Transcription Factor Class Schema
Names
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Transcription Factor Class Schema
metasource: Fairsharing.org
version: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
TFClass Schema
metasource: Fairsharing.org
version: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Names
More detailed information about this field from each metasource.
Transcription Factor Class Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
TFClass Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Names
More detailed information about this field from each metasource.
Transcription Factor Class Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
TFClass Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
The TFClass Schema is an identifier schema for classifying transcription factors according to a six-level schema, four of which are abstractions according to different criteria, while the fifth level represents TF genes and the sixth individual gene products. The first four levels of the TFClass schema are Superclass, Class, Family and Subfamily, with Subfamily an optional category. Two lower levels represent physical entities (i.e. genes and gene products) and have been termed Genera and Species (or "molecular species", to avoid confusion with biological species).
Description
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The TFClass Schema is an identifier schema for classifying transcription factors according to a six-level schema, four of which are abstractions according to different criteria, while the fifth level represents TF genes and the sixth individual gene products. The first four levels of the TFClass schema are Superclass, Class, Family and Subfamily, with Subfamily an optional category. Two lower levels represent physical entities (i.e. genes and gene products) and have been termed Genera and Species (or "molecular species", to avoid confusion with biological species).
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Webpage:
http://www.edgar-wingender.de/TFClass_schema.htmlWebpage
More detailed information about this field from each metasource.
http://www.edgar-wingender.de/TFClass_schema.html
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
TFClass: an expandable hierarchical classification of human transcription factors
PMID: 23180794
metasource: Fairsharing.org
version: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Publications
More detailed information about this field from each metasource.
TFClass: an expandable hierarchical classification of human transcription factors
PMID: 23180794
metasource: Fairsharing.org
version: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
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TFClass: an expandable hierarchical classification of human transcription factors
PubMed citations: 68.
68 articles citing: TFClass: an expandable hierarchical classification of human transcription factors
abc4pwm: affinity based clustering for position weight matrices in applications of DNA sequence analysis. PMID:35240993
Comparative Investigation of Gene Regulatory Processes Underlying Avian Influenza Viruses in Chicken and Duck. PMID:35205087
A neomorphic variant in SP7 alters sequence specificity and causes a high-turnover bone disorder. PMID:35121733
Genome-scale actions of master regulators directing skeletal development. PMID:34745394
A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex. PMID:34616066
Positive Selection in Gene Regulatory Factors Suggests Adaptive Pleiotropic Changes During Human Evolution. PMID:34079582
ProminTools: shedding light on proteins of unknown function in biomineralization with user friendly tools illustrated using mollusc shell matrix protein sequences. PMID:32974096
Occupancy maps of 208 chromatin-associated proteins in one human cell type. PMID:32728244
An atlas of dynamic chromatin landscapes in mouse fetal development. PMID:32728240
Kinase Interaction Network Expands Functional and Disease Roles of Human Kinases. PMID:32707033
Identifying Cattle Breed-Specific Partner Choice of Transcription Factors during the African Trypanosomiasis Disease Progression Using Bioinformatics Analysis. PMID:32456126
Constructing temporal regulatory cascades in the context of development and cell differentiation. PMID:32275727
A single ChIP-seq dataset is sufficient for comprehensive analysis of motifs co-occurrence with MCOT package. PMID:31750523
Improved linking of motifs to their TFs using domain information. PMID:31742324
The Signaling Pathways Project, an integrated 'omics knowledgebase for mammalian cellular signaling pathways. PMID:31672983
Homotypic cooperativity and collective binding are determinants of bHLH specificity and function. PMID:31341088
Benchmark and integration of resources for the estimation of human transcription factor activities. PMID:31340985
Mitotic chromosome binding predicts transcription factor properties in interphase. PMID:30700703
A De Novo Shape Motif Discovery Algorithm Reveals Preferences of Transcription Factors for DNA Shape Beyond Sequence Motifs. PMID:30660610
GM604 regulates developmental neurogenesis pathways and the expression of genes associated with amyotrophic lateral sclerosis. PMID:30524706
Insect Transcription Factors: A Landscape of Their Structures and Biological Functions in Drosophila and beyond. PMID:30469390
wTO: an R package for computing weighted topological overlap and a consensus network with integrated visualization tool. PMID:30355288
Identification of the gene-regulatory landscape in skeletal development and potential links to skeletal regeneration. PMID:30271844
Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources. PMID:29931155
Identification of ASB7 as ER stress responsive gene through a genome wide in silico screening for genes with ERSE. PMID:29630609
The Immune Landscape of Cancer. PMID:29628290
Aberrant expression of NKL homeobox gene HLX in Hodgkin lymphoma. PMID:29581848
Transcriptional regulatory networks underlying gene expression changes in Huntington's disease. PMID:29581148
Comparative Analysis of Immune Cells Reveals a Conserved Regulatory Lexicon. PMID:29454939
RNA-Seq Analysis of IL-1B and IL-36 Responses in Epidermal Keratinocytes Identifies a Shared MyD88-Dependent Gene Signature. PMID:29434599
Integrated analysis of motif activity and gene expression changes of transcription factors. PMID:29233921
HOCOMOCO: towards a complete collection of transcription factor binding models for human and mouse via large-scale ChIP-Seq analysis. PMID:29140464
The Minor Variant of the Single-Nucleotide Polymorphism rs3753381 Affects the Activity of a SLAMF1 Enhancer. PMID:29104781
TFClass: expanding the classification of human transcription factors to their mammalian orthologs. PMID:29087517
Synthetic RNA-Based Immunomodulatory Gene Circuits for Cancer Immunotherapy. PMID:29056342
Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex. PMID:28798132
Functional Profiling of Transcription Factor Genes in Neurospora crassa. PMID:28696922
RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections. PMID:28591841
Critical role of IRF1 and BATF in forming chromatin landscape during type 1 regulatory cell differentiation. PMID:28166218
Genome-Wide Association between Transcription Factor Expression and Chromatin Accessibility Reveals Regulators of Chromatin Accessibility. PMID:28118358
Feature-based classification of human transcription factors into hypothetical sub-classes related to regulatory function. PMID:27842491
Computational methods for direct cell conversion. PMID:27736295
CardioTF, a database of deconstructing transcriptional circuits in the heart system. PMID:27635320
Causal Mechanistic Regulatory Network for Glioblastoma Deciphered Using Systems Genetics Network Analysis. PMID:27426982
Parallel evolution of male germline epigenetic poising and somatic development in animals. PMID:27294618
Unmasking Upstream Gene Expression Regulators with miRNA-corrected mRNA Data. PMID:27279737
Sp7/Osterix Is Restricted to Bone-Forming Vertebrates where It Acts as a Dlx Co-factor in Osteoblast Specification. PMID:27134141
Computational Identification of Key Regulators in Two Different Colorectal Cancer Cell Lines. PMID:27092172
A Consensus Network of Gene Regulatory Factors in the Human Frontal Lobe. PMID:27014338
Gene fusions in soft tissue tumors: Recurrent and overlapping pathogenetic themes. PMID:26684580
PC-TraFF: identification of potentially collaborating transcription factors using pointwise mutual information. PMID:26627005
Iroquois Proteins Promote Skeletal Joint Formation by Maintaining Chondrocytes in an Immature State. PMID:26555055
Differences in the Early Development of Human and Mouse Embryonic Stem Cells. PMID:26473594
Human Genes Encoding Transcription Factors and Chromatin-Modifying Proteins Have Low Levels of Promoter Polymorphism: A Study of 1000 Genomes Project Data. PMID:26417590
Platelet microparticles are internalized in neutrophils via the concerted activity of 12-lipoxygenase and secreted phospholipase A2-IIA. PMID:26106157
Microglia recapitulate a hematopoietic master regulator network in the aging human frontal cortex. PMID:26002684
Psoriasis drug development and GWAS interpretation through in silico analysis of transcription factor binding sites. PMID:25883770
PreDREM: a database of predicted DNA regulatory motifs from 349 human cell and tissue samples. PMID:25725063
Novel transcription factor variants through RNA-sequencing: the importance of being "alternative". PMID:25590302
TFClass: a classification of human transcription factors and their rodent orthologs. PMID:25361979
Predicting interactome network perturbations in human cancer: application to gene fusions in acute lymphoblastic leukemia. PMID:25273558
Genetic basis of olfactory cognition: extremely high level of DNA sequence polymorphism in promoter regions of the human olfactory receptor genes revealed using the 1000 Genomes Project dataset. PMID:24715883
A promoter-level mammalian expression atlas. PMID:24670764
Aberrant gene expression in mucosa adjacent to tumor reveals a molecular crosstalk in colon cancer. PMID:24597571
Systematic identification of transcriptional regulatory modules from protein-protein interaction networks. PMID:24137002
Axonal transcription factors: novel regulators of growth cone-to-nucleus signaling. PMID:23897628
Alternative splicing for diseases, cancers, drugs, and databases. PMID:23766705
The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection. PMID:23203983
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centrally registered identifier
metasource: Fairsharing.org
version: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
gene expression data
metasource: Fairsharing.org
version: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
transcription factor
metasource: Fairsharing.org
version: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Tags
More detailed information about this field from each metasource.
centrally registered identifier
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
gene expression data
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
transcription factor
metasource: Fairsharing.orgversion: FAIRsharing.org: TFClass Schema; Transcription Factor Class Schema; DOI: https://doi.org/10.25504/FAIRsharing.yIYItV; Last edited: March 16, 2020, 1:37 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
centrally registered identifier gene expression transcription
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