Mitochondria and Iron: current questions

BT Paul, DH Manz, FM Torti, SV Torti - Expert review of hematology, 2017 - Taylor & Francis
Introduction: Mitochondria are cellular organelles that perform numerous bioenergetic,
biosynthetic, and regulatory functions and play a central role in iron metabolism …

Absence of a simple code: how transcription factors read the genome

M Slattery, T Zhou, L Yang, ACD Machado… - Trends in biochemical …, 2014 - cell.com
Transcription factors (TFs) influence cell fate by interpreting the regulatory DNA within a
genome. TFs recognize DNA in a specific manner; the mechanisms underlying this …

Transcription factors interact with RNA to regulate genes

O Oksuz, JE Henninger, R Warneford-Thomson… - Molecular cell, 2023 - cell.com
Transcription factors (TFs) orchestrate the gene expression programs that define each cell's
identity. The canonical TF accomplishes this with two domains, one that binds specific DNA …

Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)1

DJ Klionsky, AK Abdel-Aziz, S Abdelfatah, M Abdellatif… - autophagy, 2021 - Taylor & Francis
In 2008, we published the first set of guidelines for standardizing research in autophagy.
Since then, this topic has received increasing attention, and many scientists have entered …

Mapping and analysis of chromatin state dynamics in nine human cell types

J Ernst, P Kheradpour, TS Mikkelsen, N Shoresh… - Nature, 2011 - nature.com
Chromatin profiling has emerged as a powerful means of genome annotation and detection
of regulatory activity. The approach is especially well suited to the characterization of non …

Leukemic IDH1 and IDH2 mutations result in a hypermethylation phenotype, disrupt TET2 function, and impair hematopoietic differentiation

ME Figueroa, O Abdel-Wahab, C Lu, PS Ward, J Patel… - Cancer cell, 2010 - cell.com
Cancer-associated IDH mutations are characterized by neomorphic enzyme activity and
resultant 2-hydroxyglutarate (2HG) production. Mutational and epigenetic profiling of a large …

Combinatorial transcriptional control in blood stem/progenitor cells: genome-wide analysis of ten major transcriptional regulators

NK Wilson, SD Foster, X Wang, K Knezevic, J Schütte… - Cell stem cell, 2010 - cell.com
Combinatorial transcription factor (TF) interactions control cellular phenotypes and,
therefore, underpin stem cell formation, maintenance, and differentiation. Here, we report the …

MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets

Z Shao, Y Zhang, GC Yuan, SH Orkin, DJ Waxman - Genome biology, 2012 - Springer
ChIP-Seq is widely used to characterize genome-wide binding patterns of transcription
factors and other chromatin-associated proteins. Although comparison of ChIP-Seq data …

From stem cell to red cell: regulation of erythropoiesis at multiple levels by multiple proteins, RNAs, and chromatin modifications

SM Hattangadi, P Wong, L Zhang… - Blood, The Journal …, 2011 - ashpublications.org
This article reviews the regulation of production of RBCs at several levels. We focus on the
regulated expansion of burst-forming unit-erythroid erythroid progenitors by glucocorticoids …

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

L Song, Z Zhang, LL Grasfeder, AP Boyle… - Genome …, 2011 - genome.cshlp.org
The human body contains thousands of unique cell types, each with specialized functions.
Cell identity is governed in large part by gene transcription programs, which are determined …