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Lecture 3: Databases

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Total cards: 24•Content version: v4•Public deck•Updated: 8/1/2026

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#1
Front (Question)

large, organized body of persistent data

Back (Answer)

Databases

#2
Front (Question)

databases are designed to ____, ____, ___, components of the data stored within the system

Back (Answer)

• Update • Query • Retrieve

#3
Front (Question)

Types of Databases

Back (Answer)

• Bibliographic • Molecular Biology DB

#4
Front (Question)

Examples of Bibliographic

Back (Answer)

Journal/Articles Books

#5
Front (Question)

Example of Molecular BiologyDB

Back (Answer)

Based on level of: - Curation - Scope

#6
Front (Question)

Index, store and for access of scientific literature

Back (Answer)

Bibliographic databases

#7
Front (Question)

Different models of Bibliographic databases

Back (Answer)

• Closed acess model • Open access model

#8
Front (Question)

the model in which the publishers hold copyright

Back (Answer)

• Closed access model

#9
Front (Question)

model where content must be available on the internet and is free to acess

Back (Answer)

Open access model

#10
Front (Question)

Example of open access model of public funded research

Back (Answer)

• NIH and European fundigng agencies

#11
Front (Question)

Other example of journal articles

Back (Answer)

• Pubmed • Google scholar • ResearchGate

#12
Front (Question)

Example of Books

Back (Answer)

• EBSCO (E-books) • NCBI

#13
Front (Question)

• frequency that a typical article from a certain journal is cited given a particular year or period • the higher the impact factor, the more prestigious is the journal/better to publish in

Back (Answer)

Impact Factor

#14
Front (Question)

provide an indication of an acaemic journal’s impact and quality relative to other journals in their field

Back (Answer)

Journal ranking

#15
Front (Question)

types of databases based on level of curation

Back (Answer)

• Archival or primary databases • Derived or curated database

#16
Front (Question)

• Direct submission by researchers • usually experimental data

Back (Answer)

Archival or primary databases

#17
Front (Question)

Contain experimental data in Archival/Primary databases

Back (Answer)

• DNA & protein sequences (with annotation) • Nucleic acid & protein structures (with annotation) • Protein expression patterns

#18
Front (Question)

What is included in Derived/Curated databases

Back (Answer)

• Sequence motifs • Mutations & variants in DNA or protein • Classification/relationships

#19
Front (Question)

Types of databases based on level of scope

Back (Answer)

• Nucleotide • Protein • Protein structure • Genomes and Maps • Systems/Pathways • Organism-centered

#20
Front (Question)

Provides a comprehensive, high quality and freely-acessible resource of protein sequence and functional information

Back (Answer)

Protein sequence database: UniProt

#21
Front (Question)

Two sections of UniProt

Back (Answer)

• UniProtKB/Swiss-prot • UniProtKB/TrEMBL

#22
Front (Question)

What is the organism-centered database for Homo sapiens?

Back (Answer)

UCSC Genome Browser – https://genome.ucsc.edu

#23
Front (Question)

What is the organism-centered database for Arabidopsis?

Back (Answer)

TAIR (The Arabidopsis Information Resource)

#24
Front (Question)

What is the organism-centered database for Drosophila?

Back (Answer)

FlyBase