Krüppel-like factors compete for promoters and enhancers to fine-tune transcription

EKLF/KLF1-regulated cell cycle exit is essential for erythroblast enucleation

(2016) M. N. Gnanapragasam et al.   BLOOD

Kruppeling erythropoiesis: an unexpected broad spectrum of human red blood cell disorders due to KLF1 variants

(2016) A. Perkins et al.   BLOOD

Genetic dissection of the α-globin super-enhancer in vivo

(2016) Deborah Hay et al.   NATURE GENETICS

An interactive environment for agile analysis and visualization of ChIP-sequencing data

(2016) Mads Lerdrup et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A high definition look at the NF-Y regulome reveals genome-wide associations with selected transcription factors

(2016) Diletta Dolfini et al.   NUCLEIC ACIDS RESEARCH

Promiscuous DNA-binding of a mutant zinc finger protein corrupts the transcriptome and diminishes cell viability

(2016) Kevin R. Gillinder et al.   NUCLEIC ACIDS RESEARCH

An interactive environment for agile analysis and visualization of ChIP-sequencing data

(2016) Mads Lerdrup et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

NF-E2, FLI1 and RUNX1 collaborate at areas of dynamic chromatin to activate transcription in mature mouse megakaryocytes

(2016) Chongzhi Zang et al.   Scientific Reports

KLF1-null neonates display hydrops fetalis and a deranged erythroid transcriptome

(2015) G. W. Magor et al.   BLOOD

KLF/SP Transcription Factor Family Evolution: Expansion, Diversification, and Innovation in Eukaryotes

(2015) Jason S. Presnell et al.   Genome Biology and Evolution

KLF10 affects pancreatic function via the SEI-1/p21Cip1 pathway

(2015) Min-Ju Wu et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Phosphorylation of Krüppel-like Factor 3 (KLF3/BKLF) and C-terminal Binding Protein 2 (CtBP2) by Homeodomain-interacting Protein Kinase 2 (HIPK2) Modulates KLF3 DNA Binding and Activity

(2015) Vitri Dewi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

PPAR-α and glucocorticoid receptor synergize to promote erythroid progenitor self-renewal

(2015) Hsiang-Ying Lee et al.   NATURE

Competition between DNA methylation and transcription factors determines binding of NRF1

(2015) Silvia Domcke et al.   NATURE

Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells

(2015) Erik Arner et al.   SCIENCE

Zinc Finger Independent Genome-Wide Binding of Sp2 Potentiates Recruitment of Histone-Fold Protein Nf-y Distinguishing It from Sp1 and Sp3

(2015) Sara Völkel et al.   PLoS Genetics

Browning of human adipocytes requires KLF11 and reprogramming of PPARγ superenhancers

(2014) Anne Loft et al.   GENES & DEVELOPMENT

Kruppel-like Factor-9 (KLF9) Inhibits Glioblastoma Stemness through Global Transcription Repression and Integrin α6 Inhibition

(2014) Mingyao Ying et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Kruppel-Like Factor 4 Is Essential for Inflammatory Monocyte Differentiation In Vivo

(2014) J. K. Alder et al.   JOURNAL OF IMMUNOLOGY

An atlas of active enhancers across human cell types and tissues

(2014) Robin Andersson et al.   NATURE

Topologically associating domains are stable units of replication-timing regulation

(2014) Benjamin D. Pope et al.   NATURE

Interactive visualization and analysis of large-scale sequencing datasets using ZENBU

(2014) Jessica Severin et al.   NATURE BIOTECHNOLOGY

Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment

(2014) Jim R Hughes et al.   NATURE GENETICS

eulerAPE: Drawing Area-Proportional 3-Venn Diagrams Using Ellipses

(2014) Luana Micallef et al.   PLoS One

Generation of Mice Deficient in both KLF3/BKLF and KLF8 Reveals a Genetic Interaction and a Role for These Factors in Embryonic Globin Gene Silencing

(2013) A. P. W. Funnell et al.   MOLECULAR AND CELLULAR BIOLOGY

Regions outside the DNA-binding domain are critical for proper in vivo specificity of an archetypal zinc finger transcription factor

(2013) J. Burdach et al.   NUCLEIC ACIDS RESEARCH

Decoding a Signature-Based Model of Transcription Cofactor Recruitment Dictated by Cardinal Cis-Regulatory Elements in Proximal Promoter Regions

(2013) Christopher Benner et al.   PLoS Genetics

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

Novel roles for KLF1 in erythropoiesis revealed by mRNA-seq

(2012) M. R. Tallack et al.   GENOME RESEARCH

The CACCC-Binding Protein KLF3/BKLF Represses a Subset of KLF1/EKLF Target Genes and Is Required for Proper Erythroid Maturation In Vivo

(2012) A. P. W. Funnell et al.   MOLECULAR AND CELLULAR BIOLOGY

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Genome-wide localization and expression profiling establish Sp2 as a sequence-specific transcription factor regulating vitally important genes

(2012) Gloria Terrados et al.   NUCLEIC ACIDS RESEARCH

Inferring direct DNA binding from ChIP-seq

(2012) Timothy L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Regulation of Delta-Aminolevulinic Acid Dehydratase by Krüppel-Like Factor 1

(2012) Aurelie D. Desgardin et al.   PLoS One

DREME: motif discovery in transcription factor ChIP-seq data

(2011) Timothy L. Bailey   BIOINFORMATICS

The Myeloid Transcription Factor KLF2 Regulates the Host Response to Polymicrobial Infection and Endotoxic Shock

(2011) Ganapati H. Mahabeleshwar et al.   IMMUNITY

Inducible Fli-1 gene deletion in adult mice modifies several myeloid lineage commitment decisions and accelerates proliferation arrest and terminal erythrocytic differentiation

(2010) J. Starck et al.   BLOOD

A global role for KLF1 in erythropoiesis revealed by ChIP-seq in primary erythroid cells

(2010) M. R. Tallack et al.   GENOME RESEARCH

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Megakaryocyte-erythroid lineage promiscuity in EKLF null mouse blood

(2009) M. R. Tallack et al.   HAEMATOLOGICA

EKLF/KLF1 Controls Cell Cycle Entry via Direct Regulation of E2f2

(2009) Michael R. Tallack et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

The biphasic behavior of incoherent feed-forward loops in biomolecular regulatory networks

(2008) Dongsan Kim et al.   BIOESSAYS

Integration of External Signaling Pathways with the Core Transcriptional Network in Embryonic Stem Cells

(2008) Xi Chen et al.   CELL

Identification of erythroid-enriched gene expression in the mouse embryonic yolk sac using microdissected cells

(2008) Latasha C. Redmond et al.   DEVELOPMENTAL DYNAMICS

KLF4 regulation in intestinal epithelial cell maturation

(2008) M. Flandez et al.   EXPERIMENTAL CELL RESEARCH

Targeted Disruption of the Basic Kruppel-Like Factor Gene (Klf3) Reveals a Role in Adipogenesis

(2008) N. Sue et al.   MOLECULAR AND CELLULAR BIOLOGY

Failure of Terminal Erythroid Differentiation in EKLF-Deficient Mice Is Associated with Cell Cycle Perturbation and Reduced Expression of E2F2

(2008) A. M. Pilon et al.   MOLECULAR AND CELLULAR BIOLOGY

A core Klf circuitry regulates self-renewal of embryonic stem cells

(2008) Jianming Jiang et al.   NATURE CELL BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY