Pioneer factors as master regulators of the epigenome and cell fate

A Balsalobre, J Drouin - Nature Reviews Molecular Cell Biology, 2022 - nature.com
Pioneer factors are transcription factors with the unique ability to initiate opening of closed
chromatin. The stability of cell identity relies on robust mechanisms that maintain the …

Challenges and opportunities for consistent classification of human B cell and plasma cell populations

I Sanz, C Wei, SA Jenks, KS Cashman… - Frontiers in …, 2019 - frontiersin.org
The increasingly recognized role of different types of B cells and plasma cells in protective
and pathogenic immune responses combined with technological advances have generated …

A scalable SCENIC workflow for single-cell gene regulatory network analysis

B Van de Sande, C Flerin, K Davie, M De Waegeneer… - Nature protocols, 2020 - nature.com
This protocol explains how to perform a fast SCENIC analysis alongside standard best
practices steps on single-cell RNA-sequencing data using software containers and Nextflow …

How transcription factors drive choice of the T cell fate

H Hosokawa, EV Rothenberg - Nature Reviews Immunology, 2021 - nature.com
Recent evidence has elucidated how multipotent blood progenitors transform their identities
in the thymus and undergo commitment to become T cells. Together with environmental …

[HTML][HTML] YY1 is a structural regulator of enhancer-promoter loops

AS Weintraub, CH Li, AV Zamudio, AA Sigova… - Cell, 2017 - cell.com
There is considerable evidence that chromosome structure plays important roles in gene
control, but we have limited understanding of the proteins that contribute to structural …

[HTML][HTML] Mechanisms of central tolerance for B cells

D Nemazee - Nature Reviews Immunology, 2017 - nature.com
Immune tolerance hinders the potentially destructive responses of lymphocytes to host
tissues. Tolerance is regulated at the stage of immature B cell development (central …

MicroRNAs as regulatory elements in immune system logic

A Mehta, D Baltimore - Nature Reviews Immunology, 2016 - nature.com
MicroRNAs (miRNAs) are crucial post-transcriptional regulators of haematopoietic cell fate
decisions. They act by negatively regulating the expression of key immune development …

[HTML][HTML] Master transcription factors and mediator establish super-enhancers at key cell identity genes

WA Whyte, DA Orlando, D Hnisz, BJ Abraham, CY Lin… - Cell, 2013 - cell.com
Summary Master transcription factors Oct4, Sox2, and Nanog bind enhancer elements and
recruit Mediator to activate much of the gene expression program of pluripotent embryonic …

CD19 CAR immune pressure induces B-precursor acute lymphoblastic leukaemia lineage switch exposing inherent leukaemic plasticity

E Jacoby, SM Nguyen, TJ Fountaine, K Welp… - Nature …, 2016 - nature.com
Adoptive immunotherapy using chimeric antigen receptor (CAR) expressing T cells targeting
the CD19 B lineage receptor has demonstrated marked success in relapsed pre-B-cell acute …

Transcription factors: from enhancer binding to developmental control

F Spitz, EEM Furlong - Nature reviews genetics, 2012 - nature.com
Developmental progression is driven by specific spatiotemporal domains of gene
expression, which give rise to stereotypically patterned embryos even in the presence of …