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JASPAR’s CORE DB has 5 tables. the 5 tables are associated by the first column, but I’m not sure whether it means a protein. next page for detail.

Published byMyron McBride Modified over 8 years ago

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Presentation on theme: "JASPAR’s CORE DB has 5 tables. the 5 tables are associated by the first column, but I’m not sure whether it means a protein. next page for detail."— Presentation transcript:

1 JASPAR’s CORE DB has 5 tables. the 5 tables are associated by the first column, but I’m not sure whether it means a protein. next page for detail

2 MATRIX_DATA -> use to create pssm matrix Columns: protein id ? base (ATGC) position the count of nucleotide at this position

3 MATRIX_PROTEIN -> get protein name Columns: protein id ? protein accession

4 MATRIX_SPECIES -> get spexies name Columns: protein id ? NCBI species tax id

5 MATRIX -> get protein imformation Columns: protein id "CORE" or "collection" DB motif id (MA0001) DB motif edition protein generated gene symbol And here the gene symbol is a little strange.

6 MATRIX_ANNOTATION Columns: protein id protein attribute's name protein attribute's value

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