article-journal

Inferring dynamic regulatory interaction graphs from time series data with perturbations

Dhananjay Bhaskar, Sumner Magruder, Edward De Brouwer, Aarthi Venkat, Frederik Wenkel, Guy Wolf, Smita Krishnaswamy

Learning transcriptional and regulatory dynamics driving cancer cell plasticity using neural ODE-based optimal transport

Alexander Tong, Manik Kuchroo, Shabarni Gupta, Aarthi Venkat, Beatriz Perez San Juan, Laura Rangel, Brandon Zhu, John G Lock, Christine Chaffer, Smita Krishnaswamy

Multiscale geometric and topological analyses for characterizing and predicting immune responses from single cell data

Aarthi Venkat, Dhananjay Bhaskar, Smita Krishnaswamy

PD-1 maintains CD8 T cell tolerance towards cutaneous neoantigens

Martina Damo, Noah I Hornick, Aarthi Venkat, Ivana William, Kathryn Clulo, Srividhya Venkatesan, Jiaming He, Eric Fagerberg, Jennifer L Loza, Darwin Kwok, others

Single-cell multi-modal GAN reveals spatial patterns in single-cell data from triple-negative breast cancer

Matthew Amodio, Scott E Youlten, Aarthi Venkat, Beatriz P San Juan, Christine L Chaffer, Smita Krishnaswamy

A reservoir of stem-like CD8+ T cells in the tumor-draining lymph node preserves the ongoing antitumor immune response

Kelli A Connolly, Manik Kuchroo, Aarthi Venkat, Achia Khatun, Jiawei Wang, Ivana William, Noah I Hornick, Brittany L Fitzgerald, Martina Damo, Moujtaba Y Kasmani, others

Third-generation sequencing revises the molecular karyotype for Toxoplasma gondii and identifies emerging copy number variants in sexual recombinants

Jing Xia, Aarthi Venkat, Rachel E Bainbridge, Michael L Reese, Karine G Le Roch, Ferhat Ay, Jon P Boyle

Twitter-based analysis reveals differential COVID-19 concerns across areas with socioeconomic disparities

Yihua Su, Aarthi Venkat, Yadush Yadav, Lisa B Puglisi, Samah J Fodeh

Comparative 3D genome organization in apicomplexan parasites

Evelien M Bunnik, Aarthi Venkat, Jianlin Shao, Kathryn E McGovern, Gayani Batugedara, Danielle Worth, Jacques Prudhomme, Stacey A Lapp, Chiara Andolina, Leila S Ross, others