 10 scientists 150–151 D-Index: 7 scientists 152–153 D-Index: 9 scientists 154–155 D-Index: 8 scientists 156–157 D-Index: 8 scientists 158–159 D-Index: 9 scientists 160+ D-Index: 96 scientists
40 D-Index 160+

This scientist: 73 D-Index — 54th percentile

54% of scientists in this discipline score the same or lower.

The last bar groups every scientist with 160 D-Index or more.

Research.com Recognitions

  • 2015 - Fellow of Alfred P. Sloan Foundation

Overview

Cole Trapnell is affiliated with the University of Washington in the United States. Their research primarily falls within Biochemistry, Genetics and Molecular Biology, where they have contributed to 201 publications. Within this main field, their work touches on several subfields including Molecular Biology, Immunology, Cell Biology, Biophysics, and Cancer Research.

The scientist's research topics prominently include Single-cell and spatial transcriptomics, Zebrafish Biomedical Research Applications, RNA Research and Splicing, Genomics and Chromatin Dynamics, Cell Image Analysis Techniques, Congenital heart defects research, and Retinal Development and Disorders.

Recent papers authored or co-authored by Cole Trapnell demonstrate a focus on cellular and developmental biology at high resolution. These include:

  • A human cell atlas of fetal gene expression, 2020, Science
  • A human cell atlas of fetal chromatin accessibility, 2020, Science
  • Single-Cell Transcriptomic Comparison of Human Fetal Retina, hPSC-Derived Retinal Organoids, and Long-Term Retinal Cultures, 2020, Cell Reports
  • Embryo-scale, single-cell spatial transcriptomics, 2021, Science
  • Dimensionality reduction by UMAP to visualize physical and genetic interactions, 2020, Nature Communications

Their frequent co-authors include Jay Shendure, Sanjay Srivatsan, Dana L. Jackson, Lauren M. Saunders, and Brandon Hadland, indicating active collaboration within a network of researchers in related fields.

Cole Trapnell's publications are often found in venues such as bioRxiv (Cold Spring Harbor Laboratory), eLife, Science, SSRN Electronic Journal, and Experimental Hematology, reflecting a pattern of dissemination across high-impact journals as well as preprint servers.

The researcher received the title of Fellow of the Alfred P. Sloan Foundation in 2015, which is an acknowledgment of their contributions within their scientific domain.

Best Publications

  • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

    Ben Langmead;Cole Trapnell;Mihai Pop;Steven L Salzberg

  • Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

    Cole Trapnell;Cole Trapnell;Brian A Williams;Geo Pertea;Ali Mortazavi

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

    Daehwan Kim;Daehwan Kim;Geo Pertea;Cole Trapnell;Cole Trapnell;Harold Pimentel

  • TopHat: discovering splice junctions with RNA-Seq

    Cole Trapnell;Lior Pachter;Steven L. Salzberg

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

    Cole Trapnell;Adam Roberts;Loyal Goff;Loyal Goff;Loyal Goff;Geo Pertea

  • The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

    Cole Trapnell;Davide Cacchiarelli;Davide Cacchiarelli;Jonna L Grimsby;Prapti Pokharel

  • Differential analysis of gene regulation at transcript resolution with RNA-seq

    Cole Trapnell;David G Hendrickson;David G Hendrickson;Martin Sauvageau;Martin Sauvageau;Loyal Goff;Loyal Goff

  • Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

    Moran N. Cabili;Cole Trapnell;Cole Trapnell;Loyal Goff;Magdalena J. Koziol;Magdalena J. Koziol

  • Reversed graph embedding resolves complex single-cell trajectories.

    Xiaojie Qiu;Qi Mao;Ying Tang;Li Wang

  • The single-cell transcriptional landscape of mammalian organogenesis

    Junyue Cao;Malte Spielmann;Xiaojie Qiu;Xingfan Huang

  • Improving RNA-Seq expression estimates by correcting for fragment bias

    Adam B Roberts;Cole Trapnell;Cole Trapnell;Julie Donaghey;John L Rinn;John L Rinn

  • Single-cell mRNA quantification and differential analysis with Census

    Xiaojie Qiu;Andrew J Hill;Jonathan S Packer;Dejun Lin

  • Computational methods for transcriptome annotation and quantification using RNA-seq

    Manuel Garber;Manfred G Grabherr;Mitchell Guttman;Cole Trapnell;Cole Trapnell

  • Comprehensive single-cell transcriptional profiling of a multicellular organism

    Junyue Cao;Jonathan S. Packer;Vijay Ramani;Darren A. Cusanovich

  • Multiplex single cell profiling of chromatin accessibility by combinatorial cellular indexing.

    Darren A. Cusanovich;Riza Daza;Andrew Adey;Hannah A. Pliner

  • Identification of novel transcripts in annotated genomes using RNA-Seq

    Adam Roberts;Harold Pimentel;Cole Trapnell;Lior Pachter

  • Joint profiling of chromatin accessibility and gene expression in thousands of single cells

    Junyue Cao;Darren A. Cusanovich;Vijay Ramani;Delasa Aghamirzaie

  • Defining cell types and states with single-cell genomics.

    Cole Trapnell

  • A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility

    Darren A. Cusanovich;Andrew J. Hill;Delasa Aghamirzaie;Riza M. Daza

  • Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data.

    Hannah A. Pliner;Jonathan S. Packer;José L. McFaline-Figueroa;Darren A. Cusanovich

Frequent Co-Authors

Jay Shendure
Jay Shendure University of Washington
John L. Rinn
John L. Rinn University of Colorado Boulder
Loyal A. Goff
Loyal A. Goff Johns Hopkins University School of Medicine
Steven L. Salzberg
Steven L. Salzberg Johns Hopkins University
Lior Pachter
Lior Pachter California Institute of Technology
Tarjei S. Mikkelsen
Tarjei S. Mikkelsen Arsenal Biosciences (United States)
Irwin D. Bernstein
Irwin D. Bernstein Fred Hutchinson Cancer Research Center
Alexander Meissner
Alexander Meissner Max Planck Institute for Molecular Genetics
Michael C. Schatz
Michael C. Schatz Johns Hopkins University
Eric S. Lander
Eric S. Lander Broad Institute

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