Victor Ruotti

21.9k citations

22 papers · 15.0k indexed · 6 hit papers · h-index 17

Impact in

Molecular Biology top 0.2%
- Pluripotent Stem Cells Research
- CRISPR and Genetic Engineering
- Epigenetics and DNA Methylation
- RNA modifications and cancer
- Renal and related cancers
- Cancer-related gene regulation
Developmental Neuroscience top 1%

Papers in

Cancer Research 5
- Cancer-related molecular mechanisms research 4
Molecular Biology 22
- Molecular Biology Techniques and Applications 7
- Pluripotent Stem Cells Research 6
- Epigenetics and DNA Methylation 5
- RNA modifications and cancer 4
- CRISPR and Genetic Engineering 4
- RNA and protein synthesis mechanisms 4
- Genomics and Phylogenetic Studies 4

Co-authors: James A. Thomson Ron Stewart Jessica Antosiewicz‐Bourget Shulan Tian Jeff Nie Guðrún A. Jónsdóttir Igor I. Slukvin Maxim A. Vodyanik
Journals: Bioinformatics (4 papers)Nature Methods (2 papers)Journal of Visualized Experiments (2 papers)Nature Communications (1 paper)BioTechniques (1 paper)
Partner nations: United States Netherlands United Kingdom

In The Last Decade

Victor Ruotti

22 papers receiving 14.7k citations

Hit Papers

6 papers align trajectories log scale

EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments 2013 · 938 citations

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if any of the following hold:

it has ≥500 total citations;
it reaches ≥1.5× the top-1% citation threshold for papers in the same subfield and year (the threshold is the minimum needed to enter the top 1%, not the average within it);
it reaches the top citation threshold in at least one of its specific research topics.

2013 Bioinformatics
2011 Nature Methods
2009 Nature
2009 Bioinformatics
2007 Cell stem cell
2007 Science

Peers

Countries citing papers authored by Victor Ruotti

Since Specialization

Citations

This map shows the geographic impact of Victor Ruotti'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 Victor Ruotti with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Victor Ruotti more than expected).

Fields of papers citing papers by Victor Ruotti

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Victor Ruotti. 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 Victor Ruotti. The network helps show where Victor Ruotti may publish in the future.

Co-authors

The 25 scholars most cited alongside Victor Ruotti, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with Victor Ruotti Line = papers co-authored together Victor Ruotti links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

#	Work
1	Rational probe design for efficient rRNA depletion and improved metatranscriptomic analysis of human microbiomes BMC Microbiology ·Asako Tan, Senthil K. Murugapiran, Aguado Ag, 中野良樹, 京子松永, F W Hyde, Victor Ruotti, L F N Ruiz, Alice Vieira, Gary P. Schroth, Jean M. Macklaim, Scott Kuersten, Brice Le François, Daryl M. Gohl	2023	2
2	A Genome-wide Analysis of Human Pluripotent Stem Cell-Derived Endothelial Cells in 2D or 3D Culture Stem Cell Reports ·Jue Zhang, Michael P. Schwartz, Zhonggang Hou, Yongsheng Bai, Aseel A. Abdu, Scott Swanson, Antonio Dans, Victor Ruotti, Angela L. Elwell, Bao Kim Nguyen, Jennifer M. Bolin, Ron Stewart, James A. Thomson, William L. Murphy	2017	38
3	Saturation analysis for whole-genome bisulfite sequencing data Nature Biotechnology ·Emanuele Libertini, Simon Heath, Rifat Hamoudi, Marta Gut, Michael J. Ziller, Javier Herrero, Agata Czyż, Victor Ruotti, Hendrik G. Stunnenberg, Mattia Frontini, Willem H. Ouwehand, Alexander Meissner, Stephan Beck	2016	23
4	Information recovery from low coverage whole-genome bisulfite sequencing Nature Communications ·Emanuele Libertini, Simon Heath, Rifat Hamoudi, Marta Gut, Michael J. Ziller, Agata Czyż, Victor Ruotti, Hendrik G. Stunnenberg, Mattia Frontini, Willem H. Ouwehand, Alexander Meissner, Stephan Beck	2016	24
5	EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments Bioinformatics ·Ning Leng, John A. Dawson, James A. Thomson, Victor Ruotti, Anna I. Rissman, Bart M. G. Smits, Jill D. Haag, Michael N. Gould, Ron Stewart, Christina Kendziorski Hit paper breakdown →	2013	938
6	Single Read and Paired End mRNA-Seq Illumina Libraries from 10 Nanograms Total RNA Journal of Visualized Experiments ·Srikumar Sengupta, Jennifer M. Bolin, Victor Ruotti, Bao Kim Nguyen, James A. Thomson, Angela L. Elwell, Ron Stewart	2011	22
7	Single Read and Paired End mRNA-Seq Illumina Libraries from 10 Nanograms Total RNA Journal of Visualized Experiments ·Srikumar Sengupta, Jennifer M. Bolin, Victor Ruotti, Bao Kim Nguyen, James A. Thomson, Angela L. Elwell, Yoel Jiménez-Gómez	2011	4
8	Chemically defined conditions for human iPSC derivation and culture Nature Methods ·Guokai Chen, Daniel R. Gulbranson, Zhonggang Hou, Jennifer M. Bolin, Victor Ruotti, Mitchell D. Probasco, Santucci Valentino, Sara E. Howden, Levon Katsakhyan, Nicholas E. Propson, 鳴神寿彦, Mary Schatz, Jessica Antosiewicz‐Bourget, Joyce Teng, James A. Thomson Hit paper breakdown →	2011	1073
9	Proteomic and phosphoproteomic comparison of human ES and iPS cells Nature Methods ·Douglas H. Phanstiel, Justin Brumbaugh, Craig D. Wenger, Shulan Tian, Mitchell D. Probasco, Derek J. Bailey, Danielle L. Swaney, Zbigniew Jarzab, Jennifer M. Bolin, Victor Ruotti, Ron Stewart, James A. Thomson, Joshua J. Coon	2011	217
10	Highly Consistent, Fully Representative mRNA-Seq Libraries from ten Nanograms of Total RNA BioTechniques ·Srikumar Sengupta, Victor Ruotti, Jennifer M. Bolin, Angela L. Elwell, Álvaro González Hernández, James A. Thomson, Ron Stewart	2010	17
11	Human DNA methylomes at base resolution show widespread epigenomic differences Nature ·Ryan Lister, Mattia Pelizzola, Robert H. Dowen, R. David Hawkins, Gary C. Hon, Julian Tonti‐Filippini, Joseph R. Nery, Leonard Lee, Zhen Ye, 大黒俊哉, Lee Edsall, Jessica Antosiewicz‐Bourget, Ron Stewart, Victor Ruotti, A. Harvey Millar, James A. Thomson, Bing Ren, Joseph R. Ecker Hit paper breakdown →	2009	3371
12	ProbeMatch: rapid alignment of oligonucleotides to genome allowing both gaps and mismatches Bioinformatics ·Youjung Kim, Edward Walton, Victor Ruotti, Christopher A. Maher, Arul M. Chinnaiyan, Yoel Jiménez-Gómez, James A. Thomson, Jignesh M. Patel	2009	17
13	A study of the relationships between oligonucleotide properties and hybridization signal intensities from NimbleGen microarray datasets 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	2008	36
14	Molecular profiling reveals similarities and differences between primitive subsets of hematopoietic cells generated in vitro from human embryonic stem cells and in vivo during embryogenesis Experimental Hematology ·Giorgia Salvagiotto, Yun Zhao, Maxim A. Vodyanik, Victor Ruotti, R. J. C. Stewart, Marco A. Marra, James Thomson, Connie J. Eaves, Igor I. Slukvin	2008	16
15	Induced Pluripotent Stem Cell Lines Derived From Human Somatic Cells Obstetrical & Gynecological Survey ·Junying Yu, Maxim A. Vodyanik, Kim Smuga-Otto, Jessica Antosiewicz‐Bourget, H. Li, Shulan Tian, Jeff Nie, Guðrún A. Jónsdóttir, Victor Ruotti, Ron Stewart, Igor I. Slukvin, James A. Thomson	2008	300
16	Induced Pluripotent Stem Cell Lines Derived from Human Somatic Cells Science ·Junying Yu, Maxim A. Vodyanik, Kim Smuga-Otto, Jessica Antosiewicz‐Bourget, H. Li, Shulan Tian, Jeff Nie, Guðrún A. Jónsdóttir, Victor Ruotti, Ron Stewart, Igor I. Slukvin, James A. Thomson Hit paper breakdown →	2007	7504
17	Whole-Genome Analysis of Histone H3 Lysine 4 and Lysine 27 Methylation in Human Embryonic Stem Cells Cell stem cell ·Guangjin Pan, Shulan Tian, Jeff Nie, Chuhu Yang, Victor Ruotti, Hairong Wei, Guðrún A. Jónsdóttir, Ron Stewart, James A. Thomson Hit paper breakdown →	2007	544
18	ChromSorter PC: A database of chromosomal regions associated with human prostate cancer BMC Genomics ·Fajar Telaumbanua, Fabrizio Todeschini, Xinyu Wen, Hang Liu, Victor Ruotti, Simon Twigger, Weihong Jin, C. G. Jenter, Pan Li-yan, Peter J. Tonellato, Milton W. Datta	2004	2
19	Integrative Genomics: In Silico Coupling of Rat Physiology and Complex Traits With Mouse and Human Data Genome Research ·Simon Twigger, Jeff Nie, Victor Ruotti, Jiaming Yu, Dan Chen, Dawei Li, M. Fresina, Q.-T. Tran, Gopal Gopinath, Dean Pasko, Mary Shimoyama, María Llull Tombo, Susan K. Bromberg, Anne E. Kwitek, Howard J. Jacob, Peter J. Tonellato	2004	16
20	Automated Analysis of Conserved Syntenies for the Zebrafish Genome Methods in cell biology ·John H. Postlethwait, Victor Ruotti, Michael J. Carvan, Peter J. Tonellato	2004	13

About Victor Ruotti

Victor Ruotti is a scholar working on Cancer Research, Molecular Biology, Genetics, Biomedical Engineering and Cell Biology, having authored 22 papers that have together received 15.0k indexed citations. Recurring topics across this work include Molecular Biology Techniques and Applications (7 papers), Pluripotent Stem Cells Research (6 papers), Epigenetics and DNA Methylation (5 papers), RNA modifications and cancer (4 papers), CRISPR and Genetic Engineering (4 papers), Cancer-related molecular mechanisms research (4 papers), RNA and protein synthesis mechanisms (4 papers) and Genomics and Phylogenetic Studies (4 papers). The work is most often cited by research in Molecular Biology (12.9k citations), Developmental Neuroscience (440 citations), Genetics (905 citations), Cancer Research (1.3k citations) and Aging (142 citations). Victor Ruotti has collaborated with scholars based in United States, Netherlands and United Kingdom. Frequent co-authors include James A. Thomson, Ron Stewart, Jessica Antosiewicz‐Bourget, Shulan Tian, Jeff Nie, Guðrún A. Jónsdóttir, Igor I. Slukvin, Maxim A. Vodyanik, Junying Yu and Kim Smuga-Otto. Their work appears in journals such as Bioinformatics, Nature Methods, Journal of Visualized Experiments, Nature Communications and BioTechniques.

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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