Vasilis Ntranos • UCSF Profiles

Vasilis Ntranos, PhD

Title(s)	Assistant Professor, Diabetes Center
School	School of Medicine
Address	513 Parnassus Avenue, HSW, #1109 San Francisco CA 94143
Phone	--
ORCID	0000-0002-2477-0670
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Biography

Education and Training

Caltech, Pasadena, CA	Postdoc	2019	Biology & Biological Engineering
University of California, Berkeley, CA	Postdoc	2018	EECS
Stanford University, Palo Alto, CA	Postdoc	2018	Electrical Engineering
University of Southern California, Los Angeles, CA	Ph.D	2015	Electrical Engineering
Technical University of Crete, Greece	Diploma	2009	ECE

Overview

Vasilis Ntranos obtained his PhD in Electrical Engineering from USC in 2015, working on network information theory problems and their applications in data storage and wireless communications. After his graduate studies, Vasilis moved his focus to computational biology and machine learning, completing his postdoctoral training in EECS and Biological Engineering, working with Lior Pachter and David Tse at UC Berkeley, Stanford, and Caltech.

Vasilis joined UCSF in November 2019, where he is currently an Assistant Professor in the Department of Epidemiology & Biostatistics and the Diabetes Center. He is a member of the BMS, and BMI Graduate Programs and his lab is affiliated with the Dept. of Bioengineering & Therapeutic Sciences, the Bakar Computational Health Sciences Institute, and HIVE (Health Innovation via Engineering). Vasilis’ main research interests are in computational methods development at the intersection of information theory, genomics, and machine learning, with a primary focus on single cell biology and alternative splicing.

Websites

	Ntranos Lab
	Google Scholar profile

Bibliographic

Publications

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.

Altmetrics Details

PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.

Alpha cell dysfunction in type 1 diabetes is independent of a senescence program. Front Endocrinol (Lausanne). 2022; 13:932516. Brawerman G, Ntranos V, Thompson PJ. PMID: 36277717; PMCID: PMC9586489.

View in: PubMed Mentions: Fields:
End Endocrinology
Translation:Humans Animals Cells
Single-cell multiomics defines tolerogenic extrathymic Aire-expressing populations with unique homology to thymic epithelium. Sci Immunol. 2021 Nov 12; 6(65):eabl5053. Wang J, Lareau CA, Bautista JL, Gupta AR, Sandor K, Germino J, Yin Y, Arvedson MP, Reeder GC, Cramer NT, Xie F, Ntranos V, Satpathy AT, Anderson MS, Gardner JM. PMID: 34767455; PMCID: PMC8855935.

View in: PubMed Mentions: 8 Fields:
All Allergy and Immunology
Translation:Animals
A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex. Nature. 2021 10; 598(7879):103-110. Yao Z, Liu H, Xie F, Fischer S, Adkins RS, Aldridge AI, Ament SA, Bartlett A, Behrens MM, Van den Berge K, Bertagnolli D, de Bézieux HR, Biancalani T, Booeshaghi AS, Bravo HC, Casper T, Colantuoni C, Crabtree J, Creasy H, Crichton K, Crow M, Dee N, Dougherty EL, Doyle WI, Dudoit S, Fang R, Felix V, Fong O, Giglio M, Goldy J, Hawrylycz M, Herb BR, Hertzano R, Hou X, Hu Q, Kancherla J, Kroll M, Lathia K, Li YE, Lucero JD, Luo C, Mahurkar A, McMillen D, Nadaf NM, Nery JR, Nguyen TN, Niu SY, Ntranos V, Orvis J, Osteen JK, Pham T, Pinto-Duarte A, Poirion O, Preissl S, Purdom E, Rimorin C, Risso D, Rivkin AC, Smith K, Street K, Sulc J, Svensson V, Tieu M, Torkelson A, Tung H, Vaishnav ED, Vanderburg CR, van Velthoven C, Wang X, White OR, Huang ZJ, Kharchenko PV, Pachter L, Ngai J, Regev A, Tasic B, Welch JD, Gillis J, Macosko EZ, Ren B, Ecker JR, Zeng H, Mukamel EA. PMID: 34616066; PMCID: PMC8494649.

View in: PubMed Mentions: 46 Fields:
Sci Science
Translation:Animals Cells
Extrathymic Aire-expressing cells support maternal-fetal tolerance. Sci Immunol. 2021 07 16; 6(61). Gillis-Buck E, Miller H, Sirota M, Sanders SJ, Ntranos V, Anderson MS, Gardner JM, MacKenzie TC. PMID: 34272228; PMCID: PMC9363019.

View in: PubMed Mentions: 7 Fields:
All Allergy and Immunology
Translation:Animals Cells
Single-cell transcriptional profiling of human thymic stroma uncovers novel cellular heterogeneity in the thymic medulla. Nat Commun. 2021 02 17; 12(1):1096. Bautista JL, Cramer NT, Miller CN, Chavez J, Berrios DI, Byrnes LE, Germino J, Ntranos V, Sneddon JB, Burt TD, Gardner JM, Ye CJ, Anderson MS, Parent AV. PMID: 33597545; PMCID: PMC7889611.

View in: PubMed Mentions: 39 Fields:
Bio Biology Sci Science
Translation:Humans Animals Cells
Determining sequencing depth in a single-cell RNA-seq experiment. Nat Commun. 2020 02 07; 11(1):774. Zhang MJ, Ntranos V, Tse D. PMID: 32034137; PMCID: PMC7005864.

View in: PubMed Mentions: 27 Fields:
Bio Biology Sci Science
The barcode, UMI, set format and BUStools. Bioinformatics. 2019 11 01; 35(21):4472-4473. Melsted P, Ntranos V, Pachter L. PMID: 31073610.

View in: PubMed Mentions: 34 Fields:
Com Computational Biology
Fumarates target the metabolic-epigenetic interplay of brain-homing T cells in multiple sclerosis. Brain. 2019 03 01; 142(3):647-661. Ntranos A, Ntranos V, Bonnefil V, Liu J, Kim-Schulze S, He Y, Zhu Y, Brandstadter R, Watson CT, Sharp AJ, Katz Sand I, Casaccia P. PMID: 30698680; PMCID: PMC6821213.

View in: PubMed Mentions: 9 Fields:
Bra Brain Neu Neurology
Translation:Humans Cells
Targeted Elimination of Senescent Beta Cells Prevents Type 1 Diabetes. Cell Metab. 2019 05 07; 29(5):1045-1060.e10. Thompson PJ, Shah A, Ntranos V, Van Gool F, Atkinson M, Bhushan A. PMID: 30799288.

View in: PubMed Mentions: 103 Fields:
Cel Cell Biology Met Metabolism
Translation:Humans Animals Cells
Deterministic column subset selection for single-cell RNA-Seq. PLoS One. 2019; 14(1):e0210571. McCurdy SR, Ntranos V, Pachter L. PMID: 30682053; PMCID: PMC6347249.

View in: PubMed Mentions: Fields:
Med Medicine (General)Sci Science
A discriminative learning approach to differential expression analysis for single-cell RNA-seq. Nat Methods. 2019 02; 16(2):163-166. Ntranos V, Yi L, Melsted P, Pachter L. PMID: 30664774.

View in: PubMed Mentions: 47 Fields:
Cli Clinical Laboratory Techniques
Translation:Humans Cells
Fast and accurate single-cell RNA-seq analysis by clustering of transcript-compatibility counts. Genome Biol. 2016 05 26; 17(1):112. Ntranos V, Kamath GM, Zhang JM, Pachter L, Tse DN. PMID: 27230763; PMCID: PMC4881296.

View in: PubMed Mentions: 42 Fields:
Gen Genetics
Translation:Humans Animals Cells