Here we present the Transcription Factor Encyclopedia (TFe), a new web-based compendium of mini review articles on transcription factors (TFs) that is founded on the principles of open access and collaboration. Our consortium of over 100 researchers has collectively contributed over 130 mini review articles on pertinent human, mouse and rat TFs. Notable features of the TFe website include a high-quality PDF generator and web API for programmatic data retrieval. TFe aims to rapidly educate scientists about the TFs they encounter through the delivery of succinct summaries written and vetted by experts in the field. TFe is available at http://www.cisreg.ca/tfe .

Genes Cluster ID name T6/T3 T8/T3 T11/T3 T24/T3 gene name function CIBE_0313 6up++ 5.3 6.2 7.2 5.8 conserved protein of unknown function CIBE_0312 6up++ 5.0 6.3 7.4 5.6 conserved protein of unknown function CIBE_0311 6up++ 5.0 6.4 7.0 5.3 conserved protein of unknown function CIBE_0314 6up++ 4.1 5.9 7.0 5.8 conserved protein of unknown function CIBE_0315 6up++ 5.1 5.9 6.1 5.0 Radical SAM-family protein CIBE_0310 6up++ 4.7 6.3 5.9 4.6 putative ABC transporter ATP-binding protein CIBE_3477 6up++ 5.5 5.6 5.4 4.4 Accessory gene regulator B CIBE_3478 6up++ 5.3 5.8 5.0 4.3 conserved membrane protein of unknown function CIBE_0316 6up++ 4.5 5.5 5.6 4.2 conserved protein of unknown function CIBE_4430 6up++ 4.4 6.4 5.4 3.6 putative permease CIBE_4429 6up++ 3.7 5.7 4.8 3.5 putative permease CIBE_0280 6up++ 4.5 4.9 4.3 3.9 conserved exported protein of unknown function CIBE_3828 6up++ 4.4 5.6 4.4 3.2 Glycosyl transferase CIBE_4431 6up++ 2.7 5.4 5.5 3.6 conserved exported protein of unknown function CIBE_4419 6up++ 3.7 5.5 4.4 3.1 conserved exported protein of unknown function CIBE_4428 6up++ 3.1 5.4 4.7 3.2 glr Transporter CIBE_4418 6up++ 3.4 5.4 4.4 2.4 conserved exported protein of unknown function CIBE_3476 6up+ 4.4 4.6 4.3 3.6 conserved protein of unknown function CIBE_3751 6up+ 3.8 5.2 3.8 3.1 conserved protein of unknown function CIBE_3750 6up+ 3.9 4.6 3.7 3.4 conserved protein of unknown function CIBE_4789 6up+ 3.7 4.3 3.9 3.5 cfg putative AgrB-like protein CIBE_0824 6up+ 4.8 3.9 3.8 2.7 Type 11 methyltransferase CIBE_3749 6up+ 4.1 4.4 3.5 2.8 Peptide synthetase CIBE_5303 6up+ 4.6 4.0 3.1 2.7 conserved protein of unknown function CIBE_2622 6up+ 2.8 3.7 3.9 4.0 adh NADPH-dependent butanol dehydrogenase CIBE_4040 6up+ 3.0 3.3 4.1 3.7 Aliphatic sulfonates family ABC transporter, periplsmic ligand-binding protein CIBE_3079 6up+ 4.3 3.5 3.3 2.8 panD aspartate 1-decarboxylase CIBE_4039 6up+ 2.9 3.2 3.9 4.1 tauB taurine transporter subunit ; ATP-binding component of ABC superfamily CIBE_3082 6up+ 4.2 3.4 3.0 2.9 conserved protein of unknown function CIBE_4610 6up+ 2.1 4.1 4.1 3.3 Peptidase C1A, papain CIBE_4417 6up+ 3.1 4.7 3.5 2.2 conserved membrane protein of unknown function CIBE_3475 6up+ 3.5 3.7 3.4 2.8 Histidine kinase CIBE_4036 6up+ 2.7 3.0 3.9 3.7 Thioredoxin reductase CIBE_3355 6up+ 3.8 3.0 3.1 3.3 RNA polymerase sigma factor SigI CIBE_3081 6up+ 4.1 3.4 2.9 2.8 panB ketopantoate hydroxymethyltransferase CIBE_4038 6up+ 2.8 2.8 3.8 3.7 Type I phosphodiesterase/nucleotide pyrophosphatase CIBE_2623 6up+ 2.6 3.3 3.8 3.3 conserved protein of unknown function CIBE_5304 6up+ 4.3 3.6 2.7 2.4 conserved protein of unknown function CIBE_3537 6up+ 2.9 4.5 2.5 3.1 putative transcriptional regulator CIBE_5707 6up+ 3.0 3.4 3.6 2.9 conserved protein of unknown function CIBE_0782 6up+ 2.2 2.8 3.7 4.1 Nitrogenase CIBE_4041 6up+ 2.3 3.1 3.8 3.6 tauC taurine transporter subunit ; membrane component of ABC superfamily CIBE_2624 6up+ 2.2 3.3 3.8 3.5 sudA Sulfide dehydrogenase subunit alpha CIBE_3080 6up+ 4.0 3.3 3.1 2.3 panC pantothenate synthetase CIBE_3353 6up+ 3.5 2.7 2.7 3.4 Beta-glucanase (fragment) CIBE_4861 6up+ 1.9 3.8 3.2 3.4 conserved protein of unknown function CIBE_3700 6up+ 1.2 3.3 3.9 3.9 YIEGIA protein CIBE_3753 6up+ 3.1 3.6 2.4 3.1 protein of unknown function CIBE_3354 6up+ 3.8 2.9 2.6 2.8 bglA Beta-glucanase CIBE_3748 6up+ 3.7 3.7 2.7 2.0 putative cyclic peptide transporter CIBE_4416 6up+ 3.2 4.3 3.2 1.2 conserved membrane protein of unknown function CIBE_1176 6up+ 4.3 3.3 2.6 1.7 rplY 50S ribosomal protein L25 CIBE_4788 6up+ 3.2 3.5 2.6 2.4 CHAP domain containing protein CIBE_3357 6up+ 4.2 2.8 2.3 2.5 Carbohydrate-binding family V/XII CIBE_2891 6up+ 3.7 3.1 2.3 2.6 Electron transport complex, RnfABCDGE type, D subunit CIBE_6013 6up+ 4.4 3.5 1.9 1.7 conserved protein of unknown function CIBE_0281 6up+ 3.7 3.9 3.3 0.7 conserved membrane protein of unknown function CIBE_4862 6up+ 1.8 3.3 3.1 3.3 2-hydroxyglutaryl-CoA dehydratase CIBE_5605 6up+ 2.2 2.8 3.5 3.0 conserved protein of unknown function CIBE_2892 6up+ 3.8 3.0 2.2 2.3 Electron transport complex, RnfABCDGE type, G subunit CIBE_5208 6up+ 3.0 2.9 3.1 2.4 Nucleotidyl transferase CIBE_0725 6up+ 2.5 2.9 3.1 2.5 cstA carbon starvation-induced membrane protein CIBE_3837 6up+ 3.0 3.7 2.1 2.2 yqaJ putative nuclease; skin element CIBE_4414 6up+ 2.7 3.7 2.8 1.7 Cell wall-associated hydrolase-like protein CIBE_4037 6up+ 2.2 2.3 3.5 2.8 Thioredoxin domain CIBE_5606 6up+ 2.2 2.7 3.2 2.8 Membrane spanning protein CIBE_3761 6up+ 3.7 2.9 2.4 1.4 Multidrug transporter MatE CIBE_3441 6up+ 1.6 3.4 3.1 2.4 ABC transporter substrate-binding protein CIBE_2221 6up+ 1.1 3.7 3.5 2.0 ytfJ Uncharacterized spore protein YtfJ CIBE_2951 6up+ 1.4 3.5 2.8 2.3 conserved protein of unknown function CIBE_2222 6up+ 1.4 3.5 3.0 1.6 conserved membrane protein of unknown function CIBE_3534 6up+ 1.4 3.3 2.3 2.0 putative DnaD-like protein, phage replisome organizer functional annotation genes

Here we present the Transcription Factor Encyclopedia (TFe), a new web-based compendium of mini review articles on transcription factors (TFs) that is founded on the principles of open access and collaboration. Our consortium of over 100 researchers has collectively contributed over 130 mini review articles on pertinent human, mouse and rat TFs. Notable features of the TFe website include a high-quality PDF generator and web API for programmatic data retrieval. TFe aims to rapidly educate scientists about the TFs they encounter through the delivery of succinct summaries written and vetted by experts in the field. TFe is available at http://www.cisreg.ca/ tfe.

Presentation of network structure Figure 1 shows a network graph comparing anodal, cathodal, and dual tDCS and their corresponding stimulation location with their control interventions for improving functional communication after stroke. Figure 2 shows a network graph comparing anodal, cathodal, and dual tDCS and their corresponding stimulation location with their control interventions for improving language function (naming nouns) after stroke and Figure 3 for improving naming verbs. Figure 4 shows a network graph comparing tDCS and its corresponding stimulation location with their control interventions regarding safety (measured by the number of dropouts and adverse events).

The transcription factor Bright up-regulates Ig H chain production from select V region promoters and requires Bright dimerization, Bruton’s tyrosine kinase (Btk), and the Btk substrate, TFII-I, for this activity. Defects in Btk cause X-linked immunodeficiency disease in mice and humans. Btk-deficient mice exhibit decreased serum IgM production, B cell developmental blocks, absence of peritoneal B1 cells, and subnormal immune responses against Ags, including phosphorylcholine, which confer protection against Streptococcus pneumoniae. Transgenic mice expressing dominant-negative Bright share similarities with Btk-deficient mice, including decreased serum IgM, poor anti-phosphorylcholine responses, and slightly reduced numbers of mature B cells. Although dominant-negative Bright mice developed B1 B cells, these were functionally deficient in Ig secretion. These data suggest a mechanistic explanation for the abnormal responses to phosphorylcholine observed in Btk-deficient mice, and indicate that Bright functions in a subset of Btk-dependent pathways in vivo, particularly those responses dominated by B1 B cells.

The transcription factor Bright up-regulates Ig H chain production from select V region promoters and requires Bright dimerization, Bruton's tyrosine kinase (Btk), and the Btk substrate, TFII-I, for this activity. Defects in Btk cause X-linked immunodeficiency disease in mice and humans. Btk-deficient mice exhibit decreased serum IgM production, B cell developmental blocks, absence of peritoneal B1 cells, and subnormal immune responses against Ags, including phosphorylcholine, which confer protection against Streptococcus pneumoniae. Transgenic mice expressing dominant-negative Bright share similarities with Btk-deficient mice, including decreased serum IgM, poor anti-phosphorylcholine responses, and slightly reduced numbers of mature B cells. Although dominant-negative Bright mice developed B1 B cells, these were functionally deficient in Ig secretion. These data suggest a mechanistic explanation for the abnormal responses to phosphorylcholine observed in Btk-deficient mice, and indicate that Bright functions in a subset of Btk-dependent pathways in vivo, particularly those responses dominated by B1 B cells.