The 3D Genome in Brain Development: An Exploration of Molecular Mechanisms and Experimental Methods

Autor: Samir Rahman, Panos Roussos

Publikováno v: Neuroscience Insights, Vol 19 (2024)

The human brain contains multiple cell types that are spatially organized into functionally distinct regions. The proper development of the brain requires complex gene regulation mechanisms in both neurons and the non-neuronal cell types that support

Externí odkaz: https://doaj.org/article/3da48982b284432996f67202595fd96a

Chromatin domain alterations linked to 3D genome organization in a large cohort of schizophrenia and bipolar disorder brains

Autor: Kiran, Girdhar, Gabriel E, Hoffman, Jaroslav, Bendl, Samir, Rahman, Pengfei, Dong, Will, Liao, Mads E, Hauberg, Laura, Sloofman, Leanne, Brown, Olivia, Devillers, Bibi S, Kassim, Jennifer R, Wiseman, Royce, Park, Elizabeth, Zharovsky, Rivky, Jacobov, Elie, Flatow, Alexey, Kozlenkov, Thomas, Gilgenast, Jessica S, Johnson, Lizette, Couto, Mette A, Peters, Jennifer E, Phillips-Cremins, Chang-Gyu, Hahn, Raquel E, Gur, Carol A, Tamminga, David A, Lewis, Vahram, Haroutunian, Stella, Dracheva, Barbara K, Lipska, Stefano, Marenco, Marija, Kundakovic, John F, Fullard, Yan, Jiang, Panos, Roussos, Schahram, Akbarian

Publikováno v: Girdhar, K, Hoffman, G E, Bendl, J, Rahman, S, Dong, P, Liao, W, Hauberg, M E, Sloofman, L, Brown, L, Devillers, O, Kassim, B S, Wiseman, J R, Park, R, Zharovsky, E, Jacobov, R, Flatow, E, Kozlenkov, A, Gilgenast, T, Johnson, J S, Couto, L, Peters, M A, Phillips-Cremins, J E, Hahn, C G, Gur, R E, Tamminga, C A, Lewis, D A, Haroutunian, V, Dracheva, S, Lipska, B K, Marenco, S, Kundakovic, M, Fullard, J F, Jiang, Y, Roussos, P, Akbarian, S & PsychENCODE Consortium 2022, ' Chromatin domain alterations linked to 3D genome organization in a large cohort of schizophrenia and bipolar disorder brains ', Nature Neuroscience, vol. 25, no. 4, pp. 474-483 . https://doi.org/10.1038/s41593-022-01032-6

Chromosomal organization, scaling from the 147-base pair (bp) nucleosome to megabase-ranging domains encompassing multiple transcriptional units, including heritability loci for psychiatric traits, remains largely unexplored in the human brain. In th

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::adcb8bfeefa9fbf3ab86dae77f8e36dd
https://doi.org/10.1038/s41593-022-01032-6

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

Autor: Jaroslav 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, Georgios Voloudakis, Kristen J. Brennand, Ralph A. Nixon, Vahram Haroutunian, Gabriel E. Hoffman, John F. Fullard, Panos Roussos

Publikováno v: Bendl, J, Hauberg, M E, Girdhar, K, Im, E, Vicari, J M, Rahman, S, Fernando, M B, Townsley, K G, Dong, P, Misir, R, Kleopoulos, S P, Reach, S M, Apontes, P, Zeng, B, Zhang, W, Voloudakis, G, Brennand, K J, Nixon, R A, Haroutunian, V, Hoffman, G E, Fullard, J F & Roussos, P 2022, ' The three-dimensional landscape of cortical chromatin accessibility in Alzheimer’s disease ', Nature Neuroscience, vol. 25, no. 10, pp. 1366-1378 . https://doi.org/10.1038/s41593-022-01166-7
Nat Neurosci

To characterize the dysregulation of chromatin accessibility in Alzheimer’s disease (AD), we generated 636 ATAC-seq libraries from neuronal and nonneuronal nuclei isolated from the superior temporal gyrus and entorhinal cortex of 153 AD cases and 5

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::50ed5dff7de685cf1d386373b8ad4009
https://pure.au.dk/portal/da/publications/the-threedimensional-landscape-of-cortical-chromatin-accessibility-in-alzheimers-disease(6777827c-e6bb-4e67-b387-dec7c9ba155f).html

DWT Based Transformed Domain Feature Extraction Approach for Epileptic Seizure Detection

Autor: Mahajabin Mostafa, Mohtasim Abrar Samin, Nabila Bintey Hassan, Saiara Zerin Nibras, Samir Rahman, Mohammed Abid Abrar, Mohammad Zavid Parvez

Publikováno v: TENCON 2021 - 2021 IEEE Region 10 Conference (TENCON).

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::534cecb70739d17d74452758d1117189
https://doi.org/10.1109/tencon54134.2021.9707286

Acetylated Chromatin Domains Link Chromosomal Organization to Cell- and Circuit-level Dysfunction in Schizophrenia and Bipolar Disorder

Autor: Samir Rahman, Yan Jiang, Kiran Girdhar, Haroutunian, Pengfei Dong, Mette A. Peters, E Flatow, Chang-Gyu Hahn, Stella Dracheva, John F. Fullard, Schahram Akbarian, Barbara K. Lipska, R.E. Gur, Stefano Marenco, Couto L, Elizabeth Zharovsky, Royce Park, David A. Lewis, Gabriel E. Hoffman, Bibi Kassim, Alex Kozlenkov, Panagiotis Roussos, Carol A. Tamminga, Leanne Brown, Wiseman, Jaroslav Bendl, Thomas G. Gilgenast, Will Liao, Devillers O, Jessica S. Johnson, Marija Kundakovic, Jennifer E. Phillips-Cremins, Rivka Jacobov

To explore modular organization of chromosomes in schizophrenia (SCZ) and bipolar disorder (BD), we applied ‘population-scale’ correlational structuring of 739 histone H3-lysine 27 acetylation and H3-lysine 4 trimethylation profiles, generated fr

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::bb166c3df7dbce9f336a5660822ff83c
https://doi.org/10.1101/2021.06.02.446728