Publications

Preprints/Submitted

  • Pramod Bharadwaj Chandrashekar, Jiebiao Wang, Gabriel E. Hoffman, Chenfeng He, Ting Jin, Sayali Alatkar, Saniya Khullar, Jaroslav Bendl, John F. Fullard, Panagiotis Roussos, Daifeng Wang, DeepGAMI: Deep biologically guided auxiliary learning for multimodal integration and imputation to improve phenotype prediction, submitted, Biorxiv
  • Chenfeng He, Noah Cohen Kalafut, Soraya O. Sandoval, Ryan Risgaard, Chen Yang, Saniya Khullar, Marin Suzuki, Qiang Chang, Xinyu Zhao, Andre M.M. Sousa, Daifeng Wang, Brain and Organoid Manifold Alignment (BOMA), a machine learning framework for comparative gene expression analysis across brains and organoids, under review, Biorxiv
  • Shuang Liu*, Hyejung Won*, Declan Clarke*, Nana Matoba, Saniya Khullar, Yudi Mu, Daifeng Wang#, Mark Gerstein#, Illuminating links between cis-regulators and trans-acting variants in the human prefrontal cortex, in revision, Biorxiv
  • Saniya Khullar, Daifeng Wang, Predicting gene regulatory networks from multi-omics to link genetic risk variants and neuroimmunology to Alzheimer’s disease phenotypes, under review, Biorxiv
  • Jillian R. Haney, Brie Wamsley, George T. Chen, Sepideh Parhami, Prashant S. Emani, Nathan Chang, Gil D. Hoftman, Diego de Alba, Gaurav Kale, Gokul Ramaswami, Christopher L. Hartl, Ting Jin, Daifeng Wang, Jing Ou, Ye Emily Wu, Neelroop N. Parikshak, Vivek Swarup, T. Grant Belgard, Mark Gerstein, Bogdan Pasaniuc, Michael J. Gandal, Daniel H. Geschwind, Broad transcriptomic dysregulation across the cerebral cortex in ASD, revision under review, Biorxiv

Papers

(Bold: lab members; *co-first-author, equal contribution; # co-corresponding author)

2022

2021

2020

2019

2018

2017

2016

Before 2016

Book reviews and chapters