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Free Practice Quiz Question List

2 Biological Databases and Data Retrieval Online Quiz Questions

Use this free practice quiz with 20 questions to review 2 Biological Databases and Data Retrieval, test your knowledge, and prepare for your next test or exam.

20 questions
01
Choose one
1 point

You need a reference transcript sequence for a gene. Which resource is the most appropriate starting point?

  1. A

    Sequence Read Archive (SRA)

  2. B

    Protein Data Bank (PDB)

  3. C

    RefSeq

  4. D

    UniProtKB

02
True or false
1 point

A raw sequencing read archive record can be treated as interchangeable with an assembled reference genome record.

  1. A

    True

  2. B

    False

03
Fill in the blank
1 point

A record has accession AB123456 and sequence version 2. Enter the versioned accession that identifies this particular sequence version:

04
Written response
1 point

You need a nucleotide sequence and a short description, but not feature annotations or extensive metadata. Which format is most suitable?

05
Choose one
1 point

When citing a UniProtKB entry for reproducible retrieval, which identifier should you use?

  1. A

    The mnemonic entry name

  2. B

    The UniProt accession

  3. C

    The organism name

  4. D

    The protein name

06
True or false
1 point

A UniProtKB mnemonic entry name is the preferred stable identifier to use when citing an entry.

  1. A

    True

  2. B

    False

07
Written response
1 point

The KEGG pathway identifier hsa00010 is an organism-specific map. Enter the organism code in this identifier.

08
Choose one
1 point

A PDB structure contains multiple chains, and your analysis concerns one particular molecular instance. Which identifier distinguishes that instance within the structure record?

  1. A

    The PDB entry identifier

  2. B

    The chain identifier

  3. C

    The UniProt mnemonic

  4. D

    The sequence accession version

09
Fill in the blank
1 point

In NCBI E-utilities, finds records matching a query, while EFetch retrieves records in a requested format.

10
Choose all
1 point

You need a nucleotide record's feature annotations and metadata, not just its sequence. Select all suitable output formats.

  1. A

    FASTA

  2. B

    GenBank/EMBL flat file

  3. C

    XML

  4. D

    A plain sequence string without a record format

11
Choose all
1 point

You have found a candidate sequence record for an analysis. Select all checks that help verify that it is the intended record and appropriate for your use.

  1. A

    Confirm the organism.

  2. B

    Check the sequence or entity and accession version.

  3. C

    Review annotation status and evidence.

  4. D

    Check links to related records.

  5. E

    Use the record type that matches the data needed.

  6. F

    Assume a gene symbol uniquely identifies the record across species.

  7. G

    Treat all records as having the same evidence and annotation depth.

12
Choose one
1 point

A colleague must reproduce your retrieval of a sequence record. Which set of details should you save?

  1. A

    Only the gene symbol and the download date

  2. B

    Only the file format and the organism name

  3. C

    The database, accession including version, retrieval date, query or filters, and file format

  4. D

    Only the database name and the protein name

13
Open ended
1 point

You need a three-dimensional structure for a particular protein and will analyze its coordinates computationally. Describe a retrieval workflow that helps ensure you download the intended molecular instance in a usable format.

14
Choose one
1 point

A researcher needs the raw sequencing reads from an experiment, rather than an assembled genome or annotated transcript. Which resource is the most appropriate starting point?

  1. A

    GenBank

  2. B

    Sequence Read Archive (SRA)

  3. C

    RefSeq

  4. D

    UniProtKB

15
Choose one
1 point

You need a database entry that brings together a protein sequence and functional annotation such as domains, subcellular location, and evidence. Which resource best fits this need?

  1. A

    ENA

  2. B

    PDB

  3. C

    UniProtKB

  4. D

    KEGG PATHWAY

16
Choose one
1 point

You have identified the correct nucleotide record and need only its sequence and a short description for a sequence-only analysis. Which output format is the most suitable?

  1. A

    FASTA

  2. B

    GenBank/EMBL flat file

  3. C

    XML

  4. D

    PDBx/mmCIF

17
Choose one
1 point

A search for a gene symbol returns records from several species. What is the best next step to narrow the results to the intended biological record?

  1. A

    Search only the gene symbol and accept the first result

  2. B

    Use a FASTA header as the sole confirmation of record identity

  3. C

    Choose a record based only on its publication date

  4. D

    Combine the gene symbol with the organism or an organism filter

18
True or false
1 point

A reaction appears in a curated pathway map. This alone demonstrates that the reaction is active in a particular experimental sample.

  1. A

    True

  2. B

    False

19
Written response
1 point

When citing a UniProtKB entry, what stable identifier should you use instead of the mnemonic entry name?

20
Written response
1 point

In NCBI E-utilities, which operation retrieves records in a requested format after the relevant records have been identified?