Yishai Shimoni

Principal Researcher, International Business Machines

Joined

May 2023

Names

Yishai Shimoni (Preferred)

Emails

****@il.ibm.com (Confirmed)

Personal Links

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ORCID

Career & Education History

Principal Researcher

International Business Machines (ibm.com)

2015 – Present

Postdoc

Columbia University (columbia.edu)

2010 – 2015

Postdoc

Icahn School of Medicine at Mount Sinai (mssm.edu)

2008 – 2010

PhD student

Hebrew University of Jerusalem (huji.ac.il)

2003 – 2008

Advisors, Relations & Conflicts

Postdoc Advisor

Andrea Califano

2010 – 2015

Postdoc Advisor

Stuart Sealfon

2008 – 2010

Postdoc Advisor

Hanah Margalit

2007 – 2008

PhD Advisor

Ofer Biham

2001 – 2008

Expertise

No areas of expertise listed

Publications

Toward a Coherent Virtual Cell Model: Probing Biological World-Model Coherence in Transcriptomic Foundation Models
Noa Moriel, Yishai Shimoni, Michal Rosen-Zvi, Michael Danziger
- AI4D3 2025 Poster
- Readers: Everyone
Hierarchical Bias-Driven Stratification for Interpretable Causal Effect Estimation
Lucile Ter-Minassian, Liran Szlak, Ehud Karavani, Christopher C. Holmes, Yishai Shimoni
- AISTATS 2025 Poster
- Readers: Everyone
Does your model understand genes? A benchmark of gene properties for biological and text models
Yoav Kan-Tor, Michael Danziger, Eden Zohar, Matan Ninio, Yishai Shimoni
- Submitted to ICLR 2025
- Readers: Everyone
Hierarchical Bias-Driven Stratification for Interpretable Causal Effect Estimation
Lucile Ter-Minassian, Liran Szlak, Ehud Karavani, Christopher C. Holmes, Yishai Shimoni
- Submitted to NeurIPS 2023
- Readers: Everyone
Towards effect estimation of COVID-19 Non-pharmaceutical Interventions
Vesna Resende Barros, Victor Akinwande, Itay Manes, Osnat Bar-Shira, Celia Cintas, Yishai Shimoni, Michal Rosen-Zvi
- Published: 01 Jan 2021, Last Modified: 12 May 2023
- AMIA 2021
- Readers: Everyone
An Evaluation Toolkit to Guide Model Selection and Cohort Definition in Causal Inference
Yishai Shimoni, Ehud Karavani, Sivan Ravid, Peter Bak, Tan Hung Ng, Sharon Hensley Alford, Denise Meade, Yaara Goldschmidt
- Published: 01 Jan 2019, Last Modified: 12 May 2023
- CoRR 2019
- Readers: Everyone
A discriminative approach for finding and characterizing positivity violations using decision trees
Ehud Karavani, Peter Bak, Yishai Shimoni
- Published: 01 Jan 2019, Last Modified: 12 May 2023
- CoRR 2019
- Readers: Everyone
Benchmarking Framework for Performance-Evaluation of Causal Inference Analysis
Yishai Shimoni, Chen Yanover, Ehud Karavani, Yaara Goldschmidt
- 2018 (modified: 19 Jan 2022)
- CoRR 2018
- Readers: Everyone
Association between expression of random gene sets and survival is evident in multiple cancer types and may be explained by sub-classification
Yishai Shimoni
- Published: 01 Jan 2018, Last Modified: 12 May 2023
- PLoS Comput. Biol. 2018
- Readers: Everyone
A promoter-level mammalian expression atlas
The Fantom Consortium, RIKEN PMII, RIKEN CLST DGT, Alistair R. R. Forrest, Hideya Kawaji, Michael Rehli, J. Kenneth Baillie, Michiel J. L. de Hoon, Vanja Haberle, Timo Lassmann, Ivan V. Kulakovskiy, Marina Lizio, Masayoshi Itoh, Robin Andersson, Christopher J. Mungall, Terrence F. Meehan, Sebastian Schmeier, Nicolas Bertin, Mette Jørgensen, Emmanuel Dimont et al. (244 additional authors not shown)
- Published: 01 Jan 2014, Last Modified: 12 May 2023
- Nat. 2014
- Readers: Everyone

View all 12 publications

Co-Authors

View all 310 co-authors