ID stringlengths 10 16 | Name stringlengths 1 14 | DBD stringclasses 75 values | Is TF? stringclasses 2 values | TF assessment stringclasses 5 values | Binding mode stringclasses 4 values | Motif status stringclasses 4 values | Notes stringclasses 11 values | Comments stringlengths 10 585 ⌀ | Committee notes stringclasses 79 values | MTW Notes stringclasses 44 values | TRH Notes stringclasses 96 values | SL notes stringclasses 35 values | AJ notes stringclasses 124 values | Disagree on Assessment stringclasses 1 value | Disagree on Binding stringclasses 1 value | Author1 stringclasses 7 values | Assesment1 stringclasses 5 values | Binding1 stringclasses 4 values | Comment1 stringlengths 3 401 ⌀ | Notes1 stringclasses 161 values | Author2 stringclasses 8 values | Assesment2 stringclasses 5 values | Binding2 stringclasses 6 values | Comment2 stringlengths 3 502 ⌀ | Notes2 stringclasses 61 values | Vaquerizas 2009 TF classification stringclasses 7 values | CisBP considers it as a TF? stringclasses 3 values | TFclass considers it as a TF? stringclasses 2 values | TF-CAT classification stringlengths 1 200 ⌀ | Is a GO TF stringclasses 3 values | PDB stringclasses 208 values |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ENSG00000137203 | TFAP2A | AP-2 | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:11522791;15475956 | Yes | null |
ENSG00000008196 | TFAP2B | AP-2 | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Matt Weirauch | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:7555706 | Yes | null |
ENSG00000087510 | TFAP2C | AP-2 | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Matt Weirauch | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000008197 | TFAP2D | AP-2 | Yes | Known motif | 1 Monomer or homomultimer | In vivo/Misc source | Only known motifs are from Transfac or HocoMoco - origin is uncertain | Binds the same GCCTGAGGC sequence as the other AP-2s (PMID: 24789576) | null | null | null | null | Binds the same GCCTGAGGC sequence as the other AP-2:s based on PMID: 24789576 | Disagree | null | Arttu Jolma | Likely to be sequence specific TF | 1 Monomer or homomultimer | Binds GCCTGAGGC sequence based on PMID: 24789576 | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | Source of Hocomoco motif is unclear | null | a | Yes | Yes | No | Yes | null |
ENSG00000116819 | TFAP2E | AP-2 | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:14572467 | Yes | null |
ENSG00000117713 | ARID1A | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | null | Non-specific DNA binder (PMID: 15170388). | null | null | null | null | null | null | null | Matt Weirauch | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | non-specific DNA binder: PMID 15170388 | null | Pratyush Das | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | Pubmed: 10757798 | null | null | null | null | null | null | null |
ENSG00000049618 | ARID1B | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | null | Non-specific DNA binder (PMID: 15170388). | null | null | null | null | null | Disagree | Disagree | Jussi Taipale | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | ARID domain and full-length should be tested | Matt Weirauch | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | null | null | No | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding; DNA-Binding: non-sequence-specific; Transcription Regulatory Activity: heterochromatin interaction/binding_TF PPI_PMIDS:12200431;15170388 | No | null |
ENSG00000116017 | ARID3A | ARID/BRIGHT | Yes | Known motif | 1 Monomer or homomultimer | 100%ID - in vitro | null | null | 100% DBDID to mouse, which has PBM | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | The lower confidence models seem legit; similar AT-rich motif as those observed for paralogs using PBM | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | other | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:15456761 | Yes | null |
ENSG00000179361 | ARID3B | ARID/BRIGHT | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | Disagree | null | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | No | Yes | Yes | TF Gene Candidate_Transcription Factor Binding: tf co-factor binding; DNA-Binding: non-sequence-specific_DNA Binding; TF PPI_PMIDS:10446990 | Yes | null |
ENSG00000205143 | ARID3C | ARID/BRIGHT | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | Disagree | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | There is unpublished HT-SELEX data for ARID3C | null | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | No | Yes | Yes | Indeterminate - There is no evidence for or against this genes role as a TF__Other_PMIDS:15922553 | Yes | null |
ENSG00000032219 | ARID4A | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | Has a putative AT-hook | Binds DNA in a sequence non-specific manner (PMID: 15640446). | null | null | null | null | null | null | Disagree | Tim Hughes | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | Only the ARID3 and ARID5 subclasses are sequence specific | null | Yimeng Yin | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | It binds to DNA in a sequence non-specific manner. [PMID: 15640446] | null | No | Yes | Yes | TF Gene_Transcription Regulatory Activity: heterochromatin interaction/binding; Transcription Factor Binding: tf co-factor binding_Other; TF PPI_PMIDS:10321733;10490602 | Yes | null |
ENSG00000054267 | ARID4B | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | null | Binds DNA in a sequence non-specific manner (PMID: 15640446). | null | null | null | null | null | Disagree | Disagree | Jussi Taipale | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | ARID domain and full-length should be tested | Yimeng Yin | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | See ARID4A for evidence | null | No | Yes | Yes | TF Gene_Transcription Regulatory Activity: heterochromatin interaction/binding_Co-activation; TF PPI_PMIDS:12724404 | No | null |
ENSG00000196843 | ARID5A | ARID/BRIGHT | Yes | Known motif | 1 Monomer or homomultimer | 100%ID - in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | Indirect motif has 100% DBD Identity to mouse Arid5a (PBM motif) | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | No | Yes | Yes | Indeterminate - There is no evidence for or against this genes role as a TF___PMIDS:0 | No | null |
ENSG00000150347 | ARID5B | ARID/BRIGHT | Yes | Known motif | 1 Monomer or homomultimer | 100%ID - in vitro | Has a putative AT-hook | null | 100% DBDID to mouse, which has PBM | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | crystal structure PDB: 2OEH is with dsDNA TACAATATAACGTCG | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | other | Yes | Yes | TF Gene Candidate_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:8649988;10329386 | Yes | 2OEH |
ENSG00000008083 | JARID2 | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | null | Only ARID3 and ARID5 family members have sequence specificity (PMID: 15640446). | null | null | null | null | null | Disagree | null | Tim Hughes | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | Only ARID3 and ARID5 family members have sequence specificity (PMID:15640446) | null | Pratyush Das | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | PMID: 12890668 | null | No | Yes | Yes | No | No | null |
ENSG00000073614 | KDM5A | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | null | null | null | null | null | null | null | Disagree | null | Jussi Taipale | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | null | ARID domain and full-length should be tested | Sam Lambert | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | KDM5A is a known transcriptional co-factor | null | No | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding_Co-activation; TF PPI_PMIDS:9129143;11358960;15949438 | Yes | null |
ENSG00000117139 | KDM5B | ARID/BRIGHT | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | Binds GC-rich sequences such as CCGCCC (PMID: 18270511). | null | null | null | null | null | null | null | Arttu Jolma | Likely to be sequence specific TF | 1 Monomer or homomultimer | Has been shown to be a histone de-methylase that operates as a transcriptional cofactor; could however have innate sequence specificity due to presence of a ARID-domain | null | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | Prefer to GC-rich sequence; such as CCGCCC [PMID: 18270511] | null | No | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding_TF PPI; Transactivation_PMIDS:12657635 | Yes | null |
ENSG00000126012 | KDM5C | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | null | null | null | null | null | null | null | null | Disagree | Jussi Taipale | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | ARID domain; check for residues required for DNA binding | Arttu Jolma | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | Has low-specificity ARID-domain and histone demethylase activity besides chromatin recognition domain PHD | null | No | Yes | Yes | TF Gene Candidate_Transcription Regulatory Activity: heterochromatin interaction/binding_Other_PMIDS:17320160 | No | null |
ENSG00000012817 | KDM5D | ARID/BRIGHT | No | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | No motif | null | Polycomb protein that is well-documented to bind histone marks (PMID: 27477906; PMID: 17351630; PMID: 17320160; PMID: 17320162). | null | null | null | null | null | Disagree | Disagree | Jussi Taipale | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | ARID domain and full-length should be tested | Laura Campitelli | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | Polycomb protein that is well-documented to bind histone marks [PMID: 27477906; PMID: 17351630; PMID: 17320160; PMID: 17320162] | null | No | Yes | Yes | Indeterminate - There is no evidence for or against this genes role as a TF___PMIDS:0 | No | null |
ENSG00000189079 | ARID2 | ARID/BRIGHT; RFX | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | null | null | Jussi Taipale | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | ARID domain; check for residues required for DNA binding | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | x | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding_Co-activation_PMIDS:16782067 | No | null |
ENSG00000153207 | AHCTF1 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | Disagree | null | Jussi Taipale | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | null | name says AT-hook; but domain not called; should be checked | Laura Campitelli | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | Recruits nucleoporins to chromatin [PMID: 17235358] | Should not be initial assessment 1a1? | c | No | No | No | No | null |
ENSG00000126705 | AHDC1 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | null | null | Sam Lambert | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | AT-Hook domains are only picked up by SMART domain searches. There is no experimental evidence to suggest it binds DNA or functions as a TF. | null | Laura Campitelli | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | null | null | x | No | No | No | No | null |
ENSG00000106948 | AKNA | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | Binds AT-rich promoters of CD40 and CD40L and coordinates their expression (PMID: 11268217). | null | null | null | null | null | Disagree | Disagree | Tim Hughes | Likely to be sequence specific TF | 1 Monomer or homomultimer | 11268217 claims it binds DNA; but there is no motif as yet. | null | Laura Campitelli | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | Debatable - binds AT-rich promoters of CD40 and CD40L and coordinates their expression; but likely doesn't bind a specific sequence [PMID: 11268217] | Debatable - binds AT-rich promoters of CD40 and CD40L and coordinates their expression; but likely doesn't bind a specific sequence [PMID: 11268217] | c | No | No | No | Yes | null |
ENSG00000116539 | ASH1L | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | null | null | Arttu Jolma | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | Protein is a histone methyltransferase PMID: 17923682 | null | Pratyush Das | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | null | null | a | No | No | No | No | null |
ENSG00000173894 | CBX2 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | Has single SMART AT hook | null | null | null | Disagree | Disagree | Sam Lambert | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | null | null | Yimeng Yin | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | AT-hook containing protein | null | x | No | No | No | No | null |
ENSG00000101457 | DNTTIP1 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | Has a putative AT-hook | null | null | null | null | null | null | Disagree | Disagree | Arttu Jolma | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | PMID:11473582 Terminal deoxynucleotidyltransferase (TdT) is a DNA polymerase that enhances Ig and TcR gene diversity in the N region in B- and T-cells. | null | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | No | No | No | No | No | null |
ENSG00000104885 | DOT1L | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | Disagree | null | Arttu Jolma | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | Protein is a histone methyltransferase; has a putative AT-hook GRKRGRPKKMN and could thus have low specificity interactions with DNA | null | Yimeng Yin | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | Two databases claimed this proteins contains a putative AT-hook. | null | x | No | No | No | No | null |
ENSG00000140632 | GLYR1 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | Has a putative AT-hook | null | null | null | null | null | null | Disagree | Disagree | Laura Campitelli | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | Binds histones [PMID: 20850016] | null | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | AT hook type needs reconsideration; UniProtKB - Q49A26 | AT hook type DNA binding | x | No | No | No | No | null |
ENSG00000137309 | HMGA1 | AT hook | Yes | Known motif | 1 Monomer or homomultimer | In vivo/Misc source | Only known motifs are from Transfac or HocoMoco - origin is uncertain | null | Reannotated as AT Hook | null | null | null | Name is misleading, it does not have a HMG domain but three AT-hooks | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | Has also HMG DBDs | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | We've obtained motif for it in the new data. | null | c | Yes | Yes | TF Gene_DNA-Binding: non-sequence-specific; Transcription Factor Binding: tf co-factor binding_DNA Binding_PMIDS:9199299;12907668 | Yes | 2EZD |
ENSG00000149948 | HMGA2 | AT hook | Yes | Known motif | 1 Monomer or homomultimer | In vivo/Misc source | null | null | 100% DBDID to mouse, which has PBM | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | Binds DNA specifically based on PMID:14627817. Transfac and Hocomoco models are probably correct in vivo sites | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | x | Yes | Yes | No | Yes | null |
ENSG00000025293 | PHF20 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | HAT complex member (PMID 27760318). Does contain possible AT-hook | null | null | null | Disagree | null | Arttu Jolma | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | Protein is a component of histone acetyl-transferase complex that recognises H3K4me2 to add H4K16ac modification PMID:27760318. Has potential AT-hook KRKR-GRP-PSIA | null | Yimeng Yin | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | The protein contains a AT-hook domain. | null | b | No | No | No | No | null |
ENSG00000135365 | PHF21A | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | Has a putative AT-hook | null | null | SMART has a single AT hook; PMID 11207365 shows it binds DNA non-specifically, supposedly through an HMG box | null | null | null | Disagree | Disagree | Jussi Taipale | Likely to be sequence specific TF | 3 Low specificity DNA-binding protein | null | AT-hook; check | Pratyush Das | Has known motif | 1 Monomer or homomultimer | It is noted above that it has high confidence PWM. | will be considered later. | x | No | No | Indeterminate - There is no evidence for or against this genes role as a TF___PMIDS:0 | No | null |
ENSG00000126464 | PRR12 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | Disagree | Disagree | Tim Hughes | Likely to be sequence specific TF | 1 Monomer or homomultimer | It does have two AT hooks on SMART | null | Laura Campitelli | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | null | null | x | No | No | No | No | null |
ENSG00000146285 | SCML4 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | null | null | Matt Weirauch | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | null | null | Laura Campitelli | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | Putative polycomb protein by similarity (UniProt Q8N228) | null | x | No | No | No | No | null |
ENSG00000152217 | SETBP1 | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | Orthologous protein from mouse (Setbp1) bind DNA sequence-specifically by PBM | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | Orthologous protein from mouse (Setbp1) bind DNA sequence-specifically by PBM | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | AT hook containing protein UniProtKB - Q9Y6X0 | needs revisit | c | No | No | No | No | null |
ENSG00000080603 | SRCAP | AT hook | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | null | null | null | null | null | null | Disagree | Arttu Jolma | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | Helicase protein that loads H2A.Z into nucleosomes | null | Matt Weirauch | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | null | null | x | No | No | No | No | null |
ENSG00000188070 | C11orf95 | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | Based on BED ZF Alignment | null | null | null | null | Disagree | null | Jussi Taipale | Likely to be sequence specific TF | 4 Not a DNA binding protein | null | BED domain only; check domain calls and residues required for DNA binding | Sam Lambert | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | null | null | x | Yes | No | No | No | null |
ENSG00000237765 | FAM200B | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | Based on BED ZF Alignment | null | null | null | null | null | null | Laura Campitelli | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | No | Yes | No | No | Yes | null |
ENSG00000141258 | SGSM2 | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | Based on BED ZF Alignment | null | null | null | null | null | null | Matt Weirauch | Likely to be sequence specific TF | 1 Monomer or homomultimer | Need to decide what to do with BED zinc fingers - there are about 12 of them; and only ZBED1 has a motif (from SELEX). | Yes - BED ZFs need to be discussed I think | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | No | Yes | No | No | No | null |
ENSG00000214717 | ZBED1 | BED ZF | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | Based on BED ZF Alignment | null | null | null | "Has known motif","1 Monomer or homomultimer" has many independent HT-SELEX models from Jolma 2013 and Yin 2017 | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000177494 | ZBED2 | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | Has a BED domain that should bind DNA, but lacks the dimerization domain (PMID: 20016685). | Based on BED ZF Alignment | null | null | null | null | null | Disagree | Jussi Taipale | Unlikely to be sequence specific TF | 1 Monomer or homomultimer | null | BED domain only; check domain calls and residues required for DNA binding | Pratyush Das | Unlikely to be sequence specific TF | 3 Low specificity DNA-binding protein | PMID: 20016685 says it has BED domain which should bind DNA but lacks the dimerization domain | May need a revisit | c | Yes | Yes | No | No | null |
ENSG00000132846 | ZBED3 | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | Based on BED ZF Alignment | null | null | null | null | null | null | Jussi Taipale | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | BED Zf; need to check amino-acids required for DNA binding | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | c | Yes | Yes | No | No | null |
ENSG00000100426 | ZBED4 | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | Based on BED ZF Alignment | null | null | null | null | Disagree | null | Jussi Taipale | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | BED Zf; need to check amino-acids required for DNA binding | Laura Campitelli | Unlikely to be sequence specific TF | 1 Monomer or homomultimer | null | null | b | Yes | Yes | No | Yes | null |
ENSG00000236287 | ZBED5 | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | Based on BED ZF Alignment | null | null | null | null | null | null | Laura Campitelli | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | No | Yes | Yes | No | Yes | null |
ENSG00000257315 | ZBED6 | BED ZF | Yes | Inferred motif | 1 Monomer or homomultimer | In vivo/Misc source | null | null | Based on BED ZF Alignment | null | PMID: 20016685 | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | ChIP-seq motif in Transfac is probably from this study PMID: 20016685 | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | No | Yes | Yes | No | Yes | null |
ENSG00000221886 | ZBED8 | BED ZF | No | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | No motif | null | Despite its name, does not have a detectable BED ZF domain. | null | Despite its name, does not have a detectable BED ZF domain | null | null | null | null | null | Jussi Taipale | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | null | BED domain in name but domain not called; check domain calls and residues required for DNA binding | Pratyush Das | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | null | null | No | No | No | No | Yes | null |
ENSG00000232040 | ZBED9 | BED ZF | Yes | Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | null | null | Based on BED ZF Alignment | null | null | null | null | null | null | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | C2H2 SCAN domain | needs revisit | No | |||||
ENSG00000106546 | AHR | bHLH | Yes | Known motif | 1 Monomer or homomultimer | In vivo/Misc source | Only known motifs are from Transfac or HocoMoco - origin is uncertain | null | null | null | null | null | null | null | null | Tim Hughes | Has known motif | 1 Monomer or homomultimer | PMIDS:7592839 claims it binds E-box as a homodimer in vitro; so I put homodimer above. | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | Can also bind as a heterodimer with ARNT [PMID:12213385] | null | other | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:7592839 | Yes | null |
ENSG00000063438 | AHRR | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | In vivo/Misc source | null | null | null | null | null | null | "1 Monomer or homomultimer" HNGC symbol is AHRR and it is very similar to AHR and should be called accordingly. Based on PMIDS:7592839 AHR can bind as a homodimer. Probably protein however strongly prefers forming heterodimers | null | Disagree | Tim Hughes | Likely to be sequence specific TF | 1 Monomer or homomultimer | Motifs for several orthologs on CisBP. Associated with DNA by ChIP (PMID:17890447) | null | Arttu Jolma | Likely to be sequence specific TF | 2 Obligate heteromer | Based on PMID:17949687 it binds DNA as a heterodimer with ARNT; HNGC-symbol is AHRR | HNGC-symbol is AHRR | b | Yes | Yes | No | No | null |
ENSG00000143437 | ARNT | bHLH | Yes | Known motif | 1 Monomer or homomultimer | 100%ID - in vitro | null | null | null | null | null | null | Based on PMID: 7892203 it can bind also as a homodimer. The crystal structure has HIF1A - ARNT heterodimer | null | Disagree | Jussi Taipale | Has known motif | 2 Obligate heteromer | null | most likely obligate heterodimer | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:7592839 | Yes | 4ZPR |
ENSG00000172379 | ARNT2 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Matt Weirauch | Has known motif | 1 Monomer or homomultimer | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:8657146 | Yes | null |
ENSG00000133794 | ARNTL | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; TF PPI_PMIDS:9576906;9616112 | Yes | 4H10 |
ENSG00000029153 | ARNTL2 | bHLH | Yes | Inferred motif | 2 Obligate heteromer | High-throughput in vitro | null | ARNTL2 Forms heterodimers with CLOCK and NPAS2 (PMID:10864977 ). | null | null | null | null | null | null | null | Jussi Taipale | Likely to be sequence specific TF | 2 Obligate heteromer | null | clone wrong or obligate heterodimer; check also residues | Arttu Jolma | Likely to be sequence specific TF | 2 Obligate heteromer | PMID:10864977 ARNTL2 Forms heterodimers with CLOCK and NPAS2 | null | a | Yes | Yes | No | Yes | null |
ENSG00000139352 | ASCL1 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding; DNA-Binding: sequence-specific_DNA Binding; TF PPI; Transactivation_PMIDS:8662987;8900141 | Yes | null |
ENSG00000183734 | ASCL2 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000176009 | ASCL3 | bHLH | Yes | Inferred motif | 2 Obligate heteromer | High-throughput in vitro | null | ASCL1 heterodimerizes with TCF3; TCF4 and TCF12 (PMID: 24835951). | null | null | null | null | null | null | null | Arttu Jolma | Likely to be sequence specific TF | 2 Obligate heteromer | ASCL1 heterodimerizes with TCF3; TCF4 and TCF12 PMID: 24835951 | null | Pratyush Das | Likely to be sequence specific TF | 2 Obligate heteromer | null | null | a | Yes | Yes | No | No | null |
ENSG00000187855 | ASCL4 | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | Probably heterodimerizes with TCF3; TCF4 or TCF12 like the other ASCL TFs | null | null | null | null | null | Disagree | Disagree | Arttu Jolma | Likely to be sequence specific TF | 2 Obligate heteromer | Probably heterodimerizes with TCF3; TCF4 or TCF12 like the other ASCL TFs | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | Indirect motif has 50% DBD Identity with human/mouse ASCL1. Weak in vitro motifs could be because it prefers to bind as heterodimer with bHLH TCF proteins | Missing motif logos/info | a | Yes | Yes | No | No | null |
ENSG00000232237 | ASCL5 | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | Probably heterodimerizes with TCF3; TCF4 or TCF12 like the other ASCL TFs | null | null | null | null | null | null | Disagree | Jussi Taipale | Likely to be sequence specific TF | 2 Obligate heteromer | null | could need processing or be an obligate heteromer; check amino-acids required for DNA binding | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | No | Yes | Yes | No | Yes | null |
ENSG00000172238 | ATOH1 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Jussi Taipale | Has known motif | 1 Monomer or homomultimer | null | null | Matt Weirauch | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_Co-activation_PMIDS:14757642 | Yes | null |
ENSG00000179774 | ATOH7 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene Candidate__Transactivation_PMIDS:7721778;15882586;17653051 | No | null |
ENSG00000168874 | ATOH8 | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | Not clear what is the source of the known motif. | null | "Likely to be a sequence specific TF" No, we do not have unpublished data for this. Based on aminoacid sequence the protein seems like a proper bHLH similar to TCF3, TCF4 and TCF12 | null | null | Jussi Taipale | Has known motif | 1 Monomer or homomultimer | null | check amino-acids required for binding | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | c | Yes | Yes | TF Gene Candidate_DNA-Binding: sequence-specific_Other_PMIDS:11733035;12419857 | Yes | null |
ENSG00000180535 | BHLHA15 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Jussi Taipale | Has known motif | 1 Monomer or homomultimer | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | No | null |
ENSG00000205899 | BHLHA9 | bHLH | Yes | Likely to be sequence specific TF | 2 Obligate heteromer | No motif | null | Protein heterodimerizes with TCF3; TCF4 and TCF12 (PMID: 25466284). | null | null | null | null | null | null | null | Arttu Jolma | Likely to be sequence specific TF | 2 Obligate heteromer | Protein heterodimerizes with TCF3; TCF4 and TCF12 and mutations in its DBD causes syndactyly PMID: 25466284 | null | Pratyush Das | Likely to be sequence specific TF | 2 Obligate heteromer | null | null | c | Yes | Yes | No | No | null |
ENSG00000180828 | BHLHE22 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000125533 | BHLHE23 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | No | null |
ENSG00000134107 | BHLHE40 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Jussi Taipale | Has known motif | 1 Monomer or homomultimer | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding; DNA-Binding: sequence-specific_DNA Binding_PMIDS:12297495;12397359 | Yes | null |
ENSG00000123095 | BHLHE41 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Tim Hughes | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | b | Yes | Yes | TF Gene_DNA-Binding: sequence-specific; Transcription Factor Binding: tf co-factor binding_DNA Binding; Other_PMIDS:12657651;15448136 | Yes | null |
ENSG00000250709 | CCDC169-SOHLH2 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | 100%ID - in vitro | null | null | null | null | null | null | Protein is a readthrough of SOHLH2 and another gene and has thus identical DBD to SOHLH2 and should thus bind just like it (if it really exists). | Disagree | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | No | Yes | No | No | No | null |
ENSG00000134852 | CLOCK | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | Can also bind as heterodimer with ARNTL. | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | Can also bind as heterodimer with ARNTL (see Arttu's comment) | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:9616112;15147242;15500444 | Yes | 4H10 |
ENSG00000116016 | EPAS1 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | In vivo/Misc source | Only known motifs are from Transfac or HocoMoco - origin is uncertain | null | null | null | (Motif unclear - Matt changed to likely) | null | null | null | null | Tim Hughes | Has known motif | 1 Monomer or homomultimer | I can't tell where the motifs come from. "HOMER" is not an experimental method - we need to change these entries so it is possible to trace the origin of the data. | I can't tell where the motifs come from. "HOMER" is not an experimental method - we need to change these entries so it is possible to trace the origin of the data. | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding; DNA-Binding: sequence-specific_Co-activation; DNA Binding_PMIDS:15190133 | Yes | 4ZPK |
ENSG00000146618 | FERD3L | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | c | Yes | Yes | No | No | null |
ENSG00000183733 | FIGLA | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:9362457;15044608 | No | null |
ENSG00000113196 | HAND1 | bHLH | Yes | Known motif | 2 Obligate heteromer | In vivo/Misc source | Only known motifs are from Transfac or HocoMoco - origin is uncertain | Obligate heteromer (PMID: 10611232). | null | null | Literature indicates obligate heterodimer | null | null | null | null | Jussi Taipale | Likely to be sequence specific TF | 2 Obligate heteromer | null | check amino-acids required for binding; could be heteromer | Pratyush Das | Likely to be sequence specific TF | 2 Obligate heteromer | PMID: 10611232 | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:7791788;11802795;16043483;7671815;15509787;16043483;10611232;16043483 | Yes | null |
ENSG00000164107 | HAND2 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_Transcription Factor Binding: tf co-factor binding; DNA-Binding: sequence-specific_TF PPI; Transactivation_PMIDS:11812799;12392994 | Yes | null |
ENSG00000187821 | HELT | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | Can form homodimers or heterodimers with HEY2 and HES5, suggesting also that the HELT homodimer is dependent of a additional Orange domain while the HEY2 heterodimer requires just the DBD (PMID: 14764602). | null | null | null | null | null | null | null | Arttu Jolma | Likely to be sequence specific TF | 1 Monomer or homomultimer | PMID: 14764602 shows that it can form homodimers or heterodimers with HEY2 and HES5; suggesting also that the HELT homodimer is dependent of a additional Orange domain while the HEY2 heterodimer requires just the DBD | null | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | c | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:14764602;15071116 | Yes | null |
ENSG00000114315 | HES1 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Matt Weirauch | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000069812 | HES2 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | Likely also binds as a heterodimer with other bHLH factors | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:8354270 | No | null |
ENSG00000173673 | HES3 | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | "Likely to be a sequence specific TF" - Disagreement is due to inferred motif being classified as "Has known motif", Protein is | Disagree | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | Inferred motif from HES1 (50% DBD Identity) | Missing motif logos/info | Laura Campitelli | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | c | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:10858455 | No | null |
ENSG00000188290 | HES4 | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | "Likely to be a sequence specific TF" - Disagreement is due to inferred motif being classified as "Has known motif", Protein is | Disagree | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | Indirect motif has 88% DBD Identity | null | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | b | Yes | Yes | No | No | null |
ENSG00000197921 | HES5 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | b | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_TF PPI_PMIDS:15156153 | Yes | null |
ENSG00000144485 | HES6 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | x | Yes | Yes | TF Gene Candidate_Transcription Factor Binding: tf co-factor binding_TF PPI_PMIDS:10851137;10976052 | Yes | null |
ENSG00000179111 | HES7 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | Also forms heterodimers. | null | null | null | null | null | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | also forms heterodimers | null | a | Yes | Yes | TF Gene Candidate__Other_PMIDS:11260262;12783854 | No | null |
ENSG00000164683 | HEY1 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene Candidate_Transcription Factor Binding: tf co-factor binding_Transactivation_PMIDS:16199874 | Yes | null |
ENSG00000135547 | HEY2 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Tim Hughes | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000163909 | HEYL | bHLH | Yes | Inferred motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | "Likely to be a sequence specific TF" Protein sequence is almost identical to HEY1 and HEY2 and should bind as homodimer like them | null | Disagree | Jussi Taipale | Likely to be sequence specific TF | 2 Obligate heteromer | null | may be an obligate heterodimer; check for domains and residues required for DNA binding | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000100644 | HIF1A | bHLH | Yes | Known motif | 2 Obligate heteromer | In vivo/Misc source | Only known motifs are from Transfac or HocoMoco - origin is uncertain | Binds as obligate heteromer with ARNT (PMID: 9027737). | null | null | Binds only with ARNT | null | null | null | null | Matt Weirauch | Has known motif | 2 Obligate heteromer | obligate heteomer evidence: 9027737 | Yes - somewhat interesting case. Has a (weak) HLH domain. But; I cant find any great evidence that it can bind DNA on its own. Sounds like it can only do so with ARNT. | Yimeng Yin | Has known motif | 2 Obligate heteromer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_Transactivation_PMIDS:12133832;15111179;15906272 | Yes | 4ZPR |
ENSG00000124440 | HIF3A | bHLH | Yes | Inferred motif | 2 Obligate heteromer | In vivo/Misc source | null | Binds DNA as a heterodimer with ARNT and ARNT2; reviewed in (PMID: 24099156). | null | null | Obligate heterodimer | null | null | null | null | Arttu Jolma | Has known motif | 2 Obligate heteromer | Binds DNA as a heterodimer with ARNT and ARNT2; reviewed in PMID: 24099156 | bHLH domain is present in at least the transcript ENST00000300862.7 but it is missing from the annotations. Transfac model is not a bHLH target site | Pratyush Das | Has known motif | 2 Obligate heteromer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000125968 | ID1 | bHLH | No | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | No motif | null | ID bHLH proteins lack the basic region and should not be able to bind DNA. The HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | null | null | null | null | "5 - not a DNA binding protein" ID bHLH proteins miss the basic region and should not be able to bind DNA, the HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | Disagree | null | Laura Campitelli | Has known motif | 1 Monomer or homomultimer | null | null | Yimeng Yin | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene Candidate_Transcription Factor Binding: tf co-factor binding_Other_PMIDS:2156629;11234019 | Yes | null |
ENSG00000115738 | ID2 | bHLH | No | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | No motif | null | ID bHLH proteins lack the basic region and should not be able to bind DNA. The HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | null | null | null | null | "5 - not a DNA binding protein" ID bHLH proteins miss the basic region and should not be able to bind DNA, the HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | bHLH domain is missing the basic region (up to position 14 of the Pfam model). | null | Yimeng Yin | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene Candidate__DNA Binding_PMIDS:1922066;7565756 | Yes | null |
ENSG00000117318 | ID3 | bHLH | No | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | No motif | null | ID bHLH proteins lack the basic region and should not be able to bind DNA. The HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | null | null | null | null | "5 - not a DNA binding protein" ID bHLH proteins miss the basic region and should not be able to bind DNA, the HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | Disagree | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | Protein is supposed to lack the basic region that bHLH proteins use to bind DNA; however it binds DNA based on PBM | Protein is supposed to lack the basic region that bHLH proteins use to bind DNA; however it binds DNA based on PBM | Pratyush Das | Likely to be sequence specific TF | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene Candidate_Transcription Factor Binding: tf co-factor binding_Other_PMIDS:15016815 | Yes | null |
ENSG00000172201 | ID4 | bHLH | No | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | No motif | null | ID bHLH proteins lack the basic region and should not be able to bind DNA. The HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | null | null | null | null | "5 - not a DNA binding protein" ID bHLH proteins miss the basic region and should not be able to bind DNA, the HT-SELEX motif for ID4 is likely by a co-precipitated protein or it is a contamination | Disagree | Disagree | Sam Lambert | Has known motif | 2 Obligate heteromer | ID bHLH proteins are not canonically thought to have DNA-binding activity. It is possible IFD4 motif the result of being expressed in human cells and pulling-down other bHLH TFs (A. Jolma; personal communication). | null | Pratyush Das | Unlikely to be sequence specific TF | 4 Not a DNA binding protein | It lacks DNA binding ability but has motif from SELEX | needs a revisit | c | Yes | Yes | TF Gene Candidate__Transactivation_PMIDS:7665172;8139914 | No | null |
ENSG00000104903 | LYL1 | bHLH | Yes | Inferred motif | 2 Obligate heteromer | In vivo/Misc source | null | TAL1, TAL2 and LYL are very similar and have a basic region with a bulky tryptophan inserting into the cluster of the basic residues. Binds DNA as a heterodimer with TCF3 (PDB:2YPB and PDB:2YPA). | null | null | null | null | "Likely to be sequence specific TF" "2 Obligate heteromer" TAL1, TAL2 and LYL are very similar and have a basic region with a bulky tryptophan inserting into the cluster of the basic residues, yet at least TAL1 binds DNA well as a heterodimer with TCF3. The motifs seem like in vivo motifs except possibly for a one transfac motif. Is known to bind DNA as heterodimer with TCF3 PDB:2YPB and PDB:2YPA | null | null | Matt Weirauch | Likely to be sequence specific TF | 2 Obligate heteromer | Evidence seems to suggest it is an obligate heteromer. Tests on both PBMs and HT-SELEX yielded no motif. | null | Pratyush Das | Likely to be sequence specific TF | 2 Obligate heteromer | PMID: 22772404 | null | a | Yes | Yes | No | Yes | null |
ENSG00000125952 | MAX | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Jussi Taipale | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:8265351 | Yes | 1AN2 |
ENSG00000166823 | MESP1 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | c | Yes | Yes | No | Yes | null |
ENSG00000188095 | MESP2 | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | Seems straightforward | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | Missing motif logos/info | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific; Transcription Factor Binding: tf co-factor binding_Co-activation_PMIDS:16728472 | No | null |
ENSG00000187098 | MITF | bHLH | Yes | Known motif | 1 Monomer or homomultimer | 100%ID - in vitro | null | Binds DNA both as homo- and heterodimers (PMID: 23207919). The structure 4ATI is a homodimer with DNA GTTAGCACATGACCCT. | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | Based on pmid:23207919; it binds DNA both as homo- and heterodimers; The structure 4ATI is homodimer with DNA GTTAGCACATGACCCT | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:14737107;15716956 | Yes | 4ATI |
ENSG00000108788 | MLX | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Jussi Taipale | Has known motif | 1 Monomer or homomultimer | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:10918583;14742444 | Yes | null |
ENSG00000175727 | MLXIP | bHLH | Yes | Inferred motif | 2 Obligate heteromer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 2 Obligate heteromer | null | null | Pratyush Das | Has known motif | 2 Obligate heteromer | null | null | a | Yes | Yes | No | Yes | null |
ENSG00000009950 | MLXIPL | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | null | null | null | null | null | null | null | null | Sam Lambert | Has known motif | 1 Monomer or homomultimer | null | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific__PMIDS:0 | Yes | null |
ENSG00000070444 | MNT | bHLH | Yes | Known motif | 1 Monomer or homomultimer | High-throughput in vitro | null | Prefers to heterodimerize with MAX over homodimer formation (PMID: 9000049). | null | null | null | null | null | null | null | Arttu Jolma | Has known motif | 1 Monomer or homomultimer | Prefers to heterodimerize with MAX over homodimer formation based on PMID: 9000049 | null | Pratyush Das | Has known motif | 1 Monomer or homomultimer | null | null | a | Yes | Yes | TF Gene_DNA-Binding: sequence-specific_DNA Binding; TF PPI_PMIDS:9184233 | Yes | null |
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