Bioinformatics A, Summary

Read the summary and the most important questions on Bioinformatics A, summary

• 1 Databases

• 1.1 general

• What is meant with a primary database?

  A database that contains biomolecular sequences or structures, experimental data

• What is meant with a secondary database?

  A database that contains data derived from a primary database

• What are the 5 essential data elements for a database?

  1. Unique identifier, accession code
  2. Name of depositor
  3. Literature references
  4. Deposition date
  5. Real data

• 1.2 SwissProt

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• Where can you find information about the role of the amino acids in a sequence in SwissProt?

  Features section

• 1.4 PDB

• What kind of data can you find in PDB?

  Protein structures

• PDB is a databanks, not a database. What is the difference between a databank and database?

  A databank accepts data as it is submitted a database doesn't

• 1.5 OMIM

• What kind of data can you find in OMIM?

  Descriptions of phenotypes for a whole series of diseases causing mutations in the human genome

• 2 Tools

• Which 3 tools are used during this course?

  1. MRS
  2. BLAST
  3. YASARA

• 2.2 BLAST

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• What is a low complexity motif?

  Part of a sequence with a repeated motif of one or more amino acids

• 3 Proteins and amino acids

• 3.1 Primary structure

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• What is the N-terminus of a protein?

  The start of the protein, first amino acid, has free NH3 group