Jerryhuang001/TF_network huggingface dataset:
Gene: MITF (ENSG00000187098)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: 100%ID - in vitro
Comments: Binds DNA both as homo- and heterodimers (PMID: 23207919). The structure 4ATI is a homodimer with DNA GTTAGCACATGACCCT.
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: Based on pmid:23207919; it binds DNA both as homo- and heterodimers; The structure 4ATI is homodimer with DNA GTTAGCACATGACCCT
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:14737107;15716956
Annotated as a GO transcription factor: Yes
PDB structure: 4ATI
Gene: MLX (ENSG00000108788)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:10918583;14742444
Annotated as a GO transcription factor: Yes
Gene: MLXIP (ENSG00000175727)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 2 Obligate heteromer
Motif status: High-throughput in vitro
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 2 Obligate heteromer
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 2 Obligate heteromer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: Yes
Gene: MLXIPL (ENSG00000009950)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific__PMIDS:0
Annotated as a GO transcription factor: Yes
Gene: MNT (ENSG00000070444)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Comments: Prefers to heterodimerize with MAX over homodimer formation (PMID: 9000049).
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: Prefers to heterodimerize with MAX over homodimer formation based on PMID: 9000049
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding; TF PPI_PMIDS:9184233
Annotated as a GO transcription factor: Yes
Gene: MSC (ENSG00000178860)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Laura Campitelli) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate_Transcription Factor Binding: tf co-factor binding; DNA-Binding: sequence-specific_DNA Binding; TF PPI_PMIDS:9892671
Annotated as a GO transcription factor: Yes
Gene: MSGN1 (ENSG00000151379)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Matt Weirauch) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: Yes
Gene: MXD1 (ENSG00000059728)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 2 Obligate heteromer
Motif status: In vivo/Misc source
Comments: All three MXD proteins have very similar sequences and should behave accordingly, making heterodimers with at least MAX (PMID:8521822).
AJ notes: "Likely to be sequence specific TF" "2 - Obligate heteromer" All three MXD proteins have very similar sequences and should behave accordingly, making heterodimers with at least MAX, the motifs are inferred
Disagreement on assessment: Disagree
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 2 Obligate heteromer
Reviewer 1 notes: reassay as heterodimer
Reviewer 2 (Sam Lambert) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
Reviewer 2 notes: Missing motif logos/info 
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_Co-activation; DNA Binding_PMIDS:8816491
Annotated as a GO transcription factor: Yes
PDB structure: 1NLW
Gene: MXD3 (ENSG00000213347)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 2 Obligate heteromer
Motif status: In vivo/Misc source
Comments: All three MXD proteins have very similar sequences and should behave accordingly, making heterodimers with at least MAX (PMID:8521822).
AJ notes: "Likely to be sequence specific TF" "2 - Obligate heteromer" All three MXD proteins have very similar sequences and should behave accordingly, making heterodimers with at least MAX, the motifs are inferred
Disagreement on assessment: Disagree
Reviewer 1 (Sam Lambert) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
Reviewer 1 comment: Heterodimerizes with MAX (PMID:8521822)
Reviewer 1 notes: Missing motif logos/info 
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 2 Obligate heteromer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: MXD4 (ENSG00000123933)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 2 Obligate heteromer
Motif status: In vivo/Misc source
Comments: All three MXD proteins have very similar sequences and should behave accordingly, making heterodimers with at least MAX (PMID:8521822).
AJ notes: "Likely to be sequence specific TF" "2 - Obligate heteromer" All three MXD proteins have very similar sequences and should behave accordingly, making heterodimers with at least MAX, the motifs are inferred
Disagreement on binding: Disagree
Reviewer 1 (Tim Hughes) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 comment: The "Inferred" motif on CisBP is for a non-human MXD4 protein.
Reviewer 1 notes: The "Inferred" motif on CisBP is for a non-human MXD4 protein.
Reviewer 2 (Arttu Jolma) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
Reviewer 2 comment: Heterodimerizes with MAX Pubmed: 8521822
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: MXI1 (ENSG00000119950)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 2 Obligate heteromer
Motif status: In vivo/Misc source
Notes: Has a putative AT-hook
Comments: Obligate heteromer (PMID: 8425219).
Reviewer 1 (Matt Weirauch) assessment: Has known motif; binding: 2 Obligate heteromer
Reviewer 1 comment: obligate heteromer: 8425219
Reviewer 2 (Yimeng Yin) assessment: Has known motif; binding: 2 Obligate heteromer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:8425219;15467743
Annotated as a GO transcription factor: No
Gene: MYC (ENSG00000136997)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 2 Obligate heteromer
Motif status: In vivo/Misc source
Comments: Functions as a heterodimer with MAX.
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 2 Obligate heteromer
Reviewer 1 comment: ChIP-seq only
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 2 Obligate heteromer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:12177005;16287840;16767079
Annotated as a GO transcription factor: Yes
PDB structure: 1NKP
Gene: MYCL (ENSG00000116990)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 2 Obligate heteromer
Motif status: In vivo/Misc source
Comments: Similar to MYC and thus likely to functions as a heterodimer with MAX.
AJ notes: "Likely to be sequence specific TF" "2 - Obligate heteromer". The aminoacid sequence is very similar to MYC and should behave the same way. The motifs are inferred
Disagreement on assessment: Disagree
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 2 Obligate heteromer
Reviewer 1 comment: Similar to MYC and thus likely to functions as a heterodimer with MAX
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
Reviewer 2 comment: Is there a direct motif to this protein available on this page. what I see are the motifs of orthologs.
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: MYCN (ENSG00000134323)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate_DNA-Binding: sequence-specific_DNA Binding_PMIDS:17124508
Annotated as a GO transcription factor: Yes
Gene: MYF5 (ENSG00000111049)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: In vivo/Misc source
Notes: Only known motifs are from Transfac or HocoMoco - origin is uncertain
Reviewer 1 (Yimeng Yin) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 comment: PMID: 2385294
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:2385294;15497153
Annotated as a GO transcription factor: Yes
Gene: MYF6 (ENSG00000111046)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_Transactivation_PMIDS:1317551;2311584;11076940
Annotated as a GO transcription factor: Yes
Gene: MYOD1 (ENSG00000129152)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Matt Weirauch) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Yimeng Yin) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:12242286
Annotated as a GO transcription factor: Yes
PDB structure: 1MDY
Gene: MYOG (ENSG00000122180)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Matt Weirauch) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Laura Campitelli) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:10733231
Annotated as a GO transcription factor: Yes
Gene: NCOA1 (ENSG00000084676)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 2 Obligate heteromer
Motif status: No motif
Comments: NCOA1/2/3 all have been tested on PBMs and HT-SELEX without yielding a motif.  All are co-activators, collectively suggesting they might be obligate heteromers.
AJ notes: Aminoacid sequencesof the DBD are very similar between all NCOA:s. The proteins have decent basic parts and the HLH region doesn't seem unreasonable either so they could in fact well be obligate heterodimers. Maybe the fact that they are well coactivators doesn't mean that they wouldn't be also obligate heterodimeric binding partners for certain bHLH proteins
Disagreement on binding: Disagree
Reviewer 1 (Tim Hughes) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 1 comment: Has a partial HLH domain; has been tested by both PBMs and HT-SELEX (as DBD and full) with negative results; and it's "a transcriptional coactivator for steroid and nuclear hormone receptors."  The bHLH domains seems to be lacking the basic part whic
Reviewer 2 (Sam Lambert) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: No evidence of DNA-binding in the literature; well-known co-activator; labeled class 4 based on partial match to an HLH domain
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate_Transcription Factor Binding: tf co-factor binding_TF PPI_PMIDS:9192892
Annotated as a GO transcription factor: No
Gene: NCOA2 (ENSG00000140396)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 2 Obligate heteromer
Motif status: No motif
Comments: NCOA1/2/3 all have been tested on PBMs and HT-SELEX without yielding a motif.  All are co-activators, collectively suggesting they might be obligate heteromers.
AJ notes: Aminoacid sequences are very similar between all NCOA:s. The proteins have decent basic parts and the HLH region doesn't seem unreasonable either so they could in fact well be obligate heterodimers. Maybe the fact that they are well coactivators doesn't mean that they wouldn't be also obligate heterodimeric binding partners for certain bHLH proteins
Reviewer 1 (Arttu Jolma) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 1 comment: Has an HLH like domain; but none of these proteins have bound DNA in HT-SELEX; PBM or in literature
Reviewer 2 (Matt Weirauch) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 2 comment: NCOA2 is a classic co-activator; I cant find any evidence that it contacts DNA
CisBP considers it a TF: No
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_Transcription Factor Binding: tf co-factor binding_Co-activation_PMIDS:14662770;15983373
Annotated as a GO transcription factor: No
PDB structure: 3DZU
Gene: NCOA3 (ENSG00000124151)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 2 Obligate heteromer
Motif status: No motif
Comments: NCOA1/2/3 all have been tested on PBMs and HT-SELEX without yielding a motif.  All are co-activators, collectively suggesting they might be obligate heteromers.
TRH notes: Likely obligate heterodimer
AJ notes: Aminoacid sequences are very similar between all NCOA:s. The proteins have decent basic parts and the HLH region doesn't seem unreasonable either so they could in fact well be obligate heterodimers. Maybe the fact that they are well coactivators doesn't mean that they wouldn't be also obligate heterodimeric binding partners for certain bHLH proteins
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
Reviewer 1 notes: check domain structure and amino-acids required for DNA binding; could be obligate heterodimer
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_Transcription Factor Binding: tf co-factor binding_Co-activation_PMIDS:9192892
Annotated as a GO transcription factor: No
Gene: NEUROD1 (ENSG00000162992)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:9111329;9343431
Annotated as a GO transcription factor: Yes
PDB structure: 2QL2
Gene: NEUROD2 (ENSG00000171532)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:8816493;10098882;10871374
Annotated as a GO transcription factor: Yes
Gene: NEUROD4 (ENSG00000123307)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
TRH notes: Likely obligate heteromer
AJ notes: "1 Monomer or homomultimer" Aminoacid sequence is highly similar to other NEURO TFs, except for a R to E change in the HLH region. Based on PDB:2QL2 of TCF3:NEUROD1 heterodimer this residue is however not used in the formation of the protein-protein interaction
Reviewer 1 (Matt Weirauch) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
Reviewer 1 comment: tested on both PBM and SELEX; with no motif.  Probably a heteromer; like other bHLHs
Reviewer 1 notes: Yes - data unclear
Reviewer 2 (Yimeng Yin) assessment: Likely to be sequence specific TF; binding: 2 Obligate heteromer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate__Co-activation; Transactivation_PMIDS:12947105
Annotated as a GO transcription factor: No
Gene: NEUROD6 (ENSG00000164600)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
AJ notes: "Likely to be sequence specific TF", aminoacid sequence is very similar to the other NEUROD TFs
Disagreement on assessment: Disagree
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 notes: Motif logo/info is missing
Reviewer 2 (Yimeng Yin) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_Other_PMIDS:9308961;9454850;12562512
Annotated as a GO transcription factor: Yes
Gene: NEUROG1 (ENSG00000181965)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Laura Campitelli) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate_DNA-Binding: sequence-specific_Transactivation_PMIDS:10814830
Annotated as a GO transcription factor: Yes
Gene: NEUROG2 (ENSG00000178403)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Laura Campitelli) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: Yes
Gene: NEUROG3 (ENSG00000122859)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
AJ notes: "Likely to be sequence specific TF". There are no direct PWMs and closest has 0.868 AA similarity. Based on alignment it is very similar to NEUROG1 on both th basic and HLH region
Disagreement on assessment: Disagree
Reviewer 1 (Matt Weirauch) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:10757813;16511571;10757813;16511571;16511571;14576336;16511571
Annotated as a GO transcription factor: Yes
Gene: NHLH1 (ENSG00000171786)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Laura Campitelli) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: Yes
Gene: NHLH2 (ENSG00000177551)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Reviewer 1 (Yimeng Yin) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:15470499
Annotated as a GO transcription factor: Yes
Gene: NPAS1 (ENSG00000130751)
DNA-binding domain: bHLH
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 2 Obligate heteromer
Motif status: In vivo/Misc source
Comments: Likely obligate heteromer (PMID: 27782878).
AJ notes: PDB: 5SY5 has NPAS1 with ARNT without DNA. In the study PMID: 27782878 they also measured that both NPAS3 and NPAS1 bind with ARNT the same DNA CGTACGTGCG with 20nM kDa. However it binds DNA just fine as a homodimer iin HT-SELEX
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: The motif is from Drosophila (0.685 %ID)
Reviewer 2 (Laura Campitelli) assessment: Has known motif; binding: 1 Monomer or homomultimer
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: non-sequence-specific_Non-specific DNA_PMIDS:15635607
Annotated as a GO transcription factor: Yes