Jerryhuang001/TF_network huggingface dataset:
Gene: HMGN1 (ENSG00000205581)
DNA-binding domain: HMG/Sox
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: In the alignment, it clusters with other HMG proteins that have not yielded motifs. 
Reviewer 1 (Yimeng Yin) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 notes: yes
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 2 comment: HMG protein
Reviewer 2 notes: needs revisit
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: TF Gene Candidate_Transcription Regulatory Activity: heterochromatin interaction/binding_Other_PMIDS:8524231;16382150
Annotated as a GO transcription factor: No
Gene: HMGN3 (ENSG00000118418)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Likely 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: 3 Low specificity DNA-binding protein
Reviewer 1 notes: check amino-acids required for binding
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 2 comment: PMID: 11356838
Reviewer 2 notes: HMG needs revisit
CisBP considers it a TF: No
TFclass considers it a TF: No
TF-CAT classification: TF Gene Candidate_Transcription Factor Binding: tf co-factor binding_Other_PMIDS:7776974;11356838;15082770
Annotated as a GO transcription factor: No
Gene: HMGXB3 (ENSG00000113716)
DNA-binding domain: HMG/Sox
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: In the alignment, it clusters with other HMG proteins that have not yielded motifs. 
Committee notes: Based on HMG/Sox alignment
AJ notes: "Unlikely to be sequence specific TF", "3 Low specificity DNA-binding protein". In the alignment it clusters together with other HMG proteins that have not yielded motifs 
Reviewer 1 (Tim Hughes) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: HMGB proteins are the branch of HMGs that are not sequence specific.  Included in CisBP only because the HMM is for all HMGs; not just SOX.
Reviewer 2 (Yimeng Yin) 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: No
Annotated as a GO transcription factor: No
Gene: HMGXB4 (ENSG00000100281)
DNA-binding domain: HMG/Sox
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: In the alignment, it clusters with other HMG proteins that have not yielded motifs. 
Committee notes: Based on HMG/Sox alignment
AJ notes: HMG domain lacks many of the residues that contact DNA in SOX17 structure
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: Based on PMID: 20511232 this protein binds to MYOCD to inhibit its interaction with SRF; but the article shows no evidence of sequence specific DNA binding.
Reviewer 2 (Pratyush Das) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 2 comment: PMID: 20511232 
Reviewer 2 notes: HMGs needs to be re categorize.
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: KMT2C (ENSG00000055609)
DNA-binding domain: HMG/Sox
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: Based on the alignment, it is quite different from all other HMG proteins. It is borderline to say that it is a HMG at all.
Committee notes: Based on HMG/Sox alignment
AJ notes: Based on alignment it is quite different from all other HMG proteins, borderline to say if it is a HMG at all
Reviewer 1 (Matt Weirauch) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 2 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 2 comment: Histone modifier
CisBP considers it a TF: Yes
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: KMT2D (ENSG00000167548)
DNA-binding domain: HMG/Sox
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: Based on alignment it is quite different from all other HMG proteins, borderline to say if it is a HMG at all. Crystal structure has an aminoacid sequence that doesn't match to the protein it claims to be
Committee notes: Based on HMG/Sox alignment
AJ notes: Based on alignment it is quite different from all other HMG proteins, borderline to say if it is a HMG at all. Crystal structure has an aminoacid sequence that doesn't match to the protein it claims to be
Disagreement on binding: Disagree
Reviewer 1 (Jussi Taipale) assessment: Likely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 notes: HMG domain; check for residues required for DNA binding
Reviewer 2 (Arttu Jolma) assessment: Likely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 2 comment: PDB:4PZI is a crystal structure of it's zinc-finger with a CpG containing DNA
CisBP considers it a TF: Yes
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
PDB structure: 4PZI
Gene: LEF1 (ENSG00000138795)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer" Very well established classical TF that also has HT-SELEX motifs
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_TF PPI_PMIDS:10958684;11696550;14579381
Annotated as a GO transcription factor: Yes
PDB structure: 2LEF
Gene: MAEL (ENSG00000143194)
DNA-binding domain: HMG/Sox
Is a transcription factor: No
TF assessment: ssDNA/RNA binding
Binding mode: 4 Not a DNA binding protein
Motif status: No motif
Comments: Orthologous protein from mouse binds RNA (PMID: 25807393) 
Committee notes: Based on HMG/Sox alignment
AJ notes: Based on alignment it is quite different from all other HMG proteins, borderline to say if it is a HMG at all
Disagreement on binding: Disagree
Reviewer 1 (Arttu Jolma) assessment: Unlikely to be sequence specific TF; binding: 4 Not a DNA binding protein
Reviewer 1 comment: Based on PMID: 25807393 MAEL HMG-protein is not likely to be a DNA but RNA binding protein
Reviewer 2 (Sam Lambert) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: Orthologous protein from mouse binds RNA (PMID:25807393) 
CisBP considers it a TF: Yes
TFclass considers it a TF: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: NSD2 (ENSG00000109685)
DNA-binding domain: HMG/Sox
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: Likely affects transcription by histone modification (not specific DNA-binding).
Committee notes: Based on HMG/Sox alignment
AJ notes: Divergent HMG motif, doesn't cluster either with specific or nonspecific HMG proteins
Disagreement on assessment: Disagree
Reviewer 1 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 1 Monomer or homomultimer
Reviewer 1 comment: Likely affects transcription by histone modification (not specific DNA-binding)
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: No
Annotated as a GO transcription factor: No
Gene: PBRM1 (ENSG00000163939)
DNA-binding domain: HMG/Sox
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: (PMID: 23867514) shows it may bind nucleosomal DNA.
Committee notes: Based on HMG/Sox alignment
AJ notes: "Unlikely to be sequence specific TF", "3 Low specificity DNA-binding protein". In the alignment it clusters together with other HMG proteins that have not yielded motifs 
Reviewer 1 (Arttu Jolma) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: component of chromatin remodeling complexes
Reviewer 2 (Pratyush Das) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: PMID: 23867514  says it may bind nucleosomal DNA
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene Candidate_Transcription Regulatory Activity: heterochromatin interaction/binding_DNA Binding_PMIDS:11078522;15601824
Annotated as a GO transcription factor: No
Gene: PMS1 (ENSG00000064933)
DNA-binding domain: HMG/Sox
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: In the alignment, it clusters with other HMG proteins that have not yielded motifs. 
Committee notes: Based on HMG/Sox alignment
AJ notes: "Unlikely to be sequence specific TF", "3 Low specificity DNA-binding protein". In the alignment it clusters together with other HMG proteins that have not yielded motifs 
Reviewer 1 (Tim Hughes) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 1 comment: Wrong kind of HMG domain
Reviewer 2 (Pratyush Das) 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: No
TF-CAT classification: No
Annotated as a GO transcription factor: No
Gene: SMARCE1 (ENSG00000073584)
DNA-binding domain: HMG/Sox
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: In the alignment, it clusters with other HMG proteins that have not yielded motifs.  Contributes to SWI/SNF DNA-binding (PMID: 9435219).
Committee notes: Based on HMG/Sox alignment
AJ notes: "Unlikely to be sequence specific TF", "3 Low specificity DNA-binding protein". In the alignment it clusters together with other HMG proteins that have not yielded motifs 
Reviewer 1 (Sam Lambert) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 (Laura Campitelli) assessment: Unlikely to be sequence specific TF; binding: 3 Low specificity DNA-binding protein
Reviewer 2 comment: Contributes to SWI/SNF DNA-binding [PMID: 9435219]
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:12145209;15743818
Annotated as a GO transcription factor: No
Gene: SOX1 (ENSG00000182968)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: 100%ID - in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins
Reviewer 1 (Arttu Jolma) 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:9512512;11943779
Annotated as a GO transcription factor: Yes
Gene: SOX10 (ENSG00000100146)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is for hairpin DNA
Reviewer 1 (Tim Hughes) assessment: Has known motif; binding: 1 Monomer or homomultimer
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:15523643
Annotated as a GO transcription factor: No
Gene: SOX11 (ENSG00000176887)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: 100%ID - in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is for hairpin DNA
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_DNA Binding; Transactivation_PMIDS:15183730
Annotated as a GO transcription factor: Yes
Gene: SOX12 (ENSG00000177732)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is ok
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: No
Annotated as a GO transcription factor: Yes
Gene: SOX13 (ENSG00000143842)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: 100%ID - in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. PBM motif is ok
Reviewer 1 (Jussi Taipale) 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 Candidate__DNA Binding_PMIDS:9421502
Annotated as a GO transcription factor: Yes
Gene: SOX14 (ENSG00000168875)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is for hairpin DNA. Mouse PBM motif is ok
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 1 Monomer or homomultimer
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: Indeterminate - There is no evidence for or against this genes role as a TF__Other_PMIDS:10798354
Annotated as a GO transcription factor: No
Gene: SOX15 (ENSG00000129194)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is for hairpin DNA. Mouse PBM motif is ok
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; Transactivation_PMIDS:10821863
Annotated as a GO transcription factor: Yes
Gene: SOX17 (ENSG00000164736)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is for hairpin DNA. Mouse PBM motif is ok
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: TF Gene_DNA-Binding: sequence-specific_Transactivation_PMIDS:15163629;15220343;15220343
Annotated as a GO transcription factor: Yes
PDB structure: 3F27
Gene: SOX18 (ENSG00000203883)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is ok
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_DNA-Binding: sequence-specific_DNA Binding_PMIDS:12446692
Annotated as a GO transcription factor: Yes
PDB structure: 4Y60
Gene: SOX2 (ENSG00000181449)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is for hairpin DNA. Mouse PBM motif is ok
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_DNA Binding; Transactivation_PMIDS:15860457
Annotated as a GO transcription factor: Yes
PDB structure: 1GT0
Gene: SOX21 (ENSG00000125285)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif is for hairpin DNA. Mouse PBM motif is ok
Reviewer 1 (Arttu Jolma) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: HT-SELEX models are likely to be derived to binding into stemloop-structure folded of single stranded DNA
Reviewer 2 (Pratyush Das) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 2 notes: has HMG domain
CisBP considers it a TF: Yes
TFclass considers it a TF: Yes
TF-CAT classification: TF Gene_DNA-Binding: sequence-specific_DNA Binding_PMIDS:12446692
Annotated as a GO transcription factor: Yes
Gene: SOX3 (ENSG00000134595)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif from Yin et al 2017 is ok
Reviewer 1 (Laura Campitelli) 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:11875113;12710953
Annotated as a GO transcription factor: No
Gene: SOX30 (ENSG00000039600)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif from Yin et al 2017 is ok
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: SOX4 (ENSG00000124766)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Comments: Also binds ssDNA loops.
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. HT-SELEX motif from Yin et al 2017 is ok
Reviewer 1 (Jussi Taipale) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: binds also ssDNA loops
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; Transactivation_PMIDS:7706298
Annotated as a GO transcription factor: Yes
PDB structure: 3U2B
Gene: SOX5 (ENSG00000134532)
DNA-binding domain: HMG/Sox
Is a transcription factor: Yes
TF assessment: Known motif
Binding mode: 1 Monomer or homomultimer
Motif status: High-throughput in vitro
Committee notes: Based on HMG/Sox alignment
AJ notes: "Has known motif", "1 Monomer or homomultimer". Aminoacid is very similar to the other SOX-subgroup of the HMG proteins. Mouse PBM motif is ok
Reviewer 1 (Sam Lambert) assessment: Has known motif; binding: 1 Monomer or homomultimer
Reviewer 1 comment: Transfac motif looks like expected Sox family motif 
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:1396566;8078769;9755172
Annotated as a GO transcription factor: Yes