Chromatin accessibility profiling by ATAC-seq

FC Grandi, H Modi, L Kampman, MR Corces - Nature protocols, 2022 - nature.com
The assay for transposase-accessible chromatin using sequencing (ATAC-seq) provides a
simple and scalable way to detect the unique chromatin landscape associated with a cell …

Whole-genome sequencing of chronic lymphocytic leukemia identifies subgroups with distinct biological and clinical features

P Robbe, KE Ridout, DV Vavoulis, H Dréau… - Nature …, 2022 - nature.com
The value of genome-wide over targeted driver analyses for predicting clinical outcomes of
cancer patients is debated. Here, we report the whole-genome sequencing of 485 chronic …

Fine-mapping, trans-ancestral and genomic analyses identify causal variants, cells, genes and drug targets for type 1 diabetes

CC Robertson, JRJ Inshaw, S Onengut-Gumuscu… - Nature …, 2021 - nature.com
We report the largest and most diverse genetic study of type 1 diabetes (T1D) to date
(61,427 participants), yielding 78 genome-wide-significant (P< 5× 10− 8) regions, including …

The pioneer factor SOX9 competes for epigenetic factors to switch stem cell fates

Y Yang, N Gomez, N Infarinato, RC Adam… - Nature Cell …, 2023 - nature.com
During development, progenitors simultaneously activate one lineage while silencing
another, a feature highly regulated in adult stem cells but derailed in cancers. Equipped to …

Immune determinants of CAR-T cell expansion in solid tumor patients receiving GD2 CAR-T cell therapy

S Kaczanowska, T Murty, A Alimadadi, CF Contreras… - Cancer Cell, 2024 - cell.com
Chimeric antigen receptor T cells (CAR-Ts) have remarkable efficacy in liquid tumors, but
limited responses in solid tumors. We conducted a Phase I trial (NCT02107963) of GD2 …

Maternal diet alters long-term innate immune cell memory in fetal and juvenile hematopoietic stem and progenitor cells in nonhuman primate offspring

MJ Nash, E Dobrinskikh, TK Soderborg, RC Janssen… - Cell reports, 2023 - cell.com
Maternal overnutrition increases inflammatory and metabolic disease risk in postnatal
offspring. This constitutes a major public health concern due to increasing prevalence of …

[HTML][HTML] Reversible, tunable epigenetic silencing of TCF1 generates flexibility in the T cell memory decision

K Abadie, EC Clark, RM Valanparambil, O Ukogu… - Immunity, 2024 - cell.com
The immune system encodes information about the severity of a pathogenic threat in the
quantity and type of memory cells it forms. This encoding emerges from lymphocyte …

Single-cell transcriptome and accessible chromatin dynamics during endocrine pancreas development

E Duvall, CM Benitez, K Tellez… - Proceedings of the …, 2022 - National Acad Sciences
Delineating gene regulatory networks that orchestrate cell-type specification is a continuing
challenge for developmental biologists. Single-cell analyses offer opportunities to address …

FACT regulates pluripotency through proximal and distal regulation of gene expression in murine embryonic stem cells

DC Klein, SM Lardo, KN McCannell, SJ Hainer - BMC biology, 2023 - Springer
Background The FACT complex is a conserved histone chaperone with critical roles in
transcription and histone deposition. FACT is essential in pluripotent and cancer cells, but …

Germline biallelic mutation affecting the transcription factor Helios causes pleiotropic defects of immunity

T Shahin, HS Kuehn, MR Shoeb, L Gawriyski… - Science …, 2021 - science.org
Helios, a member of the Ikaros family of transcription factors, is predominantly expressed in
developing thymocytes, activated T cells, and regulatory T cells (Tregs). Studies in mice …