Transcriptional enhancers: from properties to genome-wide predictions
Cellular development, morphology and function are governed by precise patterns of gene
expression. These are established by the coordinated action of genomic regulatory …
expression. These are established by the coordinated action of genomic regulatory …
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 …
expression, which give rise to stereotypically patterned embryos even in the presence of …
Determination and inference of eukaryotic transcription factor sequence specificity
Transcription factor (TF) DNA sequence preferences direct their regulatory activity, but are
currently known for only∼ 1% of eukaryotic TFs. Broadly sampling DNA-binding domain …
currently known for only∼ 1% of eukaryotic TFs. Broadly sampling DNA-binding domain …
A compendium of RNA-binding motifs for decoding gene regulation
RNA-binding proteins are key regulators of gene expression, yet only a small fraction have
been functionally characterized. Here we report a systematic analysis of the RNA motifs …
been functionally characterized. Here we report a systematic analysis of the RNA motifs …
Homeodomain proteins: an update
TR Bürglin, M Affolter - Chromosoma, 2016 - Springer
Here, we provide an update of our review on homeobox genes that we wrote together with
Walter Gehring in 1994. Since then, comprehensive surveys of homeobox genes have …
Walter Gehring in 1994. Since then, comprehensive surveys of homeobox genes have …
Absence of a simple code: how transcription factors read the genome
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 …
genome. TFs recognize DNA in a specific manner; the mechanisms underlying this …
Conservation and innovation in the DUX4-family gene network
JL Whiddon, AT Langford, CJ Wong, JW Zhong… - Nature …, 2017 - nature.com
Abstract Facioscapulohumeral dystrophy (FSHD; MIM 158900, MIM 158901) is caused by
misexpression of the DUX4 transcription factor in skeletal muscle. Animal models of FSHD …
misexpression of the DUX4 transcription factor in skeletal muscle. Animal models of FSHD …
A universal deep-learning model for zinc finger design enables transcription factor reprogramming
Cys2His2 zinc finger (ZF) domains engineered to bind specific target sequences in the
genome provide an effective strategy for programmable regulation of gene expression, with …
genome provide an effective strategy for programmable regulation of gene expression, with …
[HTML][HTML] DNA-binding specificities of human transcription factors
Although the proteins that read the gene regulatory code, transcription factors (TFs), have
been largely identified, it is not well known which sequences TFs can recognize. We have …
been largely identified, it is not well known which sequences TFs can recognize. We have …
Low-affinity binding sites and the transcription factor specificity paradox in eukaryotes
JF Kribelbauer, C Rastogi… - Annual review of cell …, 2019 - annualreviews.org
Eukaryotic transcription factors (TFs) from the same structural family tend to bind similar DNA
sequences, despite the ability of these TFs to execute distinct functions in vivo. The cell …
sequences, despite the ability of these TFs to execute distinct functions in vivo. The cell …