Preprint Archives - Page 11 of 24 - New York Genome Center

biorXiv · May 5, 2025 · Preprint

CRISPRi perturbation screens and eQTLs provide complementary and distinct insights into GWAS target genes.

Samuel Ghatan, Jasper Panten, Winona Oliveros, Neville E Sanjana, John A Morris, Tuuli Lappalainen

bioRxiv · April 22, 2025 · Preprint

Oncogenic mutations disrupt lineage differentiation via epigenetic perturbations.

Lingjun Meng, Sylvia Katina Plevritis, Alice Yu, Jodie Meng, Yongjin Yoo, Justyna Janas, David A Knowles, Huanwei Huang, Katie Marie Schaukowitch

Knowles Lab

bioRxiv · April 19, 2025 · Preprint

Genome-wide mapping of mesoscale neuronal RNA organization and condensation.

Lindsay A. Becker, Sofia A. Quinodoz, Troy J. Comi, Ofer Kimchi, David A. Knowles, Clifford P. Brangwynne

Knowles Lab

medRxiv · April 16, 2025 · Preprint

Convex approaches to isolate the shared and distinct genetic structures of subphenotypes in heterogeneous complex traits.

Saikat Banerjee, Shane O’Connell, Sarah Colbert, Niamh Mullins, David A Knowles

Knowles Lab

bioRxiv · March 19, 2025 · Preprint

Measuring Longitudinal Genome-wide Clonal Evolution of Pediatric Acute Lymphoblastic Leukemia at Single-Cell Resolution.

Yakun Pang, Tamara Prieto, Veronica Gonzalez-Pena, Athena Aragon, Yuntao Xia, Sheng Kao, Sri Rajagopalan, John Zinno, Jean Quentin, Julien Laval, Dennis Yuan, Shulz Shawn, Nathaniel Omans, David Klein, Matthew MacKay, Iwijn De Vlaminck, John Easton, William Evans, Dan A. Landau, Charles Gawad

Landau Lab

Cancer

medRxiv · March 7, 2025 · Preprint

SingleBrain: A Meta-Analysis of Single-Nucleus eQTLs Linking Genetic Risk to Brain Disorders.

Beomjin Jang, Kailash BP, Alex Tokolyi, Winston H. Cuddleston, Ashvin Ravi, Sanghyuk Jung, Tatsuhiko Naito, Beomsu Kim, Min Seo Kim, Minyoung Cho, Mi-So Park, Mikaela Rosen, Joel Blanchard, Jack Humphrey, David A Knowles, Hong-Hee Won, Towfique Raj

Knowles Lab

bioRxiv · March 1, 2025 · Preprint

Multi-sample, multi-platform isoform quantification using empirical Bayes.

Arghamitra Talukder, Shree Thavarekere, Madison Mehlferber, Gloria M Sheynkman, David A Knowles

Knowles Lab

bioRxiv · February 27, 2025 · Preprint

Differential Cellular Mechanisms Underlie Language and Executive Decline in Amyotrophic Lateral Sclerosis.

Joana Petrescu, Claudio Gouveia Roque, Chris Jackson, Aidan Daly, Kristy Kang, Obadele Casel, Mathew Leung, Luke Reilly, Jacqueline Eschbach, Karina McDade, Jenna M Gregory, Colin Smith, Hemali Phatnani

Phatnani Lab

Neurodegenerative Disease

bioRxiv · February 23, 2025 · Preprint

Lancet2: Improved and accelerated somatic variant calling with joint multi-sample local assembly graph.

Rajeeva Lochan Musunuri, Wayne E. Clarke, Bryan Zhu, William Hooper, Timothy Chu, Jennifer Shelton, André Corvelo, Dickson Chung, Shreya Sundar, Adam M Novak, Benedict Paten, Michael C Zody, Nicolas Robine, Giuseppe Narzisi

Computational Biology Lab

bioRxiv · February 20, 2025 · Preprint

Uncovering the Signatures of Cellular Senescence in the Human Dorsolateral Prefrontal Cortex.

Nicholas Sloan, Jason Mares, Aidan C Daly, Lilian Coie, Shaunice Grier, Natalie Barretto, Obadele Casel, Kristy Kang, Chris Jackson, Maria Pedersen, Shruti Khiste, Ben Fullerton, Joana Petrescu, Courteney Mattison, Colin Smith, Yousin Suh, Vilas Menon, Hemali Phatnani.

Phatnani Lab

Neurodegenerative Disease