Universal PBM Resource for Oligonucleotide Binding Evaluation
Names
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Universal PBM Resource for Oligonucleotide Binding Evaluation
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
UniPROBE
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
uniprobe
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
Names
More detailed information about this field from each metasource.
Universal PBM Resource for Oligonucleotide Binding Evaluation
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
UniPROBE
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
uniprobe
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:33:33.926054
Other names: UniPROBE, uniprobe
Names
More detailed information about this field from each metasource.
Universal PBM Resource for Oligonucleotide Binding Evaluation
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
UniPROBE
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
uniprobe
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:33:33.926054
The UniPROBE (Universal PBM Resource for Oligonucleotide Binding Evaluation) database hosts data generated by universal protein binding microarray (PBM) technology on the in vitro DNA binding specificities of proteins.
Description
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The UniPROBE (Universal PBM Resource for Oligonucleotide Binding Evaluation) database hosts data generated by universal protein binding microarray (PBM) technology on the in vitro DNA binding specificities of proteins.
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
UniPROBE hosts published data generated using universal protein binding microarray (PBM) technology (1), which characterizes transcription factor binding specificity for all possible DNA sequences of a given length, usually 8 to 10 bp. The data for each protein from each publication included in the database receives its own detailed web page, which displays information about the motifs found in the form of sequence logos, as well as an informative summary of the protein and the clone sequences used. The data files used to generate the displays are all publicly available for download either individually from the display page or in bulk from the downloads page. A copy of the database's content as SQL is also publicly available for those who want to install a local copy on their computer. The site also has a “toolboxâ€\x9D comprising the following web-based tools: a search tool to query the database quickly using one or more fields; a motif-searching tool, which will scan the database for a motif similar to one that is supplied as input in one of several possible formats; a transcription factor binding site (TFBS) search tool, which will scan a supplied DNA sequence for possible TFBSs; a blastp search tool that will look for proteins with similar amino acid sequence to one that is supplied as input; and a new negative sequence control generator tool (see below). Researchers who want to deposit universal PBM data into UniPROBE can now use a publicly available deposition tool to accomplish this (see below).
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
The UniPROBE (Universal PBM Resource for Oligonucleotide Binding Evaluation) database hosts data generated by universal protein binding microarray (PBM) technology on the in vitro DNA binding specificities of proteins. This initial release of the UniPROBE database provides a centralized resource for accessing comprehensive data on the preferences of proteins for all possible sequence variants ('words') of length k ('k-mers'), as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data. In total, the database currently hosts DNA binding data for 406 nonredundant proteins from a diverse collection of organisms, including the prokaryote Vibrio harveyi, the eukaryotic malarial parasite Plasmodium falciparum, the parasitic Apicomplexan Cryptosporidium parvum, the yeast Saccharomyces cerevisiae, the worm Caenorhabditis elegans, mouse, and human. The database's web tools (on the right) include a text-based search, a function for assessing motif similarity between user-entered data and database PWMs, and a function for locating putative binding sites along user-entered nucleotide sequences
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
The Universal PBM Resource for Oligonucleotide-Binding Evaluation database is a centralized repository of information on the DNA-binding preferences of proteins as determined by universal protein-binding microarray (PBM) technology. Each entry for a protein in UniPROBE provides the quantitative preferences for all possible nucleotide sequence variants of length k, as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:33:33.926054
Webpage:
http://the_brain.bwh.harvard.edu/uniprobe/Webpage
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http://the_brain.bwh.harvard.edu/uniprobe/
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://thebrain.bwh.harvard.edu/uniprobe/
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
http://uniprobe.org
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
Licence:
Name: Open Data Commons (ODC) Public Domain Dedication and Licence (PDDL) 1.0Licence name
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Open Data Commons (ODC) Public Domain Dedication and Licence (PDDL) 1.0
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
other
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
URL: http://opendatacommons.org/licenses/pddl/1.0/
Licence URL
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http://opendatacommons.org/licenses/pddl/1.0/
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://thebrain.bwh.harvard.edu/uniprobe/academic-license.php
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
Publications:
Publications
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UniPROBE: an online database of protein binding microarray data on protein-DNA interactions
PMID: 18842628
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions
PMID: 21037262
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
http://dx.doi.org/10.1093/nar/gku1045
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
UniPROBE: an online database of protein binding microarray data on protein-DNA interactions
PMID: 18842628
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions
PMID: 21037262
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
http://dx.doi.org/10.1093/nar/gku1045
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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UniPROBE: an online database of protein binding microarray data on protein-DNA interactions
PubMed citations: 226.
226 articles citing: UniPROBE: an online database of protein binding microarray data on protein-DNA interactions
Enhancer RNA Expression in Response to Glucocorticoid Treatment in Murine Macrophages. PMID:35011590
Characterization of mouse Bmp5 regulatory injury element in zebrafish wound models. PMID:34826632
Factorbook: an updated catalog of transcription factor motifs and candidate regulatory motif sites. PMID:34755879
SBSA: an online service for somatic binding sequence annotation. PMID:34606615
Formation of artificial chromosomes in Caenorhabditis elegans and analyses of their segregation in mitosis, DNA sequence composition and holocentromere organization. PMID:34417622
Regulatory SNPs: Altered Transcription Factor Binding Sites Implicated in Complex Traits and Diseases. PMID:34208629
The glucocorticoid receptor recruits the COMPASS complex to regulate inflammatory transcription at macrophage enhancers. PMID:33567280
Mutation bias interacts with composition bias to influence adaptive evolution. PMID:32986712
The Nubeam reference-free approach to analyze metagenomic sequencing reads. PMID:32883749
Enhancing the interpretability of transcription factor binding site prediction using attention mechanism. PMID:32770026
Prediction pipeline for discovery of regulatory motifs associated with Brugia malayi molting. PMID:32574217
DeeperBind: Enhancing Prediction of Sequence Specificities of DNA Binding Proteins. PMID:32551184
BLAMM: BLAS-based algorithm for finding position weight matrix occurrences in DNA sequences on CPUs and GPUs. PMID:32164557
Mechanistic insights into transcription factor cooperativity and its impact on protein-phenotype interactions. PMID:31913281
Zebrafish: A Powerful Model for Understanding the Functional Relevance of Noncoding Region Mutations in Human Genetic Diseases. PMID:31527394
Regulation of Cyclin E by transcription factors of the naïve pluripotency network in mouse embryonic stem cells. PMID:31462142
A gene regulatory network explains RET-EDNRB epistasis in Hirschsprung disease. PMID:31313802
Transcriptomic analysis of the oleaginous yeast Lipomyces starkeyi during lipid accumulation on enzymatically treated corn stover hydrolysate. PMID:31289462
Predicting functional variants in enhancer and promoter elements using RegulomeDB. PMID:31228310
Meta-analysis of massively parallel reporter assays enables prediction of regulatory function across cell types. PMID:31131957
Noise-precision tradeoff in predicting combinations of mutations and drugs. PMID:31116755
From biophysics to 'omics and systems biology. PMID:30972433
PanglaoDB: a web server for exploration of mouse and human single-cell RNA sequencing data. PMID:30951143
DNA-protein interaction: identification, prediction and data analysis. PMID:30915687
Evolutionary Potential of Cis-Regulatory Mutations to Cause Rapid Changes in Transcription Factor Binding. PMID:30597011
MODSIDE: a motif discovery pipeline and similarity detector. PMID:30340511
Spt6 Is Required for the Fidelity of Promoter Selection. PMID:30318445
Independent erosion of conserved transcription factor binding sites points to shared hindlimb, vision and external testes loss in different mammals. PMID:30137416
The architecture of an empirical genotype-phenotype map. PMID:29676774
A screen for deeply conserved non-coding GWAS SNPs uncovers a MIR-9-2 functional mutation associated to retinal vasculature defects in human. PMID:29518216
Characteristics of functional enrichment and gene expression level of human putative transcriptional target genes. PMID:29363429
Mediator complex component MED13 regulates zygotic genome activation and is required for postimplantation development in the mouse. PMID:29325037
Local sequence features that influence AP-1 cis-regulatory activity. PMID:29305491
TF2Network: predicting transcription factor regulators and gene regulatory networks in Arabidopsis using publicly available binding site information. PMID:29272447
Evidence for a hierarchical transcriptional circuit in Drosophila male germline involving testis-specific TAF and two gene-specific transcription factors, Mod and Acj6. PMID:29235675
Why Phenotype Robustness Promotes Phenotype Evolvability. PMID:29228219
Scoring Targets of Transcription in Bacteria Rather than Focusing on Individual Binding Sites. PMID:29213263
MeDReaders: a database for transcription factors that bind to methylated DNA. PMID:29145608
Identification of breast cancer associated variants that modulate transcription factor binding. PMID:28957321
Quantifying the Impact of Non-coding Variants on Transcription Factor-DNA Binding. PMID:28691125
Ancient selection for derived alleles at a GDF5 enhancer influencing human growth and osteoarthritis risk. PMID:28671685
Transcription Factor Repertoire of Necrotrophic Fungal Phytopathogen Ascochyta rabiei: Predominance of MYB Transcription Factors As Potential Regulators of Secretome. PMID:28659964
MOTIFSIM 2.1: An Enhanced Software Platform for Detecting Similarity in Multiple DNA Motif Data Sets. PMID:28632401
WSMD: weakly-supervised motif discovery in transcription factor ChIP-seq data. PMID:28607381
Sox5 regulates beta-cell phenotype and is reduced in type 2 diabetes. PMID:28585545
DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning. PMID:28395661
Epigenetic landscapes reveal transcription factors that regulate CD8+ T cell differentiation. PMID:28288100
APOBEC signature mutation generates an oncogenic enhancer that drives LMO1 expression in T-ALL. PMID:28260788
Predicting gene expression in massively parallel reporter assays: A comparative study. PMID:28220625
A developmental transcriptomic analysis of Pax1 and Pax9 in embryonic intervertebral disc development. PMID:28011632
Heads, Shoulders, Elbows, Knees, and Toes: Modular Gdf5 Enhancers Control Different Joints in the Vertebrate Skeleton. PMID:27902701
An Empirical Prior Improves Accuracy for Bayesian Estimation of Transcription Factor Binding Site Frequencies within Gene Promoters. PMID:27812284
Subpallial Enhancer Transgenic Lines: a Data and Tool Resource to Study Transcriptional Regulation of GABAergic Cell Fate. PMID:27710791
Enhancer Variants Synergistically Drive Dysfunction of a Gene Regulatory Network In Hirschsprung Disease. PMID:27693352
Causal Mechanistic Regulatory Network for Glioblastoma Deciphered Using Systems Genetics Network Analysis. PMID:27426982
Next generation sequencing technology and genomewide data analysis: Perspectives for retinal research. PMID:27297499
Weighted enrichment method for prediction of transcription regulators from transcriptome and global chromatin immunoprecipitation data. PMID:27131787
Characterization of piRNAs across postnatal development in mouse brain. PMID:27112104
Cis-regulatory architecture of a brain signaling center predates the origin of chordates. PMID:27064252
Gene regulatory mechanisms underpinning prostate cancer susceptibility. PMID:26950096
Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica. PMID:26911370
Genomic sequencing of a dyslexia susceptibility haplotype encompassing ROBO1. PMID:26877820
Erosion of Conserved Binding Sites in Personal Genomes Points to Medical Histories. PMID:26845687
Common variation in atrial fibrillation: navigating the path from genetic association to mechanism. PMID:26733238
Competition between DNA methylation and transcription factors determines binding of NRF1. PMID:26675734
Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line. PMID:26635867
An affinity-structure database of helix-turn-helix: DNA complexes with a universal coordinate system. PMID:26586237
DiffLogo: a comparative visualization of sequence motifs. PMID:26577052
Large-scale identification of sequence variants influencing human transcription factor occupancy in vivo. PMID:26502339
Identification of Predictive Cis-Regulatory Elements Using a Discriminative Objective Function and a Dynamic Search Space. PMID:26465884
Conservation analysis of sequences flanking the testis-determining gene Sry in 17 mammalian species. PMID:26444262
Prosaposin activates the androgen receptor and potentiates resistance to endocrine treatment in breast cancer. PMID:26341737
motifbreakR: an R/Bioconductor package for predicting variant effects at transcription factor binding sites. PMID:26272984
A microfluidic device for epigenomic profiling using 100 cells. PMID:26214128
SeqGL Identifies Context-Dependent Binding Signals in Genome-Wide Regulatory Element Maps. PMID:26016777
Occupancy by key transcription factors is a more accurate predictor of enhancer activity than histone modifications or chromatin accessibility. PMID:25984238
DNase I hypersensitivity analysis of the mouse brain and retina identifies region-specific regulatory elements. PMID:25972927
Compound mouse mutants of bZIP transcription factors Mafg and Mafk reveal a regulatory network of non-crystallin genes associated with cataract. PMID:25896808
Unraveling the 3D genome: genomics tools for multiscale exploration. PMID:25887733
A distinct regulatory region of the Bmp5 locus activates gene expression following adult bone fracture or soft tissue injury. PMID:25886903
Insm1 cooperates with Neurod1 and Foxa2 to maintain mature pancreatic β-cell function. PMID:25828096
Tupaia small RNAs provide insights into function and evolution of RNAi-based transposon defense in mammals. PMID:25802409
Replicative senescence is associated with nuclear reorganization and with DNA methylation at specific transcription factor binding sites. PMID:25763115
A 190 base pair, TGF-β responsive tooth and fin enhancer is required for stickleback Bmp6 expression. PMID:25732776
Gene co-expression network analysis provides novel insights into myostatin regulation at three different mouse developmental timepoints. PMID:25695797
Characterization of tissue-specific differential DNA methylation suggests distinct modes of positive and negative gene expression regulation. PMID:25652663
A recurrent regulatory change underlying altered expression and Wnt response of the stickleback armor plates gene EDA. PMID:25629660
Functional and phylogenetic characterization of proteins detected in various nematode intestinal compartments. PMID:25609831
A systematic survey of the Cys2His2 zinc finger DNA-binding landscape. PMID:25593323
Chromatin accessibility: a window into the genome. PMID:25473421
Direct regulation of diurnal Drd3 expression and cocaine reward by NPAS2. PMID:25444159
Prediction of DNA binding motifs from 3D models of transcription factors; identifying TLX3 regulated genes. PMID:25428367
Structure-based modeling of protein: DNA specificity. PMID:25414269
Conservation of trans-acting circuitry during mammalian regulatory evolution. PMID:25409825
Oncogene regulation. An oncogenic super-enhancer formed through somatic mutation of a noncoding intergenic element. PMID:25394790
UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein-DNA interactions. PMID:25378322
Transcriptomic portrait of human Mesenchymal Stromal/Stem Cells isolated from bone marrow and placenta. PMID:25326687
Abundance, arrangement, and function of sequence motifs in the chicken promoters. PMID:25318583
Multi-species, multi-transcription factor binding highlights conserved control of tissue-specific biological pathways. PMID:25279814
Determination and inference of eukaryotic transcription factor sequence specificity. PMID:25215497
The IRF5-TNPO3 association with systemic lupus erythematosus has two components that other autoimmune disorders variably share. PMID:25205108
Differential motif enrichment analysis of paired ChIP-seq experiments. PMID:25179504
Quality versus accuracy: result of a reanalysis of protein-binding microarrays from the DREAM5 challenge by using BayesPI2 including dinucleotide interdependence. PMID:25158938
Transient estrogen receptor binding and p300 redistribution support a squelching mechanism for estradiol-repressed genes. PMID:25051172
High-throughput functional testing of ENCODE segmentation predictions. PMID:25035418
Regulatory mechanisms that prevent re-initiation of DNA replication can be locally modulated at origins by nearby sequence elements. PMID:24945837
A DNA-binding-site landscape and regulatory network analysis for NAC transcription factors in Arabidopsis thaliana. PMID:24914054
A molecular basis for classic blond hair color in Europeans. PMID:24880339
Motif-based analysis of large nucleotide data sets using MEME-ChIP. PMID:24853928
Global view of enhancer-promoter interactome in human cells. PMID:24821768
Imogene: identification of motifs and cis-regulatory modules underlying gene co-regulation. PMID:24682824
KAnalyze: a fast versatile pipelined k-mer toolkit. PMID:24642064
Dissecting the causal genetic mechanisms of coronary heart disease. PMID:24623178
Transcriptional enhancers: from properties to genome-wide predictions. PMID:24614317
Cell-type and transcription factor specific enrichment of transcriptional cofactor motifs in ENCODE ChIP-seq data. PMID:24564528
A survey of motif finding Web tools for detecting binding site motifs in ChIP-Seq data. PMID:24555784
Genome-wide tissue-specific gene expression, co-expression and regulation of co-expressed genes in adult nematode Ascaris suum. PMID:24516681
Automated discovery of tissue-targeting enhancers and transcription factors from binding motif and gene function data. PMID:24499934
Disruption of long-range gene regulation in human genetic disease: a kaleidoscope of general principles, diverse mechanisms and unique phenotypic consequences. PMID:24496500
Sho-saiko-to, a traditional herbal medicine, regulates gene expression and biological function by way of microRNAs in primary mouse hepatocytes. PMID:24410935
Predicting tissue specific transcription factor binding sites. PMID:24238150
Structure-aided prediction of mammalian transcription factor complexes in conserved non-coding elements. PMID:24218641
Discover context-specific combinatorial transcription factor interactions by integrating diverse ChIP-Seq data sets. PMID:24217919
Fine-mapping an association of FSHR with preterm birth in a Finnish population. PMID:24205076
Genome wide analysis reveals Zic3 interaction with distal regulatory elements of stage specific developmental genes in zebrafish. PMID:24204288
Characterization and identification of cis-regulatory elements in Arabidopsis based on single-nucleotide polymorphism information. PMID:24204023
Discriminative motif analysis of high-throughput dataset. PMID:24162561
Screening for protein-DNA interactions by automatable DNA-protein interaction ELISA. PMID:24146751
Systematic identification of transcriptional regulatory modules from protein-protein interaction networks. PMID:24137002
An improved SELEX-Seq strategy for characterizing DNA-binding specificity of transcription factor: NF-κB as an example. PMID:24130762
De novo prediction of DNA-binding specificities for Cys2His2 zinc finger proteins. PMID:24097433
A general approach for discriminative de novo motif discovery from high-throughput data. PMID:24057214
Nuclear factor one X regulates Bobby sox during development of the mouse forebrain. PMID:23852417
DNA methylation restricts lineage-specific functions of transcription factor Gata4 during embryonic stem cell differentiation. PMID:23825962
kmer-SVM: a web server for identifying predictive regulatory sequence features in genomic data sets. PMID:23771147
DNA methylation data analysis and its application to cancer research. PMID:23750645
PiDNA: Predicting protein-DNA interactions with structural models. PMID:23703214
p53 Integrates host defense and cell fate during bacterial pneumonia. PMID:23630228
An ancient transcription factor initiates the burst of piRNA production during early meiosis in mouse testes. PMID:23523368
Endogenous retroviruses function as species-specific enhancer elements in the placenta. PMID:23396136
An integrated approach to characterize transcription factor and microRNA regulatory networks involved in Schwann cell response to peripheral nerve injury. PMID:23387820
Identification of DVA interneuron regulatory sequences in Caenorhabditis elegans. PMID:23383017
PRISM offers a comprehensive genomic approach to transcription factor function prediction. PMID:23382538
The underlying molecular and network level mechanisms in the evolution of robustness in gene regulatory networks. PMID:23300434
Distinct transcriptional regulatory modules underlie STAT3's cell type-independent and cell type-specific functions. PMID:23295670
The twilight zone of cis element alignments. PMID:23268451
Pitx1 broadly associates with limb enhancers and is enriched on hindlimb cis-regulatory elements. PMID:23201014
A multi-parametric flow cytometric assay to analyze DNA-protein interactions. PMID:23143268
ChIP-seq and beyond: new and improved methodologies to detect and characterize protein-DNA interactions. PMID:23090257
Three enhancements to the inference of statistical protein-DNA potentials. PMID:23042633
Assessment of algorithms for inferring positional weight matrix motifs of transcription factor binding sites using protein binding microarray data. PMID:23029415
Discovery and characterization of human exonic transcriptional regulatory elements. PMID:23029400
Unbiased discovery of interactions at a control locus driving expression of the cancer-specific therapeutic and diagnostic target, mesothelin. PMID:23025254
Persistent androgen receptor-mediated transcription in castration-resistant prostate cancer under androgen-deprived conditions. PMID:23019221
Circuitry and dynamics of human transcription factor regulatory networks. PMID:22959076
Annotation of functional variation in personal genomes using RegulomeDB. PMID:22955989
Predicting cell-type-specific gene expression from regions of open chromatin. PMID:22955983
Systematic localization of common disease-associated variation in regulatory DNA. PMID:22955828
An expansive human regulatory lexicon encoded in transcription factor footprints. PMID:22955618
Increasing coverage of transcription factor position weight matrices through domain-level homology. PMID:22952610
Deciphering the transcriptional regulation of microRNA genes in humans with ACTLocater. PMID:22941648
SNP microarray analyses reveal copy number alterations and progressive genome reorganization during tumor development in SVT/t driven mice breast cancer. PMID:22935085
Regulatory elements of Caenorhabditis elegans ribosomal protein genes. PMID:22928635
Human developmental enhancers conserved between deuterostomes and protostomes. PMID:22876195
An evolutionarily conserved enhancer regulates Bmp4 expression in developing incisor and limb bud. PMID:22701669
3DTF: a web server for predicting transcription factor PWMs using 3D structure-based energy calculations. PMID:22693215
Recognition models to predict DNA-binding specificities of homeodomain proteins. PMID:22689783
Genome-wide localization and expression profiling establish Sp2 as a sequence-specific transcription factor regulating vitally important genes. PMID:22684502
Uncovering cis-regulatory sequence requirements for context-specific transcription factor binding. PMID:22534400
Identification of molecular compartments and genetic circuitry in the developing mammalian kidney. PMID:22510988
Cis-regulatory logic driving glial cells missing: self-sustaining circuitry in later embryogenesis. PMID:22509525
A novel 13 base pair insertion in the sonic hedgehog ZRS limb enhancer (ZRS/LMBR1) causes preaxial polydactyly with triphalangeal thumb. PMID:22495965
Meta-profiles of gene expression during aging: limited similarities between mouse and human and an unexpectedly decreased inflammatory signature. PMID:22413003
An SNP selection strategy identified IL-22 associating with susceptibility to tuberculosis in Chinese. PMID:22355539
Dual transcriptional activator and repressor roles of TBX20 regulate adult cardiac structure and function. PMID:22328084
TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks. PMID:22292669
Distal chromatin structure influences local nucleosome positions and gene expression. PMID:22241769
MUSI: an integrated system for identifying multiple specificity from very large peptide or nucleic acid data sets. PMID:22210894
GWASdb: a database for human genetic variants identified by genome-wide association studies. PMID:22139925
YeTFaSCo: a database of evaluated yeast transcription factor sequence specificities. PMID:22102575
Tbx20 regulates a genetic program essential to adult mouse cardiomyocyte function. PMID:22080862
Yeast one-hybrid assays for gene-centered human gene regulatory network mapping. PMID:22037702
Discriminative prediction of mammalian enhancers from DNA sequence. PMID:21875935
coMOTIF: a mixture framework for identifying transcription factor and a coregulator motif in ChIP-seq data. PMID:21775309
Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. PMID:21750106
An integrated ChIP-seq analysis platform with customizable workflows. PMID:21736739
Enhancers in embryonic stem cells are enriched for transposable elements and genetic variations associated with cancers. PMID:21685454
Quantitative analysis demonstrates most transcription factors require only simple models of specificity. PMID:21654662
High throughput determination of TGFβ1/SMAD3 targets in A549 lung epithelial cells. PMID:21625455
Inferring transcription factor complexes from ChIP-seq data. PMID:21602262
ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor. PMID:21586587
Improved similarity scores for comparing motifs. PMID:21543443
What does biologically meaningful mean? A perspective on gene regulatory network validation. PMID:21489330
Co-occupancy by multiple cardiac transcription factors identifies transcriptional enhancers active in heart. PMID:21415370
An integrated pipeline for the genome-wide analysis of transcription factor binding sites from ChIP-Seq. PMID:21358819
Novel computational analysis of protein binding array data identifies direct targets of Nkx2.2 in the pancreas. PMID:21352540
Using a structural and logics systems approach to infer bHLH-DNA binding specificity determinants. PMID:21335608
Systematic characterization of protein-DNA interactions. PMID:21207099
High-throughput mapping of protein occupancy identifies functional elements without the restriction of a candidate factor approach. PMID:21169336
Predicting DNA-binding specificities of eukaryotic transcription factors. PMID:21152420
High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells. PMID:21106903
FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system. PMID:21097781
Identification and genome-wide prediction of DNA binding specificities for the ApiAP2 family of regulators from the malaria parasite. PMID:21060817
Identifying functional relationships within sets of co-expressed genes by combining upstream regulatory motif analysis and gene expression information. PMID:21047389
UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions. PMID:21037262
Determining the specificity of protein-DNA interactions. PMID:20877328
High resolution models of transcription factor-DNA affinities improve in vitro and in vivo binding predictions. PMID:20838582
Using protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example. PMID:20685816
Robust target gene discovery through transcriptome perturbations and genome-wide enhancer predictions in Drosophila uncovers a regulatory basis for sensory specification. PMID:20668662
Metamotifs--a generative model for building families of nucleotide position weight matrices. PMID:20579334
A global role for KLF1 in erythropoiesis revealed by ChIP-seq in primary erythroid cells. PMID:20508144
A cis-regulatory signature for chordate anterior neuroectodermal genes. PMID:20419150
Precise temporal control of the eye regulatory gene Pax6 via enhancer-binding site affinity. PMID:20413611
MochiView: versatile software for genome browsing and DNA motif analysis. PMID:20409324
Functional characterization of transcription factor motifs using cross-species comparison across large evolutionary distances. PMID:20126523
iMotifs: an integrated sequence motif visualization and analysis environment. PMID:20106815
Variable structure motifs for transcription factor binding sites. PMID:20074339
JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. PMID:19906716
hPDI: a database of experimental human protein-DNA interactions. PMID:19900953
Finding distal regulatory elements in the human genome. PMID:19854636
Quadruple 9-mer-based protein binding microarray with DsRed fusion protein. PMID:19761621
A multiparameter network reveals extensive divergence between C. elegans bHLH transcription factors. PMID:19632181
Identifying regulatory elements in eukaryotic genomes. PMID:19498043
Universal protein-binding microarrays for the comprehensive characterization of the DNA-binding specificities of transcription factors. PMID:19265799
Transcriptional regulation and stabilization of left-right neuronal identity in C. elegans. PMID:19204119
High-resolution DNA-binding specificity analysis of yeast transcription factors. PMID:19158363 -
UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions
PubMed citations: 91.
91 articles citing: UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions
Regulatory patterns analysis of transcription factor binding site clustered regions and identification of key genes in endometrial cancer. PMID:35222842
TRmir: A Comprehensive Resource for Human Transcriptional Regulatory Information of MiRNAs. PMID:35186035
TcoFBase: a comprehensive database for decoding the regulatory transcription co-factors in human and mouse. PMID:34718747
Evolutionary insights into the active-site structures of the metallo-β-lactamase superfamily from a classification study with support vector machine. PMID:32945939
Motto: Representing Motifs in Consensus Sequences with Minimum Information Loss. PMID:32816922
Characterization of super-enhancer-associated functional lncRNAs acting as ceRNAs in ESCC. PMID:32460441
SEanalysis: a web tool for super-enhancer associated regulatory analysis. PMID:31028388
Identification of transcription factor binding sites using ATAC-seq. PMID:30808370
GM604 regulates developmental neurogenesis pathways and the expression of genes associated with amyotrophic lateral sclerosis. PMID:30524706
Prediction of protein-DNA interactions of transcription factors linking proteomics and transcriptomics data. PMID:29900118
Repeated Cis-Regulatory Tuning of a Metabolic Bottleneck Gene during Evolution. PMID:29788479
A unified approach for quantifying and interpreting DNA shape readout by transcription factors. PMID:29472273
Functional annotation of structural ncRNAs within enhancer RNAs in the human genome: implications for human disease. PMID:29138457
NetProphet 2.0: mapping transcription factor networks by exploiting scalable data resources. PMID:28968736
Quantifying the Impact of Non-coding Variants on Transcription Factor-DNA Binding. PMID:28691125
Computational Prediction of the Global Functional Genomic Landscape: Applications, Methods, and Challenges. PMID:28076869
iFORM: Incorporating Find Occurrence of Regulatory Motifs. PMID:27992540
Genome-wide identification and characterisation of HOT regions in the human genome. PMID:27633377
SELMAP - SELEX affinity landscape MAPping of transcription factor binding sites using integrated microfluidics. PMID:27628341
Cross-species Conservation of context-specific networks. PMID:27531214
Prediction and Validation of Transcription Factors Modulating the Expression of Sestrin3 Gene Using an Integrated Computational and Experimental Approach. PMID:27466818
Constructing 3D interaction maps from 1D epigenomes. PMID:26960733
Analysis of computational footprinting methods for DNase sequencing experiments. PMID:26901649
Ensembl regulation resources. PMID:26888907
Models of human core transcriptional regulatory circuitries. PMID:26843070
Determination of specificity influencing residues for key transcription factor families. PMID:26753103
Two Forkhead transcription factors regulate cardiac progenitor specification by controlling the expression of receptors of the fibroblast growth factor and Wnt signaling pathways. PMID:26657774
Deciphering H3K4me3 broad domains associated with gene-regulatory networks and conserved epigenomic landscapes in the human brain. PMID:26575220
Computational learning on specificity-determining residue-nucleotide interactions. PMID:26527718
Epigenetic program and transcription factor circuitry of dendritic cell development. PMID:26476451
Differences in the Early Development of Human and Mouse Embryonic Stem Cells. PMID:26473594
BayesPI-BAR: a new biophysical model for characterization of regulatory sequence variations. PMID:26202972
A Simple Predictive Enhancer Syntax for Hindbrain Patterning Is Conserved in Vertebrate Genomes. PMID:26131856
By the company they keep: interaction networks define the binding ability of transcription factors. PMID:26089389
Compound mouse mutants of bZIP transcription factors Mafg and Mafk reveal a regulatory network of non-crystallin genes associated with cataract. PMID:25896808
Psoriasis drug development and GWAS interpretation through in silico analysis of transcription factor binding sites. PMID:25883770
Haploinsufficiency of Hedgehog interacting protein causes increased emphysema induced by cigarette smoke through network rewiring. PMID:25763110
Computational methodology for ChIP-seq analysis. PMID:25741452
A Study into the Evolutionary Divergence of the Core Promoter Elements of PRPF31 and TFPT. PMID:25729402
PreDREM: a database of predicted DNA regulatory motifs from 349 human cell and tissue samples. PMID:25725063
Identifying transcriptional cis-regulatory modules in animal genomes. PMID:25704908
An integrative analysis of TFBS-clustered regions reveals new transcriptional regulation models on the accessible chromatin landscape. PMID:25682954
Enhancer modeling uncovers transcriptional signatures of individual cardiac cell states in Drosophila. PMID:25609699
UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein-DNA interactions. PMID:25378322
TFClass: a classification of human transcription factors and their rodent orthologs. PMID:25361979
Protein-DNA binding in the absence of specific base-pair recognition. PMID:25313048
CODEX: a next-generation sequencing experiment database for the haematopoietic and embryonic stem cell communities. PMID:25270877
Myeloid malignancies with chromosome 5q deletions acquire a dependency on an intrachromosomal NF-κB gene network. PMID:25199827
DNA methylation dynamics during ex vivo differentiation and maturation of human dendritic cells. PMID:25161698
iRegulon: from a gene list to a gene regulatory network using large motif and track collections. PMID:25058159
Modeling the specificity of protein-DNA interactions. PMID:25045190
Annotation of long non-coding RNAs expressed in collaborative cross founder mice in response to respiratory virus infection reveals a new class of interferon-stimulated transcripts. PMID:24922324
Cellular dissection of psoriasis for transcriptome analyses and the post-GWAS era. PMID:24885462
COUGER--co-factors associated with uniquely-bound genomic regions. PMID:24861628
Integrating bioinformatic resources to predict transcription factors interacting with cis-sequences conserved in co-regulated genes. PMID:24773781
Key regulators control distinct transcriptional programmes in blood progenitor and mast cells. PMID:24760698
DMINDA: an integrated web server for DNA motif identification and analyses. PMID:24753419
A comparative analysis of transcription factor binding models learned from PBM, HT-SELEX and ChIP data. PMID:24500199
The 2014 Nucleic Acids Research Database Issue and an updated NAR online Molecular Biology Database Collection. PMID:24316579
OnTheFly: a database of Drosophila melanogaster transcription factors and their binding sites. PMID:24271386
Saccharomyces genome database provides new regulation data. PMID:24265222
Modulation of epidermal transcription circuits in psoriasis: new links between inflammation and hyperproliferation. PMID:24260178
TFBSshape: a motif database for DNA shape features of transcription factor binding sites. PMID:24214955
An improved SELEX-Seq strategy for characterizing DNA-binding specificity of transcription factor: NF-κB as an example. PMID:24130762
Contribution of distinct homeodomain DNA binding specificities to Drosophila embryonic mesodermal cell-specific gene expression programs. PMID:23922708
A yeast one-hybrid and microfluidics-based pipeline to map mammalian gene regulatory networks. PMID:23917988
Dissecting the psoriasis transcriptome: inflammatory- and cytokine-driven gene expression in lesions from 163 patients. PMID:23915137
DNA motif elucidation using belief propagation. PMID:23814189
Global Mapping of Transcription Factor Binding Sites by Sequencing Chromatin Surrogates: a Perspective on Experimental Design, Data Analysis, and Open Problems. PMID:23762209
The majority of primate-specific regulatory sequences are derived from transposable elements. PMID:23675311
Mapping functional transcription factor networks from gene expression data. PMID:23636944
Bayesian hierarchical model of protein-binding microarray k-mer data reduces noise and identifies transcription factor subclasses and preferred k-mers. PMID:23559638
Global analysis of Drosophila Cys₂-His₂ zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants. PMID:23471540
RAP: accurate and fast motif finding based on protein-binding microarray data. PMID:23464877
The ZIC gene family encodes multi-functional proteins essential for patterning and morphogenesis. PMID:23443491
Robust shifts in S100a9 expression with aging: a novel mechanism for chronic inflammation. PMID:23386971
Integrative analysis of the zinc finger transcription factor Lame duck in the Drosophila myogenic gene regulatory network. PMID:23184988
ChIPBase: a database for decoding the transcriptional regulation of long non-coding RNA and microRNA genes from ChIP-Seq data. PMID:23161675
Comprehensive identification and annotation of cell type-specific and ubiquitous CTCF-binding sites in the human genome. PMID:22829947
Atomistic modeling of protein-DNA interaction specificity: progress and applications. PMID:22796087
An evolutionarily conserved enhancer regulates Bmp4 expression in developing incisor and limb bud. PMID:22701669
Improved models for transcription factor binding site identification using nonindependent interactions. PMID:22505627
Meta-profiles of gene expression during aging: limited similarities between mouse and human and an unexpectedly decreased inflammatory signature. PMID:22413003
A machine learning approach for identifying novel cell type-specific transcriptional regulators of myogenesis. PMID:22412381
Differential regulation of mesodermal gene expression by Drosophila cell type-specific Forkhead transcription factors. PMID:22378636
Molecular mechanism underlying the regulatory specificity of a Drosophila homeodomain protein that specifies myoblast identity. PMID:22296846
CLARE: Cracking the LAnguage of Regulatory Elements. PMID:22199387
Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights. PMID:22189060
RSAT peak-motifs: motif analysis in full-size ChIP-seq datasets. PMID:22156162
Identification of cis-regulatory sequence variations in individual genome sequences. PMID:21989199
RSAT 2011: regulatory sequence analysis tools. PMID:21715389 - http://dx.doi.org/10.1093/nar/gku1045
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More detailed information about this field from each metasource.
deoxyribonucleic acid
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular interaction
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
protein interaction
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
sequence annotation
metasource: Fairsharing.org
version: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
nucleotide sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
transcriptional regulator sites and transcription factors
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
dna
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
biology
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
cells
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
gene ontology
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
molecular
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
mouse
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
microarray experiment
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
proteins
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
sequence composition, complexity and repeats
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
sequence analysis
metasource: bio.tools
version: extracted_at: 2022-11-04T11:33:33.926054
Tags
More detailed information about this field from each metasource.
deoxyribonucleic acid
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular interaction
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: re3data.org
version: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
protein interaction
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
sequence annotation
metasource: Fairsharing.orgversion: FAIRsharing.org: UniPROBE; Universal PBM Resource for Oligonucleotide Binding Evaluation; DOI: https://doi.org/10.25504/FAIRsharing.8zf3ny; Last edited: June 15, 2021, 1:42 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
nucleotide sequence databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
transcriptional regulator sites and transcription factors
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
dna
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
biology
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
cells
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
gene ontology
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
molecular
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
mouse
metasource: re3data.orgversion: re3data.org: Universal PBM Resource for Oligonucleotide Binding Evaluation; editing status 2021-09-07; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R35C9J last accessed: 2022-11-04
microarray experiment
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:33:33.926054
proteins
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:33:33.926054
sequence composition, complexity and repeats
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:33:33.926054
sequence analysis
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:33:33.926054
dna molecular interaction protein protein interaction sequence annotation nucleic acid sequence transcription dna cells gene ontology molecular mouse microarray experiment proteins sequence composition, complexity and repeats sequence analysis
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