Systematic identification of seed-driven off-target effects in Perturb-seq experiments
Austin Hartman; John D Blair; Thao P Nguyen; Kyle Dyson; Alexandra Bradu; Oliver Takacsi-Nagy; Katherine Santostefano; Theresa Boade; Matthew Bolaños; Ronghui Zhu; Emma Dann; Alexander Marson; Aaron D Gitler; Rahul Satija; Ansuman T Satpathy; Theodore L Roth
bioRxiv, 27 March 2026
Molecular pixelation of the CAR T cell surface proteome
Anthony Cesnik; Oliver Takacsi-Nagy; Trang Le; Theodore L Roth; Ansuman T Satpathy; Emma Lundberg
bioRxiv, 2 February 2026
FAK Inhibition Remodels the Metastatic ECM and Restores CD8+ T Cell Trafficking and Immunosurveillance
Barth ND; Peng B; Papanicolaou M; Moughari FA; Duran CL; McGinnis CS; Dawson JC; Webb ER; Muir M; Laing F; Jung Y; He X; Satpathy AT; Egeblad M; Haider S; Natrajan R; Oktay MH; Entenberg D; Brunton VG
bioRxiv, 23 January 2026
T cell engagers control solid tumors through clonal replacement and IL2-driven effector differentiation of CD8 T cells
Matthias Obenaus; Clara L Poupault; Christopher S McGinnis; Céline Prange; Hua Jiang; Leon L Su; Xiaojing Chen; Zhuang Miao; Joseph J Muldoon; Winnie Yao; Deepa Waghray; Qinli Sun; Justin Eyquem; Rogelio A Hernández-López; Ansuman T Satpathy; Julien Sage; K Christopher Garcia
bioRxiv, 4 December 2025
A unified genetic perturbation language for human cellular programming
Austin Hartman; Oliver Takacsi-Nagy; Courtney Kernick; Nicole E Theberath; Johnathan Lu; Lujing Wu; Michelle Mantilla; Siddhesh Mittra; Alison McClellan; Nicole Johnson; Lina Mohamad; Lesly Castillo-Colin; Farzad Hoque; Alexander Eapen; Andy Chen; Laura M Moser; Trini Rogando; Anabella Hernandez; Katherine Santostefano; Ansuman T Satpathy; Theodore L Roth
bioRxiv, 20 November 2025
Scalable transcription factor mapping uncovers the regulatory dynamics of natural and synthetic transcription factors in human T cell states
Riley D Z Mullins; Jesse Zaretsky; Emily Stoller; Michael Moore; Oliver Takacsi-Nagy; Oleg Shpynov; Remi Sampaleanu; Theodore L Roth; Ansuman T Satpathy; Robi D Mitra; Sidharth V Puram
bioRxiv, 10 October 2025
Cell cycle-coupled transcriptional network orchestrates human B cell fate bifurcation
Nicholas A Pease; Jingyu Fan; Swapnil Keshari; Jered Stratton; Peter Gerges; Betsy Ann Varghese; Narayanan Vp Nampoothiri; Christopher S McGinnis; Wenxi Zhang; Steven B Gierlack; Tanush Swaminathan; Akanksha Sachan; Godhev Manakkat Vijay; Luis Mena Hernandez; Zarifeh Heidari Rarani; Camila Macedo; Diana Metes; Ansuman T Satpathy; Abhinav K Jain; Nidhi Sahni; Wayne Stallaert; Jishnu Das; Harinder Singh
bioRxiv, 23 April 2025
Functional memory T cells are derived from exhausted clones and expanded by checkpoint blockade
Colin J Raposo; Patrick K Yan; Andy Y Chen; Saba Majidi; Kamir J Hiam-Galvez; Ansuman T Satpathy
bioRxiv, 15 February 2025