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Pathway Network Tools

Software Project

PxN - Pathway Networks (2025 Release) Github PCxN - Pathway co-expression network (2018 Release) Publication GitHub Bioconductor PCxN website

Pathprint

Software Project

GitHub Bioconductor Publication

Winston Hide

he/him

Person: Associate Professor, Harvard Medical School, Beth Israel Deaconess Medical Center, Department of Pathology

Winston Hide, PhD, is a computational biologist specializing in bioinformatics, genomics, and systems biology. He is an Associate Professor of Pathology at Harvard Medical School and Director of the RNA Precision Medicine Core at BIDMC. His research focuses on molecular resilience in neurodegenerative diseases, using multi-omic data to identify therapeutic targets. He founded the South African National Bioinformatics Institute, advancing bioinformatics training and capacity in Africa. His current work integrates spatial transcriptomics and AI to drive precision medicine for neurodegenerative diseases.

Molecular hallmarks of excitatory and inhibitory neuronal resilience to Alzheimer's disease.

Publication: Journal Article

Castanho, Isabel, Pourya Naderi Yeganeh, Carles A Boix, Sarah L Morgan, Hansruedi Mathys, Dmitry Prokopenko, Bartholomew White, et al. 2025. “Molecular Hallmarks of Excitatory and Inhibitory Neuronal Resilience to Alzheimer’s Disease.”. Molecular Neurodegeneration 20 (1): 103.

Tumor editing suppresses innate and adaptive antitumor immunity and is reversed by inhibiting DNA methylation.

Publication: Journal Article

Zhang, Ying, Pourya Naderi Yeganeh, Haiwei Zhang, Simon Yuan Wang, Zhouyihan Li, Bowen Gu, Dian-Jang Lee, et al. 2024. “Tumor Editing Suppresses Innate and Adaptive Antitumor Immunity and Is Reversed by Inhibiting DNA Methylation.”. Nature Immunology 25 (10): 1858-70.

Region-based analysis of rare genomic variants in whole-genome sequencing datasets reveal two novel Alzheimer's disease-associated genes: DTNB and DLG2.

Publication: Journal Article

Prokopenko, Dmitry, Sanghun Lee, Julian Hecker, Kristina Mullin, Sarah Morgan, Yuriko Katsumata, Alzheimer’s Disease Neuroimaging Initiative, et al. 2022. “Region-Based Analysis of Rare Genomic Variants in Whole-Genome Sequencing Datasets Reveal Two Novel Alzheimer’s Disease-Associated Genes: DTNB and DLG2.”. Molecular Psychiatry 27 (4): 1963-69.

A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2.

Publication: Journal Article

Delorey, Toni M, Carly G K Ziegler, Graham Heimberg, Rachelly Normand, Yiming Yang, Åsa Segerstolpe, Domenic Abbondanza, et al. 2021. “A Single-Cell and Spatial Atlas of Autopsy Tissues Reveals Pathology and Cellular Targets of SARS-CoV-2.”. BioRxiv : The Preprint Server for Biology.

Whole-genome sequencing reveals new Alzheimer's disease-associated rare variants in loci related to synaptic function and neuronal development.

Publication: Journal Article

Prokopenko, Dmitry, Sarah L Morgan, Kristina Mullin, Oliver Hofmann, Brad Chapman, Rory Kirchner, Sandeep Amberkar, et al. 2020. “Whole-Genome Sequencing Reveals New Alzheimer’s Disease-Associated Rare Variants in Loci Related to Synaptic Function and Neuronal Development.”. MedRxiv : The Preprint Server for Health Sciences.

Deep phenotyping of peripheral tissue facilitates mechanistic disease stratification in sporadic Parkinson's disease.

Publication: Journal Article

Carling, Phillippa J, Heather Mortiboys, Claire Green, Simeon Mihaylov, Cynthia Sandor, Aurelie Schwartzentruber, Rosie Taylor, et al. 2020. “Deep Phenotyping of Peripheral Tissue Facilitates Mechanistic Disease Stratification in Sporadic Parkinson’s Disease.”. Progress in Neurobiology 187: 101772.

Evaluation of Risk of Injury by Extravasation of Hyperosmolar and Vasopressor Agents in a Rat Model.

Publication: Journal Article

Shibata, Yuuka, Yumeka Sagara, Tomoharu Yokooji, Takanori Taogoshi, Maiko Tanaka, Michihiro Hide, and Hiroaki Matsuo. 2018. “Evaluation of Risk of Injury by Extravasation of Hyperosmolar and Vasopressor Agents in a Rat Model.”. Biological & Pharmaceutical Bulletin 41 (6): 951-56.