Alumni

Time in Benos’ Lab: 2018-2022
After Benos’ Lab: Superior University, Pakistan, Associate Professor
Current Position: Superior University, Pakistan, Associate Professor

Google scholar

Time in Benos’ Lab: 2008-2011
After Benos’ Lab: UC Berkeley, Postdoctoral fellow
Last Position: Ribometrix, Inc, Senior Scientist I
Publications (3): Bais, Kaminski, Benos, 2011     Zhang et al, 2011     Coronnello et al, 2012

Time in Benos’ Lab: 2010-2012
After Benos’ Lab: IBIM-CNR (Palermo), Postdoctoral fellow
Current Position: Fondazione RiMED, Principal Investigator in Advanced Data Analysis
Publications (6): Coronnello et al, 2012     Coronnello, Benos, 2013     Jain et al, 2013     Osmanbeyoglou et al, 2013     Lu et al, 2013     Edinger et al, 2014

Time in Benos’ Lab: 2010-2013
Current Position: NetMotion Software, Principal Data Scientist

Time in Benos’ Lab: 2014-2017
After Benos’ Lab: Baylor College of Medicine, research associate
Last known position: College of Wooster, Visiting Assistant Professor

Time in Benos’ Lab: 2005-2007
After Benos’ Lab: MIT, Research associate
Current Position: Penn State, Associate Professor
Publications (10): Mahony et al, 2005     Mahony et al, 2006     Belov et al, 2006     Mahony, Auron, Benos, 2007a     Mahony, Auron, Benos, 2007b    Mahony, Benos, 2007     Mahony et al, 2007      Mikkelsen et al, 2007     Lu et al, 2007     Zinman et al, 2011

Web page
Google scholar

Time in Benos’ Lab: 2015-2018
After Benos’ Lab: Emulate, Inc., Director of Biomedical Data Science
Current Position: Merck, Inc., Biomedical Data Science Leader
Publications (7): Kitsios et al, 2018     Raghu et al, 2018     Sedgewick et al, 2018     Manatakis^*, Raghu^*, Benos, 2018     McDonough et al, 2019     Kitsios et al, 2019    Kotok et al, 2020

Google scholar

Time in Benos’ Lab: 2015-2016
After Benos’ Lab: Carnegie Mellon University, Postdoctoral fellow
Current Position: European University of Cyprus, Assistant Professor of Biostatistics

Time in Benos’ Lab: 2019-2023
After Benos’ Lab: University of New Haven, Assistant Professor
Current Position: University of New Haven, Assistant Professor
Publications (8): Molina, et al. 2021   Kitsios et al. 2023   Li et al. 2023   Jia*, Sayed*, Kapetanaki*, et al. 2023   Shah, et al. 2024   Kitsios, et al. 2024  Sayed, et al. 2024   Hensley, et al. 2025 

Time in Benos’ Lab: 2007-2008
After Benos’ Lab: Natl Res Council Canada, Research Scientist
Current Position: Natl Res Council Canada, Senior Research Scientist
Publications (3): Tchagang et al. 2008  Tchagang et al, 2009   Tchagang et al, 2011

Google scholar

Thesis title: “Unsupervised methods for pattern discovery in high-throughput genomic data” [PDF]
Time in Benos’ Lab: 2012-2019
After Benos’ Lab: Columbia University, T32 Postdoctoral fellow
Current Position: Columbia University, Associate research scientist
Publications (4): Sedgewick et al, 2018    Morse et al, 2019   Buschur, Chikina, Benos 2019   Buschur et al, 2023

Thesis title: “Transcriptional Regulation Of MicroRNA Genes And The Regulatory Networks In Which They Participate” [PDF]
Time in Benos’ Lab: 2002-2008
After Benos’ Lab: Duke Univ, Research associate
Current position: Univ. of North Carolina, Assistant Professor
Publications (8): Corcoran et al, 2005     Workman et al, 2005     Corcoran et al, 2005     Rogulski et al, 2005     Mahony et al, 2007     Benos, Corcoran, Finegold, 2007     Corcoran et al, 2009     Pandit, Corcoran, et al, 2010

Thesis title: “Computational methods for the functional analysis of  DNA sequence variants” [PDF]
Time in Benos’ Lab: 2010-2017
After Benos’ Lab: UPMC Lab, Bioinformatics scientist
Current Position: Northwestern University, Assistant Professor and Director of Bioinformatics
Publications (5): Mao et al, 2013     Chandran et al, 2015     Bahreini et al, 2016     Kulkami et al, 2017    Zuppo et al. 2023

Thesis title: “An Integrated, Module-based Biomarker Discovery Framework” [PDF]
Time in Benos’ Lab: 2008-2013
After Benos’ Lab: PopSugar, Data scientist
Current Position: Netflix, Senior Manager of Research/Machine Learning Engineering
Publications (5): Huang, Athanassiou, Benos, 2011     Zinman et al, 2011     Huang et al, 2013     Huang et al, 2015     Pociask et al, 2017

Thesis title: “Computational Methods for Studying Gene Regulation with Applications to Aging and Chronic Lung Diseases” [PDF]
Time in Benos’ Lab: 2018-2024
After Benos’ Lab: U Pitt, Postdoctoral fellow
Current position: U Pitt, postdoctoral fellow
Publications (11 – and counting): Cruz^*, Jia^* et al. 2021    Tabib et al. 2021    Jia*, Yuan* et al. 2022   Mao*, Jia*, et al.2022 Jia* et al. 2023  Jia* et al. 2023b  Jia*, Sayed*, Kapetanaki*, et al. 2023. Lovelace et al. 2024   Tourki et al. 2025 Jia et al. 2025 Mao*, Jia*, et al., 2025

Thesis title: “microRNA regulation in development” [PDF]
Time in Benos’ Lab: 2008-2012
After Benos’ Lab: Broad Institute, Associate computational biologist
Current Position: AbbVie, Director of Quantitative Insight Laboratory
Publications (2): Kadri, Hinman, Benos, 2009     Kadri, Hinman, Benos, 2011
Personal web page: Sabah Kadri, PhD

Web page
Google scholar

Thesis title: “Causal graphical modeling methods with applications to heterogenous and high-dimensional biomedical data” [PDF]
Time in Benos’ Lab: 2018-2025
After Benos’ Lab: UT Health, Postdoctoral fellow
Current position: UT Health, Postdoctoral fellow
Awards: NIH-NLM F31 Predoctoral Fellow (2022-2025)
Publications (11 – and counting): Cárdenes et al. 2021   Bing*, Lovelace* et al 2022  Jia*, Yuan* et al. 2022   Wu et al. 2022  Barak*, Lovelace*, et al. 2023  Barak*, Lovelace*, et al. 2023b  Zeng, et al, 2024  Lovelace et al. 2024   Barak, et al. 2025  Lovelace, et al. 2025 Labar, et al. 2025

Thesis title: “Causal Representation Learning for Omics Data and Its Applications in Biological Discovery” [PDF]
Time in Benos’ Lab: 2019-2025
After Benos’ Lab: Merck, Senior Scientist
Current position: Merck, Senior Scientist
Publications (6 – and counting): Mao et al. 2020   Mao*, Jia*, et al.2022   Mao et al 2022 Mao et al. 2024 Jia, et al. 2025 Mao*, Jia*, et al., 2025

Thesis title: “A Computational Pipeline for Graphical Modeling of Integrated Biomedical Data” [PDF]
Time in Benos’ Lab: 2015-2019
After Benos’ Lab: Harvard University / MGH, T32 Postdoctoral fellow
Current Position: Harvard University / MGH, Assistant Professor
Publications (12 – and counting): Huang et al, 2015     Raghu et al, 2018     Raghu et al, 2018b     Raghu et al. 2018c     Manatakis^*, Raghu^*, Benos, 2018   Sedgewick et al, 2019   Raghu et al, 2019   Xe et al, 2020   Raghu et al, 2020   Fuccello et al. 2020  Raghu et al 2021   Cameron*, Raghu*, et al, 2024

Thesis title: “Graphical models for de novo and pathway-based network prediction over multi- modal high-throughput biological data” [PDF]
Time in Benos’ Lab: 2012-2016
After Benos’ Lab: NantOmics LLC, Bioinformatics specialist
Current Position: Tempus Labs, Associate Principal Computational Biologist
Publications (4): Sedgewick et al, 2016     Caparosa^*, Sedgwick^*, et al, 2019     Sedgewick et al, 2019     Abecassis^*, Sedgewick^* et al. 2019

Google scholar

Thesis title: “Integrated BATF transcriptional network regulates suppressive intratumoral regulatory T cells” [PDF]
Time in Benos’ Lab: 2018-2023 (co-advised; primary: Prof. Dario Vignali)
After Benos’ Lab: MIT, Postdoctoral research fellow
Current position: MIT, Postdoctoral fellow
Publications (2): Cillo, et al. 2021 Shan et al. 2023  

Time in Benos’ Lab: 2019-2021
Current position: Tsinghua University, MD student
Publications (6): Yang et al, 2020   Kitsios et al, 2020   Valenzi et al. 2021  Kitsios et al. 2021 Kitsios et al. 2023 Kitsios, et al. 2024     

Thesis title: “Causal graph methods for heterogeneous data and application to MUC1 cancer vaccine response” [PDF]
Time in Benos’ Lab: 2019-2023
After Benos’ Lab: AstraZeneca, Senior Scientist
Current position: AstraZeneca, Senior Scientist
Publications (3 – and counting): Fuccello et al. 2020    Jia*, Yuan* et al. 2022   Shan et al. 2023  

Thesis title: “Integrative analysis of clinical and single-cell transcriptomic data for the potential precision diagnosis and intervention of childhood sjögren’s disease” [PDF]
Time in Benos’ Lab: 2022-2024
After Benos’ Lab: Columbia University, Postdoctoral fellow
Current position: Columbia University, Postdoctoral research scientist
Publications (1 – and counting): Zeng, et al, 2024

Time in Benos’ Lab: 2017-2018
After Benos’ Lab: Bizowie, Junior Software Developer
Current Position: Power Home Remodeling, Software Developer

Time in Benos’ Lab: 2010-2012
After Benos’ Lab: Memorial Sloan-Kettering Cancer Center, Assistant Research Biostatistician
Current Position: Volastra Therapeutics, Senior scientist
Publications (2): Coronnello et al, 2012     Lu et al, 2012

Google scholar

Time in Benos’ Lab: 2008
After Benos’ Lab: U Pittsburgh (DBMI),Software Developer
Current Position: U Pittsburgh (DBMI), Senior Software Engineer
Publications (1): Tchagang et al, 2009

Time in Benos’ Lab: 2003-2007
Current Position: U Pittsburgh (Crit Care Med), Senior Research Specialist (Res  IV)
Publications (1; as Jessica Dominick): Corcoran et al, 2005

Time in Benos’ Lab: Jan-Jun 2019
Current position: University of  Palermo, Research Fellow
Publications (2): Bertolazzi et al, 2020   Bertolazzi et al, 2020b

Time in Benos’ Lab: Time in Benos’ Lab: 2021 (Fall semester)
After Benos’ Lab: Children’s Hospital of Philadelphia, Bioinformatics Engineer
Current Position: Children’s Hospital of Philadelphia, Bioinformatics Engineer

Time in Benos’ Lab: 2002-2003
Last known position: Capital One, Principal Quantitative Analyst
Publications (1): Workman et al, 2005

Time in Benos’ Lab: Summer 2018
Current Position: UCSF, Gastroenterology fellow
Publications (1): Buschur et al. 2023