On the public citation graph

Integrative analysis of transcription factor occupancy at enhancers and disease risk loci in noncoding genomic regions

https://doi.org/10.1101/262899
0 signed · 67 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 See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.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/s10549-018-4749-3openalex-snapshot
Pre-operative progesterone benefits operable breast cancer patients by modulating surgical stress
inferredcites →https://doi.org/10.1016/j.cca.2016.04.012openalex-snapshot
The macrophage and its related cholesterol efflux as a HDL function index in atherosclerosis
inferredcites →https://doi.org/10.1016/j.cell.2005.05.008openalex-snapshot
Chromosome-Wide Mapping of Estrogen Receptor Binding Reveals Long-Range Regulation Requiring the Forkhead Protein FoxA1
inferredcites →https://doi.org/10.1016/j.cell.2011.05.036openalex-snapshot
Cell Fate Plug and Play: Direct Reprogramming and Induced Pluripotency
inferredcites →https://doi.org/10.1016/j.celrep.2018.02.008openalex-snapshot
Accelerated Evolution in Distinctive Species Reveals Candidate Elements for Clinically Relevant Traits, Including Mutation and Cancer Resistance
inferredcites →https://doi.org/10.1016/j.gde.2013.06.002openalex-snapshot
Toward directed reprogramming through exogenous factors
inferredcites →https://doi.org/10.1016/j.stem.2014.01.008openalex-snapshot
Human Hepatocytes with Drug Metabolic Function Induced from Fibroblasts by Lineage Reprogramming
inferredcites →https://doi.org/10.1038/nature10263openalex-snapshot
Direct conversion of mouse fibroblasts to hepatocyte-like cells by defined factors
inferredcites →https://doi.org/10.1038/nature11232openalex-snapshot
The accessible chromatin landscape of the human genome
inferredcites →https://doi.org/10.1038/nature11247openalex-snapshot
An integrated encyclopedia of DNA elements in the human genome
inferredcites →https://doi.org/10.1038/nature12787openalex-snapshot
An atlas of active enhancers across human cell types and tissues
inferredcites →https://doi.org/10.1038/nature13835openalex-snapshot
Genetic and epigenetic fine mapping of causal autoimmune disease variants
inferredcites →https://doi.org/10.1038/nature14397openalex-snapshot
A resource for cell line authentication, annotation and quality control
inferredcites →https://doi.org/10.1038/nbt.1754openalex-snapshot
Integrative genomics viewer
inferredcites →https://doi.org/10.1038/nbt.2422openalex-snapshot
Interpreting noncoding genetic variation in complex traits and human disease
inferredcites →https://doi.org/10.1038/ncomms6303openalex-snapshot
Genome-wide association study identifies multiple loci associated with both mammographic density and breast cancer risk
inferredcites →https://doi.org/10.1038/ng.2649openalex-snapshot
DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape
inferredcites →https://doi.org/10.1038/ng.2713openalex-snapshot
Massively parallel decoding of mammalian regulatory sequences supports a flexible organizational model
inferredcites →https://doi.org/10.1038/ng.3885openalex-snapshot
Polygenic burdens on cell-specific pathways underlie the risk of rheumatoid arthritis
inferredcites →https://doi.org/10.1038/ng.3979openalex-snapshot
Predicting causal variants affecting expression by using whole-genome sequencing and RNA-seq from multiple human tissues
inferredcites →https://doi.org/10.1038/ng1901openalex-snapshot
Genome-wide analysis of estrogen receptor binding sites
inferredcites →https://doi.org/10.1038/nmeth.1923openalex-snapshot
Fast gapped-read alignment with Bowtie 2
inferredcites →https://doi.org/10.1038/nrg.2015.33openalex-snapshot
Autoimmune diseases — connecting risk alleles with molecular traits of the immune system
inferredcites →https://doi.org/10.1038/nri2675openalex-snapshot
Macrophage death and defective inflammation resolution in atherosclerosis
inferredcites →https://doi.org/10.1038/nsmb0205-110openalex-snapshot
Reading signals on the nucleosome with a new nomenclature for modified histones
inferredcites →https://doi.org/10.1073/pnas.0711961105openalex-snapshot
PU.1 and C/EBPα/β convert fibroblasts into macrophage-like cells
inferredcites →https://doi.org/10.1093/bioinformatics/btp352openalex-snapshot
The Sequence Alignment/Map format and SAMtools
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/btt135openalex-snapshot
CistromeFinder for ChIP-seq and DNase-seq data reuse
inferredcites →https://doi.org/10.1093/bioinformatics/btu639openalex-snapshot
Enlight: web-based integration of GWAS results with biological annotations
inferredcites →https://doi.org/10.1093/hmg/ddv035openalex-snapshot
Fine-mapping identifies two additional breast cancer susceptibility loci at 9q31.2
inferredcites →https://doi.org/10.1093/nar/gkr917openalex-snapshot
HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants
inferredcites →https://doi.org/10.1093/nar/gks1060openalex-snapshot
ChIPBase: a database for decoding the transcriptional regulation of long non-coding RNA and microRNA genes from ChIP-Seq data
inferredcites →https://doi.org/10.1093/nar/gks542openalex-snapshot
FunciSNP: an R/bioconductor tool integrating functional non-coding data sets with genetic association studies to identify candidate regulatory SNPs
inferredcites →https://doi.org/10.1093/nar/gkt1167openalex-snapshot
rSNPBase: a database for curated regulatory SNPs
inferredcites →https://doi.org/10.1093/nar/gkt1229openalex-snapshot
The NHGRI GWAS Catalog, a curated resource of SNP-trait associations
inferredcites →https://doi.org/10.1093/nar/gku1280openalex-snapshot
Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape
inferredcites →https://doi.org/10.1093/nar/gkw211openalex-snapshot
DeepBlue epigenomic data server: programmatic data retrieval and analysis of epigenome region sets
inferredcites →https://doi.org/10.1093/nar/gkw951openalex-snapshot
GTRD: a database of transcription factor binding sites identified by ChIP-seq experiments
inferredcites →https://doi.org/10.1093/nar/gky234openalex-snapshot
LSD1 mediates metabolic reprogramming by glucocorticoids during myogenic differentiation
inferredcites →https://doi.org/10.1097/mib.0b013e3182a69dcaopenalex-snapshot
The Role of Macrophages and Dendritic Cells in the Initiation of Inflammation in IBD
inferredcites →https://doi.org/10.1101/gr.136127.111openalex-snapshot
Linking disease associations with regulatory information in the human genome
inferredcites →https://doi.org/10.1101/gr.137323.112openalex-snapshot
Annotation of functional variation in personal genomes using RegulomeDB
inferredcites →https://doi.org/10.1111/acel.12680openalex-snapshot
miR‐155 induces ROS generation through downregulation of antioxidation‐related genes in mesenchymal stem cells
inferredcites →https://doi.org/10.1111/j.1365-2249.2010.04143.xopenalex-snapshot
T cells in multiple sclerosis and experimental autoimmune encephalomyelitis
inferredcites →https://doi.org/10.1126/science.1222794openalex-snapshot
Systematic Localization of Common Disease-Associated Variation in Regulatory DNA
inferredcites →https://doi.org/10.1177/1756285612474333openalex-snapshot
Targeting B cells in the treatment of multiple sclerosis: recent advances and remaining challenges
inferredcites →https://doi.org/10.1186/gb-2008-9-9-r137openalex-snapshot
Model-based Analysis of ChIP-Seq (MACS)
inferredcites →https://doi.org/10.1186/s13059-017-1366-0openalex-snapshot
Systems-epigenomics inference of transcription factor activity implicates aryl-hydrocarbon-receptor inactivation as a key event in lung cancer development
inferredcites →https://doi.org/10.1371/journal.pgen.1004517openalex-snapshot
Meta-Analysis of Genome-Wide Association Studies in African Americans Provides Insights into the Genetic Architecture of Type 2 Diabetes
inferredcites →https://doi.org/10.1371/journal.pgen.1005640openalex-snapshot
Minor Loops in Major Folds: Enhancer–Promoter Looping, Chromatin Restructuring, and Their Association with Transcriptional Regulation and Disease

What points at this work

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

inferred← citeshttps://doi.org/10.1002/1873-3468.13298openalex-snapshot
GLUT6 is a lysosomal transporter that is regulated by inflammatory stimuli and modulates glycolysis in macrophages
inferred← citeshttps://doi.org/10.1002/1873-3468.13328openalex-snapshot
Glucocorticoid receptor suppresses gene expression of Rev‐erbα (Nr1d1) through interaction with the CLOCK complex
inferred← citeshttps://doi.org/10.1002/ijc.32505openalex-snapshot
ALDH1A1 in patient‐derived bladder cancer spheroids activates retinoic acid signaling leading to TUBB3 overexpression and tumor progression
inferred← citeshttps://doi.org/10.1002/wrna.1508openalex-snapshot
Contributions of regulated transcription and mRNA decay to the dynamics of gene expression
inferred← citeshttps://doi.org/10.1007/978-981-16-5812-9_5openalex-snapshot
ChIP-Atlas
inferred← citeshttps://doi.org/10.1016/j.cell.2018.09.006openalex-snapshot
A Cancer Cell Program Promotes T Cell Exclusion and Resistance to Checkpoint Blockade
inferred← citeshttps://doi.org/10.1016/j.celrep.2019.05.004openalex-snapshot
Two Distinct E2F Transcriptional Modules Drive Cell Cycles and Differentiation
inferred← citeshttps://doi.org/10.1016/j.molcel.2018.09.032openalex-snapshot
Genome-wide Rules of Nucleosome Phasing in Drosophila
inferred← citeshttps://doi.org/10.1038/s41597-019-0193-4openalex-snapshot
The Signaling Pathways Project, an integrated ‘omics knowledgebase for mammalian cellular signaling pathways
inferred← citeshttps://doi.org/10.1101/093666openalex-snapshot
Genome-wide rules of nucleosome phasing
inferred← citeshttps://doi.org/10.1101/314807openalex-snapshot
dirHub: a trackHub configurator with directory structure projection
inferred← citeshttps://doi.org/10.1111/gtc.12728openalex-snapshot
Defective induction of the proteasome associated with T‐cell receptor signaling underlies T‐cell senescence
inferred← citeshttps://doi.org/10.1142/9789813279827_0017openalex-snapshot
SNPs2ChIP: Latent Factors of ChIP-seq to infer functions of non-coding SNPs
inferred← citeshttps://doi.org/10.1186/s13059-018-1411-7openalex-snapshot
Predicting double-strand DNA breaks using epigenome marks or DNA at kilobase resolution
inferred← citeshttps://doi.org/10.1186/s13059-018-1485-2openalex-snapshot
ChromTime: modeling spatio-temporal dynamics of chromatin marks
inferred← citeshttps://doi.org/10.3410/f.734323393.793556922openalex-snapshot
Faculty Opinions recommendation of A cancer cell program promotes T cell exclusion and resistance to checkpoint blockade.
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.