This study investigates the 3D genome organization in human brain development, finding differences in compartment and loop domain formation between neurons and glia.

Nucleic Acids Research · Oct 9, 2023Peer-reviewedGenomics

The three-dimensional landscape of chromatin accessibility in Alzheimer's disease

Jaroslav M. Bendl, Mads E. Hauberg, Kiran Girdhar, Eunju Im, James M. Vicari, Samir Rahman, Michael B. Fernando, Kayla G. Townsley, Pengfei Dong, Ruth Misir, Steven P. Kleopoulos, Sarah M. Reach, Pasha Apontes, Biao Zeng, Wen Zhang, , Panos Roussos

This study maps chromatin accessibility in Alzheimer's disease using ATAC-seq, identifying regulatory changes and 3D genomic alterations linked to disease.

Nature Neuroscience · Sep 28, 2022Peer-reviewedNeuroscience

Population-level variation of enhancer expression identifies novel disease mechanisms in the human brain

Pengfei Dong, Gabriel E. Hoffman, Pasha Apontes, Jaroslav M. Bendl, Samir Rahman, Michael B. Fernando, Biao Zeng, James M. Vicari, Wen Zhang, Kiran Girdhar, Kayla G. Townsley, Ruth Misir, Andrew J. Chess, Attila Gulyás-Kovács, Bibi S. Kassim, , Panos Roussos

The paper identifies population-level variation in enhancer expression in the human brain and links enhancer eQTL to schizophrenia heritability.

Nature Genetics · Sep 26, 2022Peer-reviewedNeuroscience

Transcriptional and epigenetic characterization of early striosomes identifies Foxf2 and Olig2 as factors required for development of striatal compartmentation and neuronal phenotypic differentiation

Maria‐Daniela Cirnaru, Sicheng Song, Kizito‐Tshitoko Tshilenge, Chuhyon Corwin, Justyna Mleczko, Carlos Galicia Aguirre, Houda Benlhabib, Jaroslav M. Bendl, Pasha Apontes, John F. Fullard, Jordi Creus‐Muncunill, Azadeh Reyahi, Ali Moussavi Nik, Peter Carlsson, Panos Roussos, , Michelle E. Ehrlich

The paper identifies Foxf2 and Olig2 as key transcription factors regulating striatal compartmentation and neuronal differentiation through RNA- and ATAC-seq analysis of murine striosomes and matrix.

eLife · Oct 5, 2021Peer-reviewedNeuroscience