Jerryhuang001/TF_network huggingface dataset:
Gene: TFAP2A (ENSG00000137203)
DNA-binding domain: AP-2
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 (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; Transactivation_PMIDS:11522791;15475956
Annotated as a GO transcription factor: Yes
Gene: TFAP2B (ENSG00000008196)
DNA-binding domain: AP-2
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; Transactivation_PMIDS:7555706
Annotated as a GO transcription factor: Yes
Gene: TFAP2C (ENSG00000087510)
DNA-binding domain: AP-2
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: No
Annotated as a GO transcription factor: Yes
Gene: TFAP2D (ENSG00000008197)
DNA-binding domain: AP-2
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
Comments: Binds the same GCCTGAGGC sequence as the other AP-2s (PMID: 24789576)
AJ notes: Binds the same GCCTGAGGC sequence as the other AP-2:s based on PMID: 24789576
Disagreement on assessment: Disagree
Reviewer 1 (Arttu Jolma) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 comment: Binds GCCTGAGGC sequence based on PMID: 24789576
Reviewer 2 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 comment: Source of Hocomoco motif is unclear
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: Yes
Gene: TFAP2E (ENSG00000116819)
DNA-binding domain: AP-2
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_DNA-Binding: sequence-specific_DNA Binding_PMIDS:14572467
Annotated as a GO transcription factor: Yes
Gene: ARID1A (ENSG00000117713)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Comments: Non-specific DNA binder (PMID: 15170388).
Reviewer 1 (Matt Weirauch) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: non-specific DNA binder: PMID 15170388
Reviewer 2 (Pratyush Das) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: Pubmed: 10757798
CisBP considers it a TF: #N/A
TFclass considers it a TF: #N/A
TF-CAT classification: #N/A
Annotated as a GO transcription factor: #N/A
PDB structure: #N/A
Gene: ARID1B (ENSG00000049618)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Comments: Non-specific DNA binder (PMID: 15170388).
Disagreement on assessment: Disagree
Disagreement on binding: Disagree
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 notes: ARID domain and full-length should be tested
Reviewer 2 (Matt Weirauch) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: 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
Annotated as a GO transcription factor: No
Gene: ARID3A (ENSG00000116017)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: 100%ID - in vitro
Committee notes: 100% DBDID to mouse, which has PBM
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: The lower confidence models seem legit; similar AT-rich motif as those observed for paralogs using PBM
Reviewer 2 (Sam Lambert) 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:15456761
Annotated as a GO transcription factor: Yes
Gene: ARID3B (ENSG00000179361)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Disagreement on assessment: Disagree
Reviewer 1 (Yimeng Yin) assessment: Likely to be sequence specific TF; 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_Transcription Factor Binding: tf co-factor binding; DNA-Binding: non-sequence-specific_DNA Binding; TF PPI_PMIDS:10446990
Annotated as a GO transcription factor: Yes
Gene: ARID3C (ENSG00000205143)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: Yes
TF assessment: Inferred motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Disagreement on assessment: Disagree
Reviewer 1 (Yimeng Yin) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: There is unpublished HT-SELEX data for ARID3C
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: Indeterminate - There is no evidence for or against this genes role as a TF__Other_PMIDS:15922553
Annotated as a GO transcription factor: Yes
Gene: ARID4A (ENSG00000032219)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Notes: Has a putative AT-hook
Comments: Binds DNA in a sequence non-specific manner (PMID: 15640446).
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: Only the ARID3 and ARID5 subclasses are sequence specific
Reviewer 2 (Yimeng Yin) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: It binds to DNA in a sequence non-specific manner. [PMID: 15640446]
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_Transcription Regulatory Activity: heterochromatin interaction/binding; Transcription Factor Binding: tf co-factor binding_Other; TF PPI_PMIDS:10321733;10490602
Annotated as a GO transcription factor: Yes
Gene: ARID4B (ENSG00000054267)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Comments: Binds DNA in a sequence non-specific manner (PMID: 15640446).
Disagreement on assessment: Disagree
Disagreement on binding: Disagree
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 notes: ARID domain and full-length should be tested
Reviewer 2 (Yimeng Yin) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: See ARID4A for evidence
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_Transcription Regulatory Activity: heterochromatin interaction/binding_Co-activation; TF PPI_PMIDS:12724404
Annotated as a GO transcription factor: No
Gene: ARID5A (ENSG00000196843)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: 100%ID - in vitro
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: Indirect motif has 100% DBD Identity to mouse Arid5a (PBM motif)
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: Indeterminate - There is no evidence for or against this genes role as a TF___PMIDS:0
Annotated as a GO transcription factor: No
Gene: ARID5B (ENSG00000150347)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: 100%ID - in vitro
Notes: Has a putative AT-hook
Committee notes: 100% DBDID to mouse, which has PBM
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: crystal structure PDB: 2OEH is with  dsDNA TACAATATAACGTCG
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 Candidate_DNA-Binding: sequence-specific_DNA Binding; Transactivation_PMIDS:8649988;10329386
Annotated as a GO transcription factor: Yes
PDB structure: 2OEH
Gene: JARID2 (ENSG00000008083)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Comments: Only ARID3 and ARID5 family members have sequence specificity (PMID: 15640446).
Disagreement on assessment: Disagree
Reviewer 1 (Tim Hughes) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: Only ARID3 and ARID5 family members have sequence specificity (PMID:15640446)
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: PMID: 12890668
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: KDM5A (ENSG00000073614)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Disagreement on assessment: Disagree
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 notes: ARID domain and full-length should be tested
Reviewer 2 (Sam Lambert) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: KDM5A is a known transcriptional co-factor
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; TF PPI_PMIDS:9129143;11358960;15949438
Annotated as a GO transcription factor: Yes
Gene: KDM5B (ENSG00000117139)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Comments: Binds GC-rich sequences such as CCGCCC (PMID: 18270511).
Reviewer 1 (Arttu Jolma) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 comment: 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
Reviewer 2 (Yimeng Yin) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 2 comment: Prefer to GC-rich sequence; such as CCGCCC [PMID: 18270511]
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_Transcription Factor Binding: tf co-factor binding_TF PPI; Transactivation_PMIDS:12657635
Annotated as a GO transcription factor: Yes
Gene: KDM5C (ENSG00000126012)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Disagreement on binding: Disagree
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 notes: ARID domain; check for residues required for DNA binding
Reviewer 2 (Arttu Jolma) assessment: Likely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: Has low-specificity ARID-domain and histone demethylase activity besides chromatin recognition domain PHD
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate_Transcription Regulatory Activity: heterochromatin interaction/binding_Other_PMIDS:17320160
Annotated as a GO transcription factor: No
Gene: KDM5D (ENSG00000012817)
DNA-binding domain: ARID/BRIGHT
Is a transcription factor: No
TF assessment: Unlikely to be sequence specific TF
Binding mode: 3 Low specificity DNA-binding protein
Motif status: No motif
Comments: Polycomb protein that is well-documented to bind histone marks (PMID: 27477906; PMID: 17351630; PMID: 17320160; PMID: 17320162).
Disagreement on assessment: Disagree
Disagreement on binding: Disagree
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 notes: ARID domain and full-length should be tested
Reviewer 2 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 2 comment: Polycomb protein that is well-documented to bind histone marks [PMID: 27477906; PMID: 17351630; PMID: 17320160; PMID: 17320162]
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: Indeterminate - There is no evidence for or against this genes role as a TF___PMIDS:0
Annotated as a GO transcription factor: No
Gene: ARID2 (ENSG00000189079)
DNA-binding domain: ARID/BRIGHT; RFX
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 notes: ARID domain; check for residues required for DNA binding
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_Transcription Factor Binding: tf co-factor binding_Co-activation_PMIDS:16782067
Annotated as a GO transcription factor: No
Gene: AHCTF1 (ENSG00000153207)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Disagreement on assessment: Disagree
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 notes: name says AT-hook; but domain not called; should be checked
Reviewer 2 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: Recruits nucleoporins to chromatin [PMID: 17235358]
Reviewer 2 notes: Should not be initial assessment 1a1?
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: AHDC1 (ENSG00000126705)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Reviewer 1 (Sam Lambert) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: 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. 
Reviewer 2 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: AKNA (ENSG00000106948)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Comments: Binds AT-rich promoters of CD40 and CD40L and coordinates their expression (PMID: 11268217).
Disagreement on assessment: Disagree
Disagreement on binding: Disagree
Reviewer 1 (Tim Hughes) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 comment: 11268217 claims it binds DNA; but there is no motif as yet.
Reviewer 2 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: Debatable - binds AT-rich promoters of CD40 and CD40L and coordinates their expression; but likely doesn't bind a specific sequence [PMID: 11268217]
Reviewer 2 notes: Debatable - binds AT-rich promoters of CD40 and CD40L and coordinates their expression; but likely doesn't bind a specific sequence [PMID: 11268217]
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: Yes
Gene: ASH1L (ENSG00000116539)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Reviewer 1 (Arttu Jolma) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 1 comment: Protein is a histone methyltransferase PMID: 17923682 
Reviewer 2 (Pratyush Das) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: CBX2 (ENSG00000173894)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
MTW notes: Has single SMART AT hook
Disagreement on assessment: Disagree
Disagreement on binding: Disagree
Reviewer 1 (Sam Lambert) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 2 (Yimeng Yin) assessment: Likely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: AT-hook containing protein
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: DNTTIP1 (ENSG00000101457)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Notes: Has a putative AT-hook
Disagreement on assessment: Disagree
Disagreement on binding: Disagree
Reviewer 1 (Arttu Jolma) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: 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.
Reviewer 2 (Yimeng Yin) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: DOT1L (ENSG00000104885)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Disagreement on assessment: Disagree
Reviewer 1 (Arttu Jolma) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: Protein is a histone methyltransferase; has a putative AT-hook GRKRGRPKKMN and could thus have low specificity interactions with DNA
Reviewer 2 (Yimeng Yin) assessment: Likely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: Two databases claimed this proteins contains a putative AT-hook.
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: GLYR1 (ENSG00000140632)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Likely to be sequence specific TF
Binding mode: 1 Monomer or homomultimer
Motif status: No motif
Notes: Has a putative AT-hook
Disagreement on assessment: Disagree
Disagreement on binding: Disagree
Reviewer 1 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 1 comment: Binds histones [PMID: 20850016]
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 2 comment: AT hook type needs reconsideration; UniProtKB - Q49A26
Reviewer 2 notes: AT hook type DNA binding
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: HMGA1 (ENSG00000137309)
DNA-binding domain: AT hook
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
Committee notes: Reannotated as AT Hook
AJ notes: Name is misleading, it does not have a HMG domain but three AT-hooks
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 notes: Has also HMG DBDs
Reviewer 2 (Yimeng Yin) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 comment: We've obtained motif for it in the new data.
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: non-sequence-specific; Transcription Factor Binding: tf co-factor binding_DNA Binding_PMIDS:9199299;12907668
Annotated as a GO transcription factor: Yes
PDB structure: 2EZD
Gene: HMGA2 (ENSG00000149948)
DNA-binding domain: AT hook
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: In vivo/Misc source
Committee notes: 100% DBDID to mouse, which has PBM
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: Binds DNA specifically based on PMID:14627817. Transfac and Hocomoco models are probably correct in vivo sites
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: No
Annotated as a GO transcription factor: Yes