James A. Thomson

96.4k total citations · 29 hit papers
253 papers, 60.2k citations indexed

About

James A. Thomson is a scholar working on Molecular Biology, Biomedical Engineering and Surgery. According to data from OpenAlex, James A. Thomson has authored 253 papers receiving a total of 60.2k indexed citations (citations by other indexed papers that have themselves been cited), including 200 papers in Molecular Biology, 33 papers in Biomedical Engineering and 28 papers in Surgery. Recurrent topics in James A. Thomson's work include Pluripotent Stem Cells Research (116 papers), CRISPR and Genetic Engineering (68 papers) and 3D Printing in Biomedical Research (26 papers). James A. Thomson is often cited by papers focused on Pluripotent Stem Cells Research (116 papers), CRISPR and Genetic Engineering (68 papers) and 3D Printing in Biomedical Research (26 papers). James A. Thomson collaborates with scholars based in United States, China and Canada. James A. Thomson's co-authors include Ron Stewart, Michelle Waknitz, Joseph Itskovitz‐Eldor, Jeffrey M. Jones, Vivienne S. Marshall, Junying Yu, Jennifer J. Swiergiel, Sander S. Shapiro, Igor I. Slukvin and Victor Ruotti and has published in prestigious journals such as Nature, Science and Cell.

In The Last Decade

James A. Thomson

248 papers receiving 58.8k citations

Hit Papers

5 papers align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

Embryonic Stem Cell Lines Derived from Human Blastocysts

1998 11.3k citations James A. Thomson et al. Science profile →
Induced Pluripotent Stem Cell Lines Derived from Human Somatic Cells

2007 7.5k citations Junying Yu, Maxim A. Vodyanik et al. Science profile →
Human DNA methylomes at base resolution show widespread epigenomic differences

2009 3.4k citations Jessica Antosiewicz‐Bourget, Ron Stewart et al. profile →
Human Induced Pluripotent Stem Cells Free of Vector and Transgene Sequences

2009 1.7k citations Junying Yu, Kejin Hu et al. Science profile →
In vitro differentiation of transplantable neural precursors from human embryonic stem cells

2001 1.5k citations James A. Thomson et al. profile →
The NIH Roadmap Epigenomics Mapping Consortium

2010 1.2k citations James A. Thomson et al. profile →
Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells

2011 1.1k citations Jessica Antosiewicz‐Bourget, Ron Stewart et al. profile →
Clonally Derived Human Embryonic Stem Cell Lines Maintain Pluripotency and Proliferative Potential for Prolonged Periods of Culture

2000 1.1k citations James A. Thomson et al. profile →
Chemically defined conditions for human iPSC derivation and culture

2011 1.1k citations Zhonggang Hou, Jennifer M. Bolin et al. Nature Methods profile →
Chromatin architecture reorganization during stem cell differentiation

2015 1.1k citations Jessica Antosiewicz‐Bourget, James A. Thomson et al. profile →
Induced pluripotent stem cells from a spinal muscular atrophy patient

2008 1.1k citations Junying Yu, James A. Thomson et al. profile →
Functional Cardiomyocytes Derived From Human Induced Pluripotent Stem Cells

2009 1.0k citations Junying Yu, Sean P. Palecek et al. profile →
EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments

2013 938 citations Ning Leng, James A. Thomson et al. Bioinformatics profile →
MicroRNA-145 Regulates OCT4, SOX2, and KLF4 and Represses Pluripotency in Human Embryonic Stem Cells

2009 923 citations James A. Thomson et al. profile →
BMP4 initiates human embryonic stem cell differentiation to trophoblast

2002 847 citations James A. Thomson et al. profile →
Derivation of human embryonic stem cells in defined conditions

2006 811 citations James A. Thomson et al. profile →
RNA-Seq gene expression estimation with read mapping uncertainty

2009 790 citations Bo Li, Victor Ruotti et al. Bioinformatics profile →
Neural differentiation of human induced pluripotent stem cells follows developmental principles but with variable potency

2010 772 citations Junying Yu, James A. Thomson et al. Proceedings of the National Academy of Sciences profile →
Recurrent gain of chromosomes 17q and 12 in cultured human embryonic stem cells

2003 759 citations James A. Thomson, Peter W. Andrews et al. profile →
Basic FGF and suppression of BMP signaling sustain undifferentiated proliferation of human ES cells

2005 754 citations James A. Thomson et al. Nature Methods profile →
Multilineage Differentiation from Human Embryonic Stem Cell Lines

2001 687 citations James A. Thomson et al. Stem Cells profile →
Hematopoietic colony-forming cells derived from human embryonic stem cells

2001 665 citations James A. Thomson et al. Proceedings of the National Academy of Sciences profile →
High purity human-induced pluripotent stem cell-derived cardiomyocytes: electrophysiological properties of action potentials and ionic currents

2011 585 citations James A. Thomson, Timothy J. Kamp et al. profile →
Human Embryonic Stem Cells Develop Into Multiple Types of Cardiac Myocytes

2003 571 citations James A. Thomson, Timothy J. Kamp et al. profile →
Whole-Genome Analysis of Histone H3 Lysine 4 and Lysine 27 Methylation in Human Embryonic Stem Cells

2007 544 citations Shulan Tian, Jeff Nie et al. profile →
Gene expression patterns in human embryonic stem cells and human pluripotent germ cell tumors

2003 530 citations Peter W. Andrews, James A. Thomson et al. Proceedings of the National Academy of Sciences profile →
Efficient genome engineering in human pluripotent stem cells using Cas9 from Neisseria meningitidis

2013 525 citations Zhonggang Hou, Sara E. Howden et al. Proceedings of the National Academy of Sciences profile →
Feeder-independent culture of human embryonic stem cells

2006 507 citations Junying Yu, Mitchell D. Probasco et al. Nature Methods profile →
Homologous recombination in human embryonic stem cells

2003 500 citations James A. Thomson et al. profile →

Peers

Countries citing papers authored by James A. Thomson

Since Specialization

Citations

This map shows the geographic impact of James A. Thomson's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by James A. Thomson with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites James A. Thomson more than expected).

Fields of papers citing papers by James A. Thomson

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by James A. Thomson. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by James A. Thomson. The network helps show where James A. Thomson may publish in the future.

Co-authorship network of co-authors of James A. Thomson

This figure shows the co-authorship network connecting the top 25 collaborators of James A. Thomson. A scholar is included among the top collaborators of James A. Thomson based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with James A. Thomson. James A. Thomson is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

Sort: Min cites: Since: Top N: Style:

20 of 20 papers shown

#	Work	Indexed citations
1	Plasma metabolomics supports non-fasted sampling for metabolic profiling across a spectrum of glucose tolerance in the Nile rat model for type 2 diabetes 2023 ·Lab Animal ·(unknown), Annie M. Curtis, (unknown), James A. Thomson, Dennis Clegg, Peng Jiang, Joshua J. Coon, Katherine A. Overmyer, Huishi Toh	4
2	Enhancing biological signals and detection rates in single-cell RNA-seq experiments with cDNA library equalization 2021 ·Nucleic Acids Research ·Rhonda Bacher, Li‐Fang Chu, (unknown), Jennifer M. Bolin, Parker Knight, James A. Thomson, Ron Stewart, Christina Kendziorski	5
3	Engineered Perineural Vascular Plexus for Modeling Developmental Toxicity 2020 ·Advanced Healthcare Materials ·Gaurav Kaushik, Kartik Gupta, (unknown), Elizabeth Torr, Jonathan Evans, (unknown), (unknown), Suehelay Acevedo‐Acevedo, Jessica Antosiewicz‐Bourget, Daniel Mamott, (unknown), Brian P. Johnson, Sean P. Palecek, David J. Beebe, James A. Thomson, William T. Daly, William L. Murphy	22
4	Automated minute scale RNA-seq of pluripotent stem cell differentiation reveals early divergence of human and mouse gene expression kinetics 2019 ·PLoS Computational Biology ·Christopher Barry, Matthew T. Schmitz, (unknown), Jennifer M. Bolin, Mitchell D. Probasco, Ning Leng, Bret Duffin, (unknown), Scott Swanson, Brian E. McIntosh, Ron Stewart, Christina Kendziorski, James A. Thomson, Rhonda Bacher	7
5	Vascular Networks: Quantitative Label‐Free Imaging of 3D Vascular Networks Self‐Assembled in Synthetic Hydrogels (Adv. Healthcare Mater. 2/2019) 2019 ·Advanced Healthcare Materials ·Gaurav Kaushik, (unknown), Elizabeth Torr, (unknown), (unknown), (unknown), Gianluca Fontana, Jessica Antosiewicz‐Bourget, Collin Edington, Michael P. Schwartz, Linda G. Griffith, James A. Thomson, Melissa C. Skala, William T. Daly, William L. Murphy	1
6	Quantitative Label‐Free Imaging of 3D Vascular Networks Self‐Assembled in Synthetic Hydrogels 2018 ·Advanced Healthcare Materials ·Gaurav Kaushik, (unknown), Elizabeth Torr, (unknown), (unknown), (unknown), Gianluca Fontana, Jessica Antosiewicz‐Bourget, Collin Edington, Michael P. Schwartz, Linda G. Griffith, James A. Thomson, Melissa C. Skala, William T. Daly, William L. Murphy	20
7	NOTCH signaling specifies arterial-type definitive hemogenic endothelium from human pluripotent stem cells 2018 ·Nature Communications ·Gene Uenishi, Ho Sun Jung, Akhilesh Kumar, Mi Ae Park, Brandon Hadland, (unknown), (unknown), Oleg V. Moskvin, (unknown), Derek J. Theisen, Scott Swanson, Owen J. Tamplin, Leonard I. Zon, James A. Thomson, Irwin D. Bernstein, Igor I. Slukvin	84
8	Functional characterization of human pluripotent stem cell-derived arterial endothelial cells 2017 ·Proceedings of the National Academy of Sciences ·Jue Zhang, Li‐Fang Chu, Zhonggang Hou, Michael P. Schwartz, Timothy A. Hacker, Vernella Vickerman, Scott Swanson, Ning Leng, Bao Kim Nguyen, Angela L. Elwell, Jennifer M. Bolin, Matthew E. Brown, Ron Stewart, William J. Burlingham, William L. Murphy, James A. Thomson	105
9	GATA2 Is Essential for Endothelial-to-Hematopoietic Transition but Does Not Affect Formation of Hemogenic Endothelium 2017 ·Blood ·HyunJun Kang, (unknown), Scott Swanson, James A. Thomson, Igor I. Slukvin	1
10	SCnorm: robust normalization of single-cell RNA-seq data 2017 ·Nature Methods ·Rhonda Bacher, Li‐Fang Chu, Ning Leng, Audrey P. Gasch, James A. Thomson, Ron Stewart, Michael A. Newton, Christina Kendziorski	190
11	A Novel Approach to Single Cell RNA-Sequence Analysis Facilitates In Silico Gene Reporting of Human Pluripotent Stem Cell-Derived Retinal Cell Types 2017 ·Stem Cells ·M. Joseph Phillips, Peng Jiang, Sara E. Howden, (unknown), (unknown), N York, Li‐Fang Chu, Elizabeth E. Capowski, (unknown), (unknown), Katherine Barlow, (unknown), Ron Stewart, Bikash R. Pattnaik, James A. Thomson, David M. Gamm	46
12	OEFinder: a user interface to identify and visualize ordering effects in single-cell RNA-seq data 2016 ·Bioinformatics ·Ning Leng, Jeea Choi, Li‐Fang Chu, James A. Thomson, Christina Kendziorski, Ron Stewart	14
13	Evaluation of de novo transcriptome assemblies from RNA-Seq data 2014 ·Genome biology ·Bo Li, Nathanael R. Fillmore, Yongsheng Bai, Mike Collins, James A. Thomson, Ron Stewart, Colin N. Dewey	185
14	Abstract 19007: Lineage Reprogramming of Mouse Fibroblasts to Induced Cardiac Progenitor Cells by Defined Factors 2013 ·Circulation ·Pratik A Lalit, Martin Lea, Steven A. Jackson, Brian E. McIntosh, Michael Kyba, James A. Thomson, Daniel J. Garry, Timothy J. Kamp	1
15	Efficient generation of transgene-free induced pluripotent stem cells from normal and neoplastic bone marrow and cord blood mononuclear cells 2011 ·Blood ·Kejin Hu, Junying Yu, Kran Suknuntha, Shulan Tian, Karen Dyer Montgomery, (unknown), Ron Stewart, James A. Thomson, Igor I. Slukvin	180
16	Single Read and Paired End mRNA-Seq Illumina Libraries from 10 Nanograms Total RNA 2011 ·Journal of Visualized Experiments ·Srikumar Sengupta, Jennifer M. Bolin, Victor Ruotti, Bao Kim Nguyen, James A. Thomson, Angela L. Elwell, Ron Stewart	22
17	Human Induced Pluripotent Stem Cells Free of Vector and Transgene Sequences breakdown → 2009 ·Science ·Junying Yu, Kejin Hu, Kim Smuga-Otto, Shulan Tian, Ron Stewart, Igor I. Slukvin, James A. Thomson	1718
18	A study of the relationships between oligonucleotide properties and hybridization signal intensities from NimbleGen microarray datasets 2008 ·Nucleic Acids Research ·Hairong Wei, Pei Fen Kuan, Shulan Tian, Chuhu Yang, Jeff Nie, Srikumar Sengupta, Victor Ruotti, Guðrún A. Jónsdóttir, Sündüz Keleş, James A. Thomson, Ron Stewart	36
19	Induced Pluripotent Stem Cell Lines Derived from Human Somatic Cells breakdown → 2007 ·Science ·Junying Yu, Maxim A. Vodyanik, Kim Smuga-Otto, Jessica Antosiewicz‐Bourget, (unknown), Shulan Tian, Jeff Nie, Guðrún A. Jónsdóttir, Victor Ruotti, Ron Stewart, Igor I. Slukvin, James A. Thomson	7504
20	11 Embryonal Carcinoma Cells as Embryonic Stem Cells 2001 ·Cold Spring Harbor Monograph Archive ·Peter W. Andrews, Stefan Przyborski, James A. Thomson	29

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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