Annotation Conf. Call, April 28, 2015

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Revision as of 10:08, 28 April 2015 by David (talk | contribs) (Annotation Summary)

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Agenda

Curation Consistency exercise

http://www.ncbi.nlm.nih.gov/pubmed/?term=24349431

Please send your annotations to MGI (David Hill)

Results

8 groups submitted 119 annotations: 2 mgi, Tair, worm, zebrafish, fission yeast, budding yeast, UCL

Annotation Summary

Gene Term ID # of Annotations Evidence Code Summary 'With' field Summary Extension Summary
Biological Process Annotations
cystin negative regulation of transcription from RNA polymerase II promoter GO:0000122 4/10 IDA-2;IGI-1 necdin for the IGI annotation negatively_regulates-o-has-input Myc)(has_regulation_target Myc,occurs_in(mouse kidney epithelial cells - mIMCD-3))(has_regulation_target Myc)(has_direct_input necdin)
cystin regulation of transcription, DNA-templated GO:0006355 1/10 IDA
necdin regulation of transcription, DNA-templated GO:0006355 1/10 IDA
necdin positive regulation of transcription, DNA-templated GO:0045893 1/10 IDA (has_regulation_target Myc)
cystin positive regulation of transcription, DNA-templated GO:0045893 1/10 IDA (has_regulation_target Myc)
cystin negative regulation of transcription, DNA-templated GO:0045892 1/10 IDA (has_regulation_target Myc)
cystin regulation of transcription from RNA pol II promoter GO:0006357 1/10 IDA (has_regulation_target Myc)
necdin regulation of transcription from RNA pol II promoter GO:0006357 1/10 IDA (has_regulation_target Myc)
cystin NLS-bearing protein import into nucleus GO:0006607 1/10 IMP
cystin positive regulation of gene expression GO:0010628 1/10 IDA (has_regulation_target Myc)
necdin positive regulation of gene expression GO:0010628 1/10 IDA (has_regulation_target Myc)
cystin positive regulation of transcription from RNA polymerase II promoter GO:0045944 8/10 IDA;IGI-1 necdin for the IGI annotation (has_regulation_target Myc; 5 annotations)(occurs_in(mouse kidney epithelial cells - mIMCD-3; 1 annotation)(in_presence_of Myc; 1 annotation)(occurs_in 'kidney collecting duct cell; 1 annotation)
necdin positive regulation of transcription from RNA polymerase II promoter GO:0045944 7/10 IDA;IGI-1 cystin for the IGI annotation (has_regulation_target Myc; 5 annotations)(occurs_in(mouse kidney epithelial cells - mIMCD-3; 1 annotation)(in_presence_of Myc; 1 annotation)
cystin negative regulation of sequence-specific DNA binding transcription factor activity GO:0043433 3/10 IDA-1;IGI-1;IDA or IPI-1 necdin for the IGI (has_regulation_target necdin; 3 annotations)(occurs_in(mouse kidney epithelial cells - mIMCD-3; 1 annotation)
Cellular Component Annotations
cystin chromatin GO:0000785 1/10 IDA (coincident_with('GN box' or Myc P1 promoter' SO:new)
necdin chromatin GO:0000785 1/10 IDA (coincident_with('GN box' or Myc P1 promoter' SO:new)
cystin nuclear chromatin GO:0000977 1/10 IDA
necdin nuclear chromatin GO:0000977 1/10 IDA
cystin nucleus GO:0005634 10/10 IDA (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(requires_sequence_feature NLS1; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of CL:0002518 kidney epithelial cells; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation)
necdin nucleus GO:0005634 9/10 IDA (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(requires_sequence_feature NLS1; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of CL:0002518 kidney epithelial cells; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation)
necdin cytoplasm GO:0005737 6/10 IDA (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation)
cystin cytoplasm GO:0005737 6/10 IDA (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(requires_sequence_feature G2A)
cystin cytosol GO:0005829 5/10 IDA (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation)
cystin plasma membrane GO:0005886 1/10 IDA
cystin membrane GO:0016020 9/10 IDA (part_of CL:0002518 kidney epithelial cells; 1 annotation)(part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation)
cystin RNA polymerase II transcription factor complex GO:0090575 3/10 IDA-2;IC-1 (part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)
necdin RNA polymerase II transcription factor complex GO:0090575 3/10 IDA-2;IC-1 (part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)
Molecular Function Annotations
necdin protein binding GO:0005515 8/10 IPI cystin-4 annotations (requires_sequence_feature aa 71 to 305; 1 annotation)
cystin protein binding GO:0005515 8/10 IPI necdin-4 annotations (requires_sequence_feature aa 71 to 305; 1 annotation)
necdin protein C-terminus binding GO:0008022 2/10 IPI cystin (requires_sequence_feature aa 71 to 305; 1 annotation)
cystin RNA polymerase II transcription factor binding GO:0001085 1/10 IPI necdin
cystin RNA polymerase II activating transcription factor binding GO:0001102 1/10 IPI necdin
necdin RNA polymerase II activating transcription factor binding GO:0001102 1/10 IPI cystin
necdin RNA polymerase II repressing transcription factor binding GO:0001103 1/10 IPI cystin
cystin chromatin binding GO:0003682 3/10 IDA has_input (Myc,promoter ; SO:0000167; 1 annotation)(has_direct_input Myc P1 promoter|occurs_in(mouse kidney epithelial cells - mIMCD-3)
necdin chromatin binding GO:0003682 3/10 IDA has_input (Myc,promoter ; SO:0000167; 1 annotation)(has_direct_input Myc P1 promoter|occurs_in(mouse kidney epithelial cells - mIMCD-3)
necdin sequence specific dna binding GO:0043565 1/10 IDA
cystin sequence specific dna binding GO:0043565 1/10 IDA
cystin transcription regulatory region sequence-specific DNA binding GO:0000976 1/10 IDA occurs_in mouse kidney epithelial cells - mIMCD-3)
necdin transcription regulatory region sequence-specific DNA binding GO:0000976 1/10 IDA occurs_in mouse kidney epithelial cells - mIMCD-3)
cystin RNA polymerase II regulatory region sequence-specific DNA binding GO:0000977 1/10 IDA occurs_in mouse kidney epithelial cells - mIMCD-3)
necdin RNA polymerase II regulatory region sequence-specific DNA binding GO:0000977 1/10 IDA occurs_in mouse kidney epithelial cells - mIMCD-3)
necdin RNA polymerase II core promoter proximal region sequence-specific DNA binding GO:0000978 3/10 IDA (has_direct_input Myc; 1 annotation)(coincident_with 'GN box' or Myc P1 promoter' SO:new)
cystin RNA polymerase II core promoter proximal region sequence-specific DNA binding GO:0000978 3/10 IDA (has_direct_input Myc; 1 annotation)(coincident_with 'GN box' or Myc P1 promoter' SO:new)
cystin sequence-specific DNA binding transcription factor activity GO:0003700 1/10 IPI (has_regulation_target Myc)
necdin sequence-specific DNA binding transcription factor activity GO:0003700 1/10 IPI (has_regulation_target Myc)
necdin RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription GO:0001077 2/10 IDA (has_regulation_target Myc)
cystin RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription GO:0001077 2/10 IDA (has_regulation_target Myc)
cystin RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription GO:0001191 1/10 IDA regulates-o-has-input Myc)
cystin RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription GO:0001227 1/10 IDA(IC?) (has_input Myc,in_presence_of necdin)
cystin RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription GO:0001228 1/10 IDA(IC?) (has_input Myc)
necdin RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription GO:0001228 1/10 IDA(IC?) (has_input Myc)
Other Genes
Trp53 protein binding GO:0005515 1/10 IPI Large T antigen
Cenpa nucleus GO:0005634 1/10 IDA
Capn2 cytosol GO:0005829 1/10 IDA
Cdh3 membrane GO:0016020 1/10 IDA