DeepVelo: Single-cell transcriptomic deep velocity field learning with neural ordinary differential equations.
Z Chen, WC King, A Hwang, M Gerstein, J Zhang (2022). Sci Adv 8: eabq3745.

Forest Fire Clustering for single-cell sequencing combines iterative label propagation with parallelized Monte Carlo simulations.
Z Chen, J Goldwasser, P Tuckman, J Liu, J Zhang, M Gerstein (2022). Nat Commun 13: 3538.

Approaches for integrating heterogeneous RNA-seq data reveal cross-talk between microbes and genes in asthmatic patients.
D Spakowicz, S Lou, B Barron, JL Gomez, T Li, Q Liu, N Grant, X Yan, R Hoyd, G Weinstock, GL Chupp, M Gerstein (2020). Genome Biol 21: 150.

A Single-Cell Transcriptomic Atlas of Human Neocortical Development during Mid-gestation.
D Polioudakis, L de la Torre-Ubieta, J Langerman, AG Elkins, X Shi, JL Stein, CK Vuong, S Nichterwitz, M Gevorgian, CK Opland, D Lu, W Connell, EK Ruzzo, JK Lowe, T Hadzic, FI Hinz, S Sabri, WE Lowry, MB Gerstein, K Plath, DH Geschwind (2019). Neuron 103: 785-801e8.

Comprehensive functional genomic resource and integrative model for the human brain.
D Wang, S Liu, J Warrell, H Won, X Shi, FCP Navarro, D Clarke, M Gu, P Emani, YT Yang, M Xu, MJ Gandal, S Lou, J Zhang, JJ Park, C Yan, SK Rhie, K Manakongtreecheep, H Zhou, A Nathan, M Peters, E Mattei, D Fitzgerald, T Brunetti, J Moore, Y Jiang, K Girdhar, GE Hoffman, S Kalayci, ZH Gumus, GE Crawford, PsychENCODE Consortium, P Roussos, S Akbarian, AE Jaffe, KP White, Z Weng, N Sestan, DH Geschwind, JA Knowles, MB Gerstein (2018). Science 362.

Integrative functional genomic analysis of human brain development and neuropsychiatric risks.
M Li, G Santpere, Y Imamura Kawasawa, OV Evgrafov, FO Gulden, S Pochareddy, SM Sunkin, Z Li, Y Shin, Y Zhu, AMM Sousa, DM Werling, RR Kitchen, HJ Kang, M Pletikos, J Choi, S Muchnik, X Xu, D Wang, B Lorente-Galdos, S Liu, P Giusti-Rodriguez, H Won, CA de Leeuw, AF Pardinas, BrainSpan Consortium, PsychENCODE Consortium, PsychENCODE Developmental Subgroup, M Hu, F Jin, Y Li, MJ Owen, MC O'Donovan, JTR Walters, D Posthuma, MA Reimers, P Levitt, DR Weinberger, TM Hyde, JE Kleinman, DH Geschwind, MJ Hawrylycz, MW State, SJ Sanders, PF Sullivan, MB Gerstein, ES Lein, JA Knowles, N Sestan (2018). Science 362.


Return to front page