José L. McFaline‐Figueroa - Publications, H-index & Citations

Back

José L. McFaline‐Figueroa

columbia university

25H-index

72Paper Count

6.6KCitation Count

Published Papers 30

Publication Date

Multiplexed single-cell transcriptomics reveals diverse phenotypic outcomes for pathogenic SHP2 variants

Science Advances

IF12.5

2026-05-22

OAAI

Anne E. van Vlimmeren; Ross M. Giglio; Ziyuan Jiang; Minhee Lee; José L. McFaline-Figueroa; Neel H. Shah

Save

Defining the heterogeneous molecular landscape of lung cancer cell responses to epigenetic inhibition

Communications Biology

IF5.1

2026-01-28

OAAI

Chuwei Lin; Catherine M. Sniezek; Christopher D. McGann; Rashmi Karki; Ross M. Giglio; Benjamin A. Garcia; José L. McFaline-Figueroa; Devin K. Schweppe

Save

Deep generative modeling of sample-level heterogeneity in single-cell genomics

Nature Methods

IF32.1

2025-10-13

OAAI

Pierre Boyeau; Justin Hong; Adam Gayoso; Martin Kim; José L. McFaline-Figueroa; Michael I. Jordan; Elham Azizi; Can Ergen; Nir Yosef

Save

SAFETY LEAD-IN RESULTS FOR QBS10072S IN THE INDIVIDUAL SCREENING TRIAL OF INNOVATIVE GLIOBLASTOMA THERAPY (INSIGHT) TRIAL, A RANDOMIZED ADAPTIVE PLATFORM TRIAL FOR NEWLY DIAGNOSED MGMT UNMETHYLATED GLIOBLASTOMA

NEURO-ONCOLOGY

IF13.4

2024-11-11

PREAI

Rahman, Rifaquat; Trippa, Lorenzo; Aquilanti, Elisa; Lee, Eudocia; Arrillaga-Romany, Isabel; Wiley, Jennifer; Chukwueke, Ugonma; McFaline-Figueroa, Jose; Partridge, Kathryn; Beroukhim, Rameen; Nayak, Lakshmi; Batchelor, Tracy; Lu-Emerson, Christine; Drappatz, Jan; Lassman, Andy; Welch, Mary; Ahluwalia, Manmeet; Bi, Wenya; Arnaout, Omar; Haas-Kogan, Daphne; Tanguturi, Shyam; Aizer, Ayal; Doherty, Lisa; Fell, Geoffrey; Lavallee, Maria; Smokovich, Anna; Peabody, Shannon; Westergaard, Catharina; Bhutani, Vasvi; Russ, Alyssa; Barlow, Brooke; Chiocca, Ennio; Ringold, Gordon; Weitzman, Ron; Holland, Jaymes; Reardon, David; Ligon, Keith; Wen, Patrick

Save

The microtubule targeting agent ST-401 triggers cell death in interphase and prevents the formation of polyploid giant cancer cells

JOURNAL OF TRANSLATIONAL MEDICINE

IF7.5

2024-05-10

OAAI

Vicente, Juan Jesus; Khan, Kainat; Tillinghast, Grant; McFaline-Figueroa, Jose L.; Sancak, Yasemin; Stella, Nephi

Save

Starfysh integrates spatial transcriptomic and histologic data to reveal heterogeneous tumor-immune hubs

NATURE BIOTECHNOLOGY

IF41.7

2024-03-21

OAAI

He, Siyu; Jin, Yinuo; Nazaret, Achille; Shi, Lingting; Chen, Xueer; Rampersaud, Sham; Dhillon, Bahawar S.; Valdez, Izabella; Friend, Lauren E.; Fan, Joy Linyue; Park, Cameron Y.; Mintz, Rachel L.; Lao, Yeh-Hsing; Carrera, David; Fang, Kaylee W.; Mehdi, Kaleem; Rohde, Madeline; McFaline-Figueroa, Jose L.; Blei, David; Leong, Kam W.; Rudensky, Alexander Y.; Plitas, George; Azizi, Elham

Save

Multiplex single-cell chemical genomics reveals the kinase dependence of the response to targeted therapy

CELL GENOMICS

IF9

2024-02-01

OAAI

McFaline-Figueroa, Jose L.; Srivatsan, Sanjay; Hill, Andrew J.; Gasperini, Molly; Jackson, Dana L.; Saunders, Lauren; Domcke, Silvia; Regalado, Samuel G.; Lazarchuck, Paul; Alvarez, Sarai; Monnat Jr, Raymond J.; Shendure, Jay; Trapnell, Cole

Save

High-capacity sample multiplexing for single cell chromatin accessibility profiling

BMC GENOMICS

IF3.7

2023-12-04

OAAI

Booth, Gregory T.; Daza, Riza M.; Srivatsan, Sanjay R.; McFaline-Figueroa, Jose L.; Gladden, Rula Green; Mullen, Andrew C.; Furlan, Scott N.; Shendure, Jay; Trapnell, Cole

Save

Predicting cellular responses to complex perturbations in high-throughput screens

MOLECULAR SYSTEMS BIOLOGY

IF7.7

2023-05-08

OAAI

Lotfollahi, Mohammad; Susmelj, Anna Klimovskaia; De Donno, Carlo; Hetzel, Leon; Ji, Yuge; Ibarra, Ignacio L.; Srivatsan, Sanjay R.; Naghipourfar, Mohsen; Daza, Riza M.; Martin, Beth; Shendure, Jay; McFaline-Figueroa, Jose L.; Boyeau, Pierre; Wolf, F. Alexander; Yakubova, Nafissa; Guennemann, Stephan; Trapnell, Cole; Lopez-Paz, David; Theis, Fabian J.

Save

Migraine Prevalence in Gender Identity Minorities

NEUROLOGY

IF8.5

2023-04-25

PREAI

Wegener, David; McFaline-Figueroa, Jose; Goldstein, Robert

Save

Modelling ciliopathy phenotypes in human tissues derived from pluripotent stem cells with genetically ablated cilia (vol 6, pg 463, 2022)

NATURE BIOMEDICAL ENGINEERING

IF26.6

2022-05-24

OAAI

Cruz, Nelly M.; Reddy, Raghava; McFaline-Figueroa, Jose L.; Tran, Christine; Fu, Hongxia; Freedman, Benjamin S.

Save

Nuclear oligo hashing improves differential analysis of single-cell RNA-seq

NATURE COMMUNICATIONS

IF15.7

2022-05-13

OAAI

Kim, Hyeon-Jin; Booth, Greg; Saunders, Lauren; Srivatsan, Sanjay; McFaline-Figueroa, Jose L.; Trapnell, Cole

Save

Modelling ciliopathy phenotypes in human tissues derived from pluripotent stem cells with genetically ablated cilia

NATURE BIOMEDICAL ENGINEERING

IF26.6

2022-04-27

OAAI

Cruz, Nelly M.; Reddy, Raghava; McFaline-Figueroa, Jose L.; Tran, Christine; Fu, Hongxia; Freedman, Benjamin S.

Save

Neural G0: a quiescent-like state found in neuroepithelial-derived cells and glioma

MOLECULAR SYSTEMS BIOLOGY

IF7.7

2021-06-08

OAAI

O'Connor, Samantha A.; Feldman, Heather M.; Arora, Sonali; Hoellerbauer, Pia; Toledo, Chad M.; Corrin, Philip; Carter, Lucas; Kufeld, Megan; Bolouri, Hamid; Basom, Ryan; Delrow, Jeffrey; McFaline-Figueroa, Jose L.; Trapnell, Cole; Pollard, Steven M.; Patel, Anoop; Paddison, Patrick J.; Plaisier, Christopher L.

Save

Inferring Causal Gene Regulatory Networks from Coupled Single-Cell Expression Dynamics Using Scribe

CELL SYSTEMS

IF7.7

2020-03-01

OAAI

Qiu, Xiaojie; Rahimzamani, Arman; Wang, Li; Ren, Bingcheng; Mao, Qi; Durham, Timothy; McFaline-Figueroa, Jose L.; Saunders, Lauren; Trapnell, Cole; Kannan, Sreeram

Save

A pooled single-cell genetic screen identifies regulatory checkpoints in the continuum of the epithelial-to-mesenchymal transition

NATURE GENETICS

IF31.8

2019-09-02

118

OAAI

McFaline-Figueroa, Jose L.; Hill, Andrew J.; Qiu, Xiaojie; Jackson, Dana; Shendure, Jay; Trapnell, Cole

Save

Thyroid hormone regulates distinct paths to maturation in pigment cell lineages

ELIFE

IF0

2019-05-29

OAAI

Saunders, Lauren M.; Mishra, Abhishek K.; Aman, Andrew J.; Lewis, Victor M.; Toomey, Matthew B.; Packer, Jonathan S.; Qiu, Xiaojie; McFaline-Figueroa, Jose L.; Corbo, Joseph C.; Trapnell, Cole; Parichy, David M.

Save

Dynamics of Gene Expression in Single Root Cells of Arabidopsis thaliana

PLANT CELL

IF11.6

2019-03-28

258

OAAI

Jean-Baptiste, Ken; McFaline-Figueroa, Jose L.; Alexandre, Cristina M.; Dorrity, Michael W.; Saunders, Lauren; Bubb, Kerry L.; Trapnell, Cole; Fields, Stanley; Queitsch, Christine; Cuperus, Josh T.

Save

Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data

MOLECULAR CELL

IF16.6

2018-09-01

492

OAAI

Pliner, Hannah A.; Packer, Jonathan S.; McFaline-Figueroa, Jose L.; Cusanovich, Darren A.; Daza, Riza M.; Aghamirzaie, Delasa; Srivatsan, Sanjay; Qiu, Xiaojie; Jackson, Dana; Minkina, Anna; Adey, Andrew C.; Steemers, Frank J.; Shendure, Jay; Trapnell, Cole

Save

Targeting TWIST1 through loss of function inhibits tumorigenicity of human glioblastoma

MOLECULAR ONCOLOGY

IF4.5

2018-05-29

OAAI

Mikheev, Andrei M.; Mikheeva, Svetlana A.; Severs, Liza J.; Funk, Cory C.; Huang, Lei; McFaline-Figueroa, Jose L.; Schwensen, Jeanette; Trapnell, Cole; Price, Nathan D.; Wong, Stephen; Rostomily, Robert C.

Save

Research Directions