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Unbiased genome-scale identification of cis -regulatory modules in the human genome by GRAMc

https://doi.org/10.1101/468405
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inferredcites →https://doi.org/10.1007/978-0-387-98141-3openalex-snapshot
ggplot2: Elegant Graphics for Data Analysis
inferredcites →https://doi.org/10.1016/0076-6879(87)52075-4openalex-snapshot
[72] Identification of regulatory elements of cloned genes with functional assays
inferredcites →https://doi.org/10.1016/0092-8674(81)90413-xopenalex-snapshot
Expression of a β-globin gene is enhanced by remote SV40 DNA sequences
inferredcites →https://doi.org/10.1016/b978-0-12-385120-8.00015-2openalex-snapshot
Enzymatic Assembly of Overlapping DNA Fragments
inferredcites →https://doi.org/10.1016/b978-012088563-3.50022-5openalex-snapshot
Gene Regulatory Networks for Development
inferredcites →https://doi.org/10.1016/b978-012088563-3/50022-5openalex-snapshot
Gene Regulatory Networks for DevelopmentWhat They Are, How They Work, and What They Mean
inferredcites →https://doi.org/10.1016/j.biocel.2016.09.024openalex-snapshot
Suppressing Pitx2 inhibits proliferation and promotes differentiation of iHepSCs
inferredcites →https://doi.org/10.1016/j.cell.2012.12.041openalex-snapshot
A High-Resolution Enhancer Atlas of the Developing Telencephalon
inferredcites →https://doi.org/10.1016/j.cell.2014.02.009openalex-snapshot
Looping Back to Leap Forward: Transcription Enters a New Era
inferredcites →https://doi.org/10.1016/j.cell.2016.04.027openalex-snapshot
Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay
inferredcites →https://doi.org/10.1016/j.celrep.2014.03.011openalex-snapshot
Evolution of Alu Elements toward Enhancers
inferredcites →https://doi.org/10.1016/j.celrep.2017.03.039openalex-snapshot
Sequential Response to Multiple Developmental Network Circuits Encoded in an Intronic cis-Regulatory Module of Sea Urchin hox11/13b
inferredcites →https://doi.org/10.1016/j.celrep.2017.06.070openalex-snapshot
Robust Identification of Developmentally Active Endothelial Enhancers in Zebrafish Using FANS-Assisted ATAC-Seq
inferredcites →https://doi.org/10.1016/j.cels.2017.06.015openalex-snapshot
Identification of Human Lineage-Specific Transcriptional Coregulators Enabled by a Glossary of Binding Modules and Tunable Genomic Backgrounds
inferredcites →https://doi.org/10.1016/j.ydbio.2009.08.009openalex-snapshot
Regulation of gene expression via the core promoter and the basal transcriptional machinery
inferredcites →https://doi.org/10.1016/j.ydbio.2011.06.016openalex-snapshot
Precise cis-regulatory control of spatial and temporal expression of the alx-1 gene in the skeletogenic lineage of s. purpuratus
inferredcites →https://doi.org/10.1016/j.ydbio.2017.01.010openalex-snapshot
Single embryo-resolution quantitative analysis of reporters permits multiplex spatial cis -regulatory analysis
inferredcites →https://doi.org/10.1016/s0091-679x(04)74025-xopenalex-snapshot
Using Reporter Genes to Study cis-Regulatory Elements
inferredcites →https://doi.org/10.1038/nature03441openalex-snapshot
Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals
inferredcites →https://doi.org/10.1038/nature03467openalex-snapshot
A common sex-dependent mutation in a RET enhancer underlies Hirschsprung disease risk
inferredcites →https://doi.org/10.1038/nature07730openalex-snapshot
ChIP-seq accurately predicts tissue-specific activity of enhancers
inferredcites →https://doi.org/10.1038/nature08451openalex-snapshot
Genomic views of distant-acting enhancers
inferredcites →https://doi.org/10.1038/nature09906openalex-snapshot
Mapping and analysis of chromatin state dynamics in nine human cell types
inferredcites →https://doi.org/10.1038/nature11247openalex-snapshot
An integrated encyclopedia of DNA elements in the human genome
inferredcites →https://doi.org/10.1038/nature12753openalex-snapshot
Topology of mammalian developmental enhancers and their regulatory landscapes
inferredcites →https://doi.org/10.1038/nature25461openalex-snapshot
Enhancer redundancy provides phenotypic robustness in mammalian development
inferredcites →https://doi.org/10.1038/nbt.1589openalex-snapshot
High-resolution analysis of DNA regulatory elements by synthetic saturation mutagenesis
inferredcites →https://doi.org/10.1038/nbt.1662openalex-snapshot
Discovery and characterization of chromatin states for systematic annotation of the human genome
inferredcites →https://doi.org/10.1038/nbt.2136openalex-snapshot
Massively parallel functional dissection of mammalian enhancers in vivo
inferredcites →https://doi.org/10.1038/nbt.2137openalex-snapshot
Rapid dissection and model-based optimization of inducible enhancers in human cells using a massively parallel reporter assay
inferredcites →https://doi.org/10.1038/nbt.3754openalex-snapshot
Genome-wide mapping of autonomous promoter activity in human cells
inferredcites →https://doi.org/10.1038/ng.3911openalex-snapshot
Ancient selection for derived alleles at a GDF5 enhancer influencing human growth and osteoarthritis risk
inferredcites →https://doi.org/10.1038/ng.650openalex-snapshot
ChIP-Seq identification of weakly conserved heart enhancers
inferredcites →https://doi.org/10.1038/nmeth.1906openalex-snapshot
ChromHMM: automating chromatin-state discovery and characterization
inferredcites →https://doi.org/10.1038/nmeth.2558openalex-snapshot
Highly parallel assays of tissue-specific enhancers in whole Drosophila embryos
inferredcites →https://doi.org/10.1038/nmeth.2885openalex-snapshot
FIREWACh: high-throughput functional detection of transcriptional regulatory modules in mammalian cells
inferredcites →https://doi.org/10.1038/nmeth.2886openalex-snapshot
Function-based identification of mammalian enhancers using site-specific integration
inferredcites →https://doi.org/10.1038/nmeth.4534openalex-snapshot
Resolving systematic errors in widely used enhancer activity assays in human cells
inferredcites →https://doi.org/10.1073/pnas.1000147107openalex-snapshot
Functional cis -regulatory genomics for systems biology
inferredcites →https://doi.org/10.1073/pnas.1004824107openalex-snapshot
Information processing at the foxa node of the sea urchin endomesoderm specification network
inferredcites →https://doi.org/10.1073/pnas.1109873108openalex-snapshot
Multiple enhancers ensure precision of gap gene-expression patterns in the Drosophila embryo
inferredcites →https://doi.org/10.1073/pnas.1211405109openalex-snapshot
Perturbation of fetal liver hematopoietic stem and progenitor cell development by trisomy 21
inferredcites →https://doi.org/10.1073/pnas.1300592110openalex-snapshot
Role of a polymorphism in a Hox/Pax-responsive enhancer in the evolution of the vertebrate spine
inferredcites →https://doi.org/10.1073/pnas.36.6.344openalex-snapshot
The origin and behavior of mutable loci in maize
inferredcites →https://doi.org/10.1073/pnas.93.18.9374openalex-snapshot
DNA sequence insertion and evolutionary variation in gene regulation.
inferredcites →https://doi.org/10.1093/bioinformatics/btp324openalex-snapshot
Fast and accurate short read alignment with Burrows–Wheeler transform
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/btr614openalex-snapshot
Epigenetic priors for identifying active transcription factor binding sites
inferredcites →https://doi.org/10.1093/bioinformatics/btu170openalex-snapshot
Trimmomatic: a flexible trimmer for Illumina sequence data
inferredcites →https://doi.org/10.1093/nar/gkj144openalex-snapshot
The UCSC Genome Browser Database: update 2006
inferredcites →https://doi.org/10.1093/nar/gkp335openalex-snapshot
MEME SUITE: tools for motif discovery and searching
inferredcites →https://doi.org/10.1093/nar/gkv1249openalex-snapshot
HOCOMOCO: expansion and enhancement of the collection of transcription factor binding sites models
inferredcites →https://doi.org/10.1093/nar/gky338openalex-snapshot
Towards a map of cis-regulatory sequences in the human genome
inferredcites →https://doi.org/10.1101/164590openalex-snapshot
Resolving systematic errors in widely-used enhancer activity assays in human cells enables genome-wide functional enhancer characterization
inferredcites →https://doi.org/10.1101/324582openalex-snapshot
The Sheep and the Goats: Distinguishing transcriptional enhancers in a complex chromatin landscape
inferredcites →https://doi.org/10.1101/gad.310367.117openalex-snapshot
Assessing sufficiency and necessity of enhancer activities for gene expression and the mechanisms of transcription activation
inferredcites →https://doi.org/10.1101/gr.144899.112openalex-snapshot
Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay
inferredcites →https://doi.org/10.1101/gr.151472.112openalex-snapshot
Global analysis of Drosophila Cys2-His2 zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants
inferredcites →https://doi.org/10.1101/gr.212092.116openalex-snapshot
A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity
inferredcites →https://doi.org/10.1101/gr.218149.116openalex-snapshot
Transposable elements are the primary source of novelty in primate gene regulation
inferredcites →https://doi.org/10.1126/science.1232542openalex-snapshot
Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq
inferredcites →https://doi.org/10.1126/science.165.3891.349openalex-snapshot
Gene Regulation for Higher Cells: A Theory
inferredcites →https://doi.org/10.1177/2040620711412419openalex-snapshot
Ikaros: master of hematopoiesis, agent of leukemia
inferredcites →https://doi.org/10.1182/blood-2005-02-0529openalex-snapshot
Expression of Pitx2 in stromal cells is required for normal hematopoiesis
inferredcites →https://doi.org/10.1186/1471-2164-12-578openalex-snapshot
Erroneous attribution of relevant transcription factor binding sites despite successful prediction of cis-regulatory modules
inferredcites →https://doi.org/10.1186/s12864-018-4542-zopenalex-snapshot
Global analysis of primary mesenchyme cell cis-regulatory modules by chromatin accessibility profiling
inferredcites →https://doi.org/10.1186/s12864-018-4850-3openalex-snapshot
Transposable elements generate regulatory novelty in a tissue-specific fashion
inferredcites →https://doi.org/10.1186/s12866-015-0450-4openalex-snapshot
Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis
inferredcites →https://doi.org/10.1186/s13059-017-1345-5openalex-snapshot
Functional assessment of human enhancer activities using whole-genome STARR-sequencing
inferredcites →https://doi.org/10.1186/s13072-015-0009-5openalex-snapshot
Occupancy by key transcription factors is a more accurate predictor of enhancer activity than histone modifications or chromatin accessibility
inferredcites →https://doi.org/10.1242/dev.01124openalex-snapshot
A regulatory code for neurogenic gene expression in theDrosophilaembryo
inferredcites →https://doi.org/10.1242/dev.124.22.4649openalex-snapshot
Green Fluorescent Protein in the sea urchin: new experimental approaches to transcriptional regulatory analysis in embryos and larvae
inferredcites →https://doi.org/10.1261/rna.103206openalex-snapshot
The conserved AAUAAA hexamer of the poly(A) signal can act alone to trigger a stable decrease in RNA polymerase II transcription velocity
inferredcites →https://doi.org/10.12688/f1000research.6924.1openalex-snapshot
The khmer software package: enabling efficient nucleotide sequence analysis
inferredcites →https://doi.org/10.1371/journal.pgen.1002364openalex-snapshot
Consequences of Eukaryotic Enhancer Architecture for Gene Expression Dynamics, Development, and Fitness
inferredcites →https://doi.org/10.1371/journal.pone.0035934openalex-snapshot
Barcoded DNA-Tag Reporters for Multiplex Cis-Regulatory Analysis
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