On the public citation graph

Discovering human transcription factor interactions with genetic variants, novel DNA motifs, and repetitive elements using enhanced yeast one-hybrid assays

https://doi.org/10.1101/459305
0 signed · 62 inferred · view as graph

Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.

Is this your work? Sign in with ORCID and put your name on the claims that are yours.
Claim with ORCID
Reference health. See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.
See reference health

What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/978-1-4939-7871-7_8openalex-snapshot
Options and Considerations When Using a Yeast One-Hybrid System
inferredcites →https://doi.org/10.1007/s00018-017-2634-6openalex-snapshot
Transcriptional regulation of CRMP5 controls neurite outgrowth through Sox5
inferredcites →https://doi.org/10.1016/j.cell.2008.05.023openalex-snapshot
Analysis of Homeodomain Specificities Allows the Family-wide Prediction of Preferred Recognition Sites
inferredcites →https://doi.org/10.1016/j.cell.2012.12.009openalex-snapshot
DNA-Binding Specificities of Human Transcription Factors
inferredcites →https://doi.org/10.1016/j.cell.2014.08.009openalex-snapshot
Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity
inferredcites →https://doi.org/10.1016/j.cell.2015.03.003openalex-snapshot
Human Gene-Centered Transcription Factor Networks for Enhancers and Disease Variants
inferredcites →https://doi.org/10.1016/j.cell.2016.11.033openalex-snapshot
Disease Model of GATA4 Mutation Reveals Transcription Factor Cooperativity in Human Cardiogenesis
inferredcites →https://doi.org/10.1016/j.cels.2017.03.005openalex-snapshot
Dynamic Gene Regulatory Networks of Human Myeloid Differentiation
inferredcites →https://doi.org/10.1016/j.ejca.2015.03.010openalex-snapshot
Recurrent TERT promoter mutations identified in a large-scale study of multiple tumour types are associated with increased TERT expression and telomerase activation
inferredcites →https://doi.org/10.1016/j.eururo.2013.10.038openalex-snapshot
Telomerase Reverse Transcriptase Gene Promoter Mutations Help Discern the Origin of Urogenital Tumors: A Genomic and Molecular Study
inferredcites →https://doi.org/10.1016/j.molcel.2012.11.013openalex-snapshot
Latent Regulatory Potential of Human-Specific Repetitive Elements
inferredcites →https://doi.org/10.1016/j.molcel.2013.05.018openalex-snapshot
Extensive Rewiring and Complex Evolutionary Dynamics in a C. elegans Multiparameter Transcription Factor Network
inferredcites →https://doi.org/10.1016/j.ydbio.2007.09.018openalex-snapshot
Gata5 and Gata6 are functionally redundant in zebrafish for specification of cardiomyocytes
inferredcites →https://doi.org/10.1016/s0303-7207(98)00044-6openalex-snapshot
Expression of GATA-4 in migrating gonadotropin-releasing neurons of the developing mouse
inferredcites →https://doi.org/10.1021/acs.jproteome.7b00448openalex-snapshot
Elucidating Protein–DNA Interactions in Human Alphoid Chromatin via Hybridization Capture and Mass Spectrometry
inferredcites →https://doi.org/10.1038/35057062openalex-snapshot
Initial sequencing and analysis of the human genome
inferredcites →https://doi.org/10.1038/msb.2010.114openalex-snapshot
A stele‐enriched gene regulatory network in the Arabidopsis root
inferredcites →https://doi.org/10.1038/msb.2013.38openalex-snapshot
A yeast one‐hybrid and microfluidics‐based pipeline to map mammalian gene regulatory networks
inferredcites →https://doi.org/10.1038/nature11212openalex-snapshot
An expansive human regulatory lexicon encoded in transcription factor footprints
inferredcites →https://doi.org/10.1038/nature11245openalex-snapshot
Architecture of the human regulatory network derived from ENCODE data
inferredcites →https://doi.org/10.1038/nature11247openalex-snapshot
An integrated encyclopedia of DNA elements in the human genome
inferredcites →https://doi.org/10.1038/nature22992openalex-snapshot
Recurrent and functional regulatory mutations in breast cancer
inferredcites →https://doi.org/10.1038/nbt.1518openalex-snapshot
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls
inferredcites →https://doi.org/10.1038/nbt.1893openalex-snapshot
Quantitative analysis demonstrates most transcription factors require only simple models of specificity
inferredcites →https://doi.org/10.1038/nmeth.1748openalex-snapshot
Enhanced yeast one-hybrid assays for high-throughput gene-centered regulatory network mapping
inferredcites →https://doi.org/10.1038/nmeth.1763openalex-snapshot
Automated protein-DNA interaction screening of Drosophila regulatory elements
inferredcites →https://doi.org/10.1038/nmeth.2762openalex-snapshot
Refined DNase-seq protocol and data analysis reveals intrinsic bias in transcription factor footprint identification
inferredcites →https://doi.org/10.1038/nmeth1068openalex-snapshot
Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
inferredcites →https://doi.org/10.1038/nrg798openalex-snapshot
Alu repeats and human genomic diversity
inferredcites →https://doi.org/10.1038/s41586-018-0549-5openalex-snapshot
The interaction landscape between transcription factors and the nucleosome
inferredcites →https://doi.org/10.1073/pnas.1216822110openalex-snapshot
Probing DNA shape and methylation state on a genomic scale with DNase I
inferredcites →https://doi.org/10.1074/jbc.m114.610386openalex-snapshot
Krüppel-like Factor 2 Represses Transcription of the Telomerase Catalytic Subunit Human Telomerase Reverse Transcriptase (hTERT) in Human T Cells
inferredcites →https://doi.org/10.1074/jbc.m304072200openalex-snapshot
Enrichment for Histone H3 Lysine 9 Methylation at Alu Repeats in Human Cells
inferredcites →https://doi.org/10.1093/bioinformatics/btq033openalex-snapshot
BEDTools: a flexible suite of utilities for comparing genomic features
inferredcites →https://doi.org/10.1093/bioinformatics/btr064openalex-snapshot
FIMO: scanning for occurrences of a given motif
inferredcites →https://doi.org/10.1093/nar/gks1089openalex-snapshot
HOCOMOCO: a comprehensive collection of human transcription factor binding sites models
inferredcites →https://doi.org/10.1093/nar/gkt1115openalex-snapshot
The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases
inferredcites →https://doi.org/10.1093/nar/gkt890openalex-snapshot
De novo prediction of DNA-binding specificities for Cys2His2 zinc finger proteins
inferredcites →https://doi.org/10.1093/nar/gkw782openalex-snapshot
Alu repeats as transcriptional regulatory platforms in macrophage responses toM. tuberculosisinfection
inferredcites →https://doi.org/10.1093/nar/gky1210openalex-snapshot
A map of direct TF–DNA interactions in the human genome
inferredcites →https://doi.org/10.1093/nar/gky787openalex-snapshot
Global landscape of mouse and human cytokine transcriptional regulation
inferredcites →https://doi.org/10.1101/pdb.prot088948openalex-snapshot
Generating Bait Strains for Yeast One-Hybrid Assays
inferredcites →https://doi.org/10.1101/pdb.top077669openalex-snapshot
Gene-Centered Yeast One-Hybrid Assays
inferredcites →https://doi.org/10.1111/tpj.12623openalex-snapshot
The Maize TF ome – development of a transcription factor open reading frame collection for functional genomics
inferredcites →https://doi.org/10.1126/science.1230062openalex-snapshot
TERT Promoter Mutations in Familial and Sporadic Melanoma
inferredcites →https://doi.org/10.1126/science.1259037openalex-snapshot
An oncogenic super-enhancer formed through somatic mutation of a noncoding intergenic element
inferredcites →https://doi.org/10.1126/science.aab0015openalex-snapshot
The transcription factor GABP selectively binds and activates the mutant TERT promoter in cancer
inferredcites →https://doi.org/10.1126/science.aan2507openalex-snapshot
A pathology atlas of the human cancer transcriptome
inferredcites →https://doi.org/10.1172/jci34126openalex-snapshot
Cardiac growth and angiogenesis coordinated by intertissue interactions
inferredcites →https://doi.org/10.1186/1471-2105-13-151openalex-snapshot
Towards a theoretical understanding of false positives in DNA motif finding
inferredcites →https://doi.org/10.1186/1748-7188-2-15openalex-snapshot
Efficient and accurate P-value computation for Position Weight Matrices
inferredcites →https://doi.org/10.1186/gb-2011-12-12-236openalex-snapshot
Alu elements: know the SINEs
inferredcites →https://doi.org/10.1371/journal.pcbi.1002111openalex-snapshot
Discovering Transcription Factor Binding Sites in Highly Repetitive Regions of Genomes with Multi-Read Analysis of ChIP-Seq Data
inferredcites →https://doi.org/10.1371/journal.pone.0069853openalex-snapshot
Chromatin Accessibility Data Sets Show Bias Due to Sequence Specificity of the DNase I Enzyme
inferredcites →https://doi.org/10.1371/journal.pone.0089226openalex-snapshot
Transcription Factor Binding Sites Prediction Based on Modified Nucleosomes
inferredcites →https://doi.org/10.1523/jneurosci.0415-14.2014openalex-snapshot
Sox2 Regulates Cholinergic Amacrine Cell Positioning and Dendritic Stratification in the Retina
inferredcites →https://doi.org/10.1523/jneurosci.3250-15.2016openalex-snapshot
Sox11 Balances Dendritic Morphogenesis with Neuronal Migration in the Developing Cerebral Cortex
inferredcites →https://doi.org/10.15252/msb.20167131openalex-snapshot
A gene‐centered C. elegans protein–DNA interaction network provides a framework for functional predictions
inferredcites →https://doi.org/10.18632/oncotarget.10634openalex-snapshot
TERT promoter mutations in melanoma render TERT expression dependent on MAPK pathway activation
inferredcites →https://doi.org/10.18632/oncotarget.9141openalex-snapshot
KLF4 downregulates hTERT expression and telomerase activity to inhibit lung carcinoma growth
inferredcites →https://doi.org/10.3389/fgene.2018.00016openalex-snapshot
Identification of Single Nucleotide Non-coding Driver Mutations in Cancer

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.csbj.2019.09.009openalex-snapshot
RSAT variation-tools: An accessible and flexible framework to predict the impact of regulatory variants on transcription factor binding
Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.