Emergence and fate of stem cell–like Tcf7+ CD8+ T cells during a primary immune response to viral infection

JG Silva, D Pais Ferreira, A Dumez, T Wyss… - Science …, 2023 - science.org
In response to infection, naïve CD8+ T (TN) cells yield a large pool of short-lived terminal
effector (TTE) cells that eliminate infected host cells. In parallel, a minor population of stem …

[HTML][HTML] Changes in chromatin accessibility and transcriptional landscape induced by HDAC inhibitors in TP53 mutated patient-derived colon cancer organoids

T Gagliano, E Kerschbamer, U Baccarani… - Biomedicine & …, 2024 - Elsevier
Here we present the generation and characterization of patient-derived organoids (PDOs)
from colorectal cancer patients. PDOs derived from two patients with TP53 mutations were …

Emerging Approaches to Profile Accessible Chromatin from Formalin-Fixed Paraffin-Embedded Sections

VUN Sunitha Kumary, BJ Venters, K Raman, S Sen… - Epigenomes, 2024 - mdpi.com
Nucleosomes are non-uniformly distributed across eukaryotic genomes, with stretches of
'open'chromatin strongly associated with transcriptionally active promoters and enhancers …

Distinct structural and functional heterochromatin partitioning of lamin B1 and lamin B2 revealed using genome-wide nicking enzyme epitope targeted DNA …

S Sen, PO Estève, K Raman, J Beaulieu… - Nucleic Acids …, 2025 - academic.oup.com
Gene expression is regulated by chromatin DNA methylation and other features, including
histone post-translational modifications (PTMs), chromatin remodelers and transcription …

Poly ADP-ribosylation of SET8 leads to aberrant H4K20 methylation in mammalian nuclear genome

PO Estève, S Sen, US Vishnu, C Ruse… - Communications …, 2022 - nature.com
In mammalian cells, SET8 mediated Histone H4 Lys 20 monomethylation (H4K20me1) has
been implicated in regulating mitotic condensation, DNA replication, DNA damage …

Universal NicE-seq for high-resolution accessible chromatin profiling for formaldehyde-fixed and FFPE tissues

HG Chin, Z Sun, US Vishnu, P Hao, P Cejas… - Clinical …, 2020 - Springer
Accessible chromatin plays a central role in gene expression and chromatin architecture.
Current accessible chromatin approaches depend on limited digestion/cutting and pasting …

One-pot universal NicE-seq: all enzymatic downstream processing of 4% formaldehyde crosslinked cells for chromatin accessibility genomics

US Vishnu, PO Estève, HG Chin, S Pradhan - Epigenetics & chromatin, 2021 - Springer
Background Accessible chromatin landscape allows binding of transcription factors, and
remodeling of promoter and enhancer elements during development. Chromatin …

Transcription suppression is mediated by the HDAC1–Sin3 complex in Xenopus nucleoplasmic extract

CE Quaas, B Lin, DT Long - Journal of Biological Chemistry, 2022 - jbc.org
Modification of histones provides a dynamic mechanism to regulate chromatin structure and
access to DNA. Histone acetylation, in particular, plays a prominent role in controlling the …

Distinct structural and functional heterochromatin partitioning of lamin B1 and B2 revealed using genome-wide Nicking Enzyme Epitope targeted DNA sequencing

S Sen, PO Estève, K Raman, J Beaulieu, HG Chin… - bioRxiv, 2024 - biorxiv.org
A genome-wide chromatin profiling technology, named as Nicking Enzyme Epitope targeted
DNA sequencing (NEED-seq) in which antibody-targeted controlled nicking by Nt. CviPII …

[PDF][PDF] Emerging Approaches to Profile Accessible Chromatin from Ffpe Sections

VUS Kumary, BJ Venters, K Raman, S Sen, PO Estève… - 2024 - preprints.org
Nucleosomes are non-uniformly distributed across eukarytic genomes, with stretches of
'open'chromatin strongly associated with transcriptionally active promoters and enhancers …