Personal information

Verified email domains

Israel

Activities

Employment (5)

University of Haifa: Haifa, IL

2023-12-21 to present | Professor (Department of Human Biology, Faculty of Sciences)
Employment
Source: Self-asserted source
Uri Hershberg

Drexel University College of Medicine: Philadelphia, PA, US

2016-09-01 to present | Associate Professor (Department of Microbiology and Immunology )
Employment
Source: Self-asserted source
Uri Hershberg

Drexel University: Philadelphia, PA, US

2016-05-11 to present | Associate Professor (School of Biomedical Engineering, Science and Health Systems)
Employment
Source: Self-asserted source
Uri Hershberg

University of Haifa: Haifa, Haifa, IL

2018-10-01 to 2023-12-21 | Associate Professor (Department of Human Biology, Faculty of Sciences)
Employment
Source: Self-asserted source
Uri Hershberg

Drexel University School of Biomedical Engineering Science and Health Systems: Philadelphia, PA, US

2010-09-01 to 2016-05-10 | Assistant Professor
Employment
Source: Self-asserted source
Uri Hershberg

Education and qualifications (3)

Hebrew University of Jerusalem: Jerusalem, Jerusalem, IL

1999-09-01 to 2005-04-31 | Ph.D. (Computational Biology)
Education
Source: Self-asserted source
Uri Hershberg

Hebrew University of Jerusalem: Jerusalem, Jerusalem, IL

1996-09-01 to 1999-06-30 | M.Sc. (Computational Neuroscience)
Education
Source: Self-asserted source
Uri Hershberg

Hebrew University of Jerusalem: Jerusalem, Jerusalem, IL

1993-09-01 to 1996-06-30 | B.Sc. (Biology and Psychology double major)
Education
Source: Self-asserted source
Uri Hershberg

Professional activities (3)

Australasian Society for Immunology: Melbourne, Victoria, AU

2018-09 to 2018-09 | Vissiting Speaker
Invited position
Source: Self-asserted source
Uri Hershberg

Israeli Institute of Advanced Studies: Jerusalem, IL

2017-04 to 2017-06 | Research group leader
Invited position
Source: Self-asserted source
Uri Hershberg

Martin Buber Society of Fellows in the Humanities and Social Sciences at the Hebrew University of Jerusalem: Jerusalem, IL

2016-10 to 2017-06 | Senior Fellow
Invited position
Source: Self-asserted source
Uri Hershberg

Funding (3)

iReceptor Plus Promoting Human Immunological Data Storage, Integration & Controlled Sharing

2019-01 to 2022-12 | Grant
Horizon 2020 Framework Programme (Haifa, IL)
Source: Self-asserted source
Uri Hershberg

EAGER: Similarity Measures Based on Refinement Operators and Metric Embedding Applied to the Analysis of Immune Repertoires

2015-09-01 to 2016-08-31 | Grant
National Science Foundation - Directorate for Computer & Information Science & Engineering (Arlington, US)
GRANT_NUMBER: 1551338
Source: Self-asserted source
Uri Hershberg via DimensionsWizard

Tissue compartmentalization of human lymphocytes

2013-06-01 to 2023-05-31 | Grant
National Institute of Allergy and Infectious Diseases (Bethesda, US)
GRANT_NUMBER: P01AI106697
Source: Self-asserted source
Uri Hershberg via DimensionsWizard

Works (50 of 57)

Items per page:
Page 1 of 2

Intra- and inter-chain contacts determine TCR specificity: applying protein co-evolution methods to TCRαβ pairing

2024-05-29 | Preprint
Contributors: Martina Milighetti; Yuta Nagano; James Henderson; Uri Hershberg; Andreas Tiffeau-Mayer; Anne-Florence Bitbol; Benny Chain
Source: check_circle
Crossref

Chickens, more than humans, focus the diversity of their immunoglobulin genes on the complementarity-determining region but utilise amino acids, indicative of a more cross-reactive antibody repertoire

Frontiers in Immunology
2022 | Journal article
EID:

2-s2.0-85144483098

Part of ISSN: 16643224
Contributors: Mallaby, J.; Ng, J.; Stewart, A.; Sinclair, E.; Dunn-Walters, D.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Impact of finite size effect on applicability of generalized fractal and spectral dimensions to biological networks

Chaos, Solitons and Fractals
2022 | Journal article
EID:

2-s2.0-85138828294

Part of ISSN: 09600779
Contributors: Craig, A.; Yücel, M.; Muchnik, L.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Targeting BMI-1 in B cells restores effective humoral immune responses and controls chronic viral infection

Nature Immunology
2022 | Journal article
EID:

2-s2.0-85120032039

Part of ISSN: 15292916 15292908
Contributors: Di Pietro, A.; Polmear, J.; Cooper, L.; Damelang, T.; Hussain, T.; Hailes, L.; O’Donnell, K.; Udupa, V.; Mi, T.; Preston, S. et al.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Using Domain Based Latent Personal Analysis of B Cell Clone Diversity Patterns to Identify Novel Relationships Between the B Cell Clone Populations in Different Tissues

Frontiers in Immunology
2021 | Journal article
EID:

2-s2.0-85104271366

Part of ISSN: 16643224
Contributors: Alon, U.; Mokryn, O.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

BCR-Induced Ca<sup>2+</sup> Signals Dynamically Tune Survival, Metabolic Reprogramming, and Proliferation of Naive B Cells

Cell Reports
2020 | Journal article
EID:

2-s2.0-85083165082

Part of ISBN:

22111247

Contributors: Berry, C.T.; Liu, X.; Myles, A.; Nandi, S.; Chen, Y.H.; Hershberg, U.; Brodsky, I.E.; Cancro, M.P.; Lengner, C.J.; May, M.J. et al.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Caspase-8 promotes c-Rel–dependent inflammatory cytokine expression and resistance against Toxoplasma gondii

Proceedings of the National Academy of Sciences of the United States of America
2019 | Journal article
EID:

2-s2.0-85067203284

Part of ISBN:

10916490 00278424

Contributors: DeLaney, A.A.; Berry, C.T.; Christian, D.A.; Hart, A.; Bjanes, E.; Wynosky-Dolfi, M.A.; Li, X.; Tummers, B.; Udalova, I.A.; Chen, Y.H. et al.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Liver Is a Generative Site for the B Cell Response to Ehrlichia muris

Immunity
2019 | Journal article
EID:

2-s2.0-85076144941

Part of ISBN:

10974180 10747613

Contributors: Trivedi, N.; Weisel, F.; Smita, S.; Joachim, S.; Kader, M.; Radhakrishnan, A.; Clouser, C.; Rosenfeld, A.M.; Chikina, M.; Vigneault, F. et al.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Serine substitutions are linked to codon usage and differ for variable and conserved protein regions

Scientific Reports
2019 | Journal article
EID:

2-s2.0-85075445444

Part of ISBN:

20452322

Contributors: Schwartz, G.W.; Shauli, T.; Linial, M.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier
grade
Preferred source (of 2)‎

AIRR Community Standardized Representations for Annotated Immune Repertoires

Frontiers in immunology
2018 | Journal article
EID:

2-s2.0-85054889822

Part of ISBN:

16643224

Contributors: Vander Heiden, J.A.; Marquez, S.; Marthandan, N.; Bukhari, S.A.C.; Busse, C.E.; Corrie, B.; Hershberg, U.; Kleinstein, S.H.; Matsen Iv, F.A.; Ralph, D.K. et al.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Computational evaluation of B-cell clone sizes in bulk populations

Frontiers in Immunology
2018 | Journal article
EID:

2-s2.0-85049258511

Part of ISBN:

16643224

Contributors: Rosenfeld, A.M.; Meng, W.; Chen, D.Y.; Zhang, B.; Granot, T.; Farber, D.L.; Hershberg, U.; Prak, E.T.L.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Human lymph nodes maintain TCF-1 <sup>hi</sup> memory T cells with high functional potential and clonal diversity throughout life

Journal of Immunology
2018 | Journal article
EID:

2-s2.0-85053462652

Part of ISBN:

15506606 00221767

Contributors: Miron, M.; Kumar, B.V.; Meng, W.; Granot, T.; Carpenter, D.J.; Senda, T.; Chen, D.; Rosenfeld, A.M.; Zhang, B.; Lerner, H. et al.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

ImmuneDB, a novel tool for the analysis, storage, and dissemination of immune repertoire sequencing data

Frontiers in Immunology
2018 | Journal article
EID:

2-s2.0-85054779808

Part of ISBN:

16643224

Contributors: Rosenfeld, A.M.; Meng, W.; Luning Prak, E.T.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

MiGHT, a multi-level Gillespie hybrid tracked modeling framework which allows for cellular and environmental adaptivity

2017 IEEE Symposium Series on Computational Intelligence, SSCI 2017 - Proceedings
2018 | Conference paper
EID:

2-s2.0-85046084941

Contributors: Melunis, J.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Questions of Stochasticity and Control in Immune Repertoires

Trends in Immunology
2018-11 | Journal article
Contributors: Gur Yaari; Martin Flajnik; Uri Hershberg
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

A spatially heterogeneous Gillespie algorithm modeling framework that enables individual molecule history and tracking

Engineering Applications of Artificial Intelligence
2017 | Journal article
EID:

2-s2.0-85002271143

Part of ISBN:

09521976

Contributors: Melunis, J.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data

Nature Immunology
2017 | Journal article
EID:

2-s2.0-85034609753

Part of ISBN:

15292916 15292908

Contributors: Rubelt, F.; Busse, C.E.; Bukhari, S.A.C.; Bürckert, J.-P.; Mariotti-Ferrandiz, E.; Cowell, L.G.; Watson, C.T.; Marthandan, N.; Faison, W.J.; Hershberg, U. et al.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Detection of network communities with memory-biased random walk algorithms

Journal of Complex Networks
2017 | Journal article
EID:

2-s2.0-85023182039

Part of ISBN:

20511329 20511310

Contributors: Yucel, M.; Muchnik, L.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

An atlas of B-cell clonal distribution in the human body.

Nature biotechnology
2017-09 | Journal article
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

Applying systems-level spectral imaging and analysis to reveal the organelle interactome.

2017-06 | Journal article
Contributors: Valm AM; Cohen S; Legant WR; Melunis J; Hershberg U; Wait E; Cohen AR; Davidson MW; Betzig E; Lippincott-Schwartz J
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

ImmuneDB: a system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data.

2017-01 | Journal article
Contributors: Rosenfeld AM; Meng W; Luning Prak ET; Hershberg U
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

A molecular model of STIM1-Orai1 movement and binding and their influence on calcium dynamics in T cell receptor response

International Workshop on Artificial Immune Systems, AIS 2015/ICSI3 2015 - Systems Immunology, Immunoinformatics and Immune-computation: Immunology without Borders, Proceedings
2016 | Conference paper
EID:

2-s2.0-84974733843

Contributors: Melunis, J.; Freedman, B.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Efficient approximation of labeling problems with applications to immune repertoire analysis

Proceedings - International Conference on Pattern Recognition
2016 | Conference paper
EID:

2-s2.0-85019148254

Part of ISBN:

10514651

Contributors: Osmanlioglu, Y.; Ontanon, S.; Hershberg, U.; Shokoufandeh, A.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Using a novel clumpiness measure to unite data with metadata: Finding common sequence patterns in immune receptor germline v genes

Pattern Recognition Letters
2016 | Journal article
EID:

2-s2.0-84964344026

Part of ISBN:

01678655

Contributors: Schwartz, G.W.; Shokoufandeh, A.; Ontañón, S.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

VDJML: a file format with tools for capturing the results of inferring immune receptor rearrangements.

2016-10 | Journal article
Contributors: Toby IT; Levin MK; Salinas EA; Christley S; Bhattacharya S; Breden F; Buntzman A; Corrie B; Fonner J; Gupta NT et al.
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

Utilization of HIV-1 envelope V3 to identify X4- and R5-specific Tat and LTR sequence signatures.

Retrovirology
2016-05 | Journal article
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

T Cell Receptor-induced Nuclear Factor κB (NF-κB) Signaling and Transcriptional Activation Are Regulated by STIM1- and Orai1-mediated Calcium Entry.

2016-04 | Journal article
Contributors: Liu X; Berry CT; Ruthel G; Madara JJ; MacGillivray K; Gray CM; Madge LA; McCorkell KA; Beiting DP; Hershberg U et al.
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

Computational image analysis reveals intrinsic multigenerational differences between anterior and posterior cerebral cortex neural progenitor cells

Stem Cell Reports
2015 | Journal article
EID:

2-s2.0-84944442050

Contributors: Winter, M.R.; Liu, M.; Monteleone, D.; Melunis, J.; Hershberg, U.; Goderie, S.K.; Temple, S.; Cohen, A.R.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Discrimination of germline V genes at different sequencing lengths and mutational burdens: A new tool for identifying and evaluating the reliability of V gene assignment

Journal of Immunological Methods
2015 | Journal article
EID:

2-s2.0-84952637427

Contributors: Zhang, B.; Meng, W.; Luning Prak, E.T.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Prokaryotic nucleotide composition is shaped by both phylogeny and the environment

Genome Biology and Evolution
2015 | Journal article
EID:

2-s2.0-84940873445

Contributors: Reichenberger, E.R.; Rosen, G.; Hershberg, U.; Hershberg, R.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

The analysis of clonal expansions in normal and autoimmune B cell repertoires

Philosophical Transactions of the Royal Society B: Biological Sciences
2015 | Journal article
EID:

2-s2.0-84937675261

Contributors: Hershberg, U.; Luning Prak, E.T.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

B cell Variable genes have evolved their codon usage to focus the targeted patterns of somatic mutation on the complementarity determining regions.

2015-05 | Journal article
Contributors: Saini J; Hershberg U
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 3)‎

Ig gene analysis reveals altered selective pressures on Ig-producing cells in parotid glands of primary Sjogren's syndrome patients.

2015-01 | Journal article
Contributors: Hamza N; Hershberg U; Kallenberg CG; Vissink A; Spijkervet FK; Bootsma H; Kroese FG; Bos NA
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

Viral CD8 T cell epitope nucleotide composition shows evidence of short- and long-term evolutionary strategies.

2015-01 | Journal article
Contributors: Maman Y; Hershberg U; Louzoun Y
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

Local BLyS production by T follicular cells mediates retention of high affinity B cells during affinity maturation

Journal of Experimental Medicine
2014 | Journal article
EID:

2-s2.0-84892546134

Contributors: Goenka, R.; Matthews, A.H.; Zhang, B.; O'Neill, P.J.; Scholz, J.L.; Migone, T.-S.; Leonard, W.J.; Stohl, W.; Hershberg, U.; Cancro, M.P.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Persistence and selection of an expanded B-cell clone in the setting of rituximab therapy for Sjogren's syndrome.

2014 | Journal article
Contributors: Hershberg U; Meng W; Zhang B; Haff N; St Clair EW; Cohen PL; McNair PD; Li L; Levesque MC; Luning Prak ET
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

Trials and Tribulations with VH Replacement.

2014 | Journal article
Contributors: Meng W; Jayaraman S; Zhang B; Schwartz GW; Daber RD; Hershberg U; Garfall AL; Carlson CS; Luning Prak ET
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

Lasting antibody responses are mediated by a combination of newly formed and established bone marrow plasma cells drawn from clonally distinct precursors.

2014-11 | Journal article
Contributors: Chernova I; Jones DD; Wilmore JR; Bortnick A; Yucel M; Hershberg U; Allman D
Source: Self-asserted source
Uri Hershberg via Europe PubMed Central
grade
Preferred source (of 2)‎

High-Throughput Sequencing of Antibody Genes Successfully Identifies Clonal Ig Rearrangements in Multiple Myeloma Patients

Biology of Blood and Marrow Transplantation
2014-02 | Journal article
Contributors: Alfred L. Garfall; Eline T. Luning Prak; Wenzhao Meng; Robert Daber; Bochao Zhang; Uri Hershberg; Dan T. Vogl; Brendan M. Weiss; Martin Carroll; Edward A. Stadtmauer et al.
Source: Self-asserted source
Uri Hershberg via Crossref Metadata Search

Conserved variation: Identifying patterns of stability and variability in BCR and TCR v genes with different diversity and richness metrics

Physical Biology
2013 | Journal article
EID:

2-s2.0-84878854984

Contributors: Schwartz, G.W.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Establishing a relationship between bacteria in the human gut and Complex Regional Pain Syndrome

Brain, Behavior, and Immunity
2013 | Journal article
EID:

2-s2.0-84873429201

Contributors: Reichenberger, E.R.; Alexander, G.M.; Perreault, M.J.; Russell, J.A.; Schwartzman, R.J.; Hershberg, U.; Rosen, G.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Germline amino acid diversity in B cell receptors is a good predictor of somatic selection pressures

Frontiers in Immunology
2013 | Journal article
EID:

2-s2.0-84890342244

Contributors: Schwartz, G.W.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Reconstruction of regulatory networks through temporal enrichment profiling and its application to H1N1 influenza viral infection

BMC Bioinformatics
2013 | Journal article
Contributors: Elena Zaslavsky; German Nudelman; Susanna Marquez; Uri Hershberg; Boris M Hartmann; Juilee Thakar; Stuart C Sealfon; Steven H Kleinstein
Source: Self-asserted source
Uri Hershberg via Crossref Metadata Search
grade
Preferred source (of 2)‎

Biomedical model fitting and error analysis

Science Signaling
2011 | Journal article
EID:

2-s2.0-80053266761

Contributors: Costa, K.D.; Kleinstein, S.H.; Hershberg, U.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Detecting selection in immunoglobulin sequences

Nucleic Acids Research
2011 | Journal article
EID:

2-s2.0-79959997640

Contributors: Uduman, M.; Yaari, G.; Hershberg, U.; Stern, J.A.; Shlomchik, M.J.; Kleinstein, S.H.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Antiviral response dictated by choreographed cascade of transcription factors

Journal of Immunology
2010 | Journal article
EID:

2-s2.0-77951916659

Contributors: Zaslavsky, E.; Hershberg, U.; Seto, J.; Pham, A.M.; Marquez, S.; Duke, J.L.; Wetmur, J.G.; TenOever, B.R.; Sealfon, S.C.; Kleinstein, S.H.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Taking advantage: High-affinity B cells in the germinal center have lower death rates, but similar rates of division, compared to low-affinity cells

Journal of Immunology
2009 | Journal article
EID:

2-s2.0-73349126428

Contributors: Anderson, S.M.; Khalil, A.; Uduman, M.; Hershberg, U.; Louzoun, Y.; Haberman, A.M.; Kleinstein, S.H.; Shlomchik, M.J.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Improved methods for detecting selection by mutation analysis of Ig V region sequences

International Immunology
2008 | Journal article
EID:

2-s2.0-42949103482

Contributors: Hershberg, U.; Uduman, M.; Shlomchik, M.J.; Kleinstein, S.H.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

T Cell-Independent and Toll-like Receptor-Dependent Antigen-Driven Activation of Autoreactive B Cells

Immunity
2008 | Journal article
EID:

2-s2.0-48749085121

Contributors: Herlands, R.A.; Christensen, S.R.; Sweet, R.A.; Hershberg, U.; Shlomchik, M.J.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier

Anti-chromatin antibodies drive in vivo antigen-specific activation and somatic hypermutation of rheumatoid factor B cells at extrafollicular sites

European Journal of Immunology
2007 | Journal article
EID:

2-s2.0-37549049335

Contributors: Herlands, R.A.; William, J.; Hershberg, U.; Shlomchik, M.J.
Source: Self-asserted source
Uri Hershberg via Scopus - Elsevier
Items per page:
Page 1 of 2

Peer review (3 reviews for 3 publications/grants)

Review activity for eLife (1)
Review activity for ImmunoInformatics. (1)
Review activity for Nature communications (1)