Biology for everyone
1
Introduction
2
A
2.1
Alignments
2.2
Talking Glossary: Allele (0.5 min)
3
B
3.1
Talking glossary: Bioinformatics
4
C
4.1
Talking Glossary: Candidate gene
4.2
CATH database
4.2.1
References
4.3
Clade
4.3.1
Clades and phylogenetic trees
4.3.2
Terminology
4.3.3
In popular culture
4.3.4
References
4.4
Talking Glossary: Cloning (0.5 min)
4.5
Talking Glossary: Codominance (0.5 min)
4.6
Comparative genomics
4.7
Talking Glossary: Contig (0.75 min)
4.8
Talking Glossary - Foundations 1 Review: Crossing over
5
D
5.1
Talking Glossary: Deletion mutation (1.5 min)
5.2
Talking Glossary: DNA sequencing (0.75 min)
5.3
Sex-Chromosome Dosage compensation
5.3.1
Random inactivation of one X in XX individuals
5.3.2
Results
5.3.3
Clinical applications
5.3.4
Agricultural applications
5.3.5
Limitations
5.4
Fine-mapping
6
H
6.1
Talking Glossary: Haploid (1.25 min)
6.2
Talking Glossary: Halplotype
6.3
Talking Glossary: Heterozygous
6.4
Homology:L When things are homolgous AND analogous!
6.5
Talking Glossary: Homozygous
7
I
7.1
Talking Glossary: Insertion mutation (1.25 min)
7.2
Intrinscially disordered protein
7.2.1
Abundance
7.2.2
Disorder annotation
7.2.3
Disorder databases
7.2.4
Predicting IDPs by sequence
7.2.5
Prediction methods
7.2.6
Disorder and disease
8
J
8.1
JoVe Videos
8.1.1
Biotechnology
8.1.2
Macromolecules
8.1.3
Cellular respiration
8.1.4
Population and community ecology
8.1.5
Population genetics
9
K
9.1
Talking glossary: Knockout (Genetic knockout, gene knockout)
10
L
10.1
Talking Glossary: Locus (1 min)
11
M
11.1
Manhattan Plot
11.1.1
GWAS
11.2
Talking Glossary: Microarray
11.3
Talking Glossary: Missense Mutation (1.25 min)
11.4
Talking Glossary: Mitochondrial DNA (1.5 min)
11.5
Talking Glossary: Mutagen (0.5 min)
11.6
Talking Glossary: Mutation (0.5 min)
12
N
12.1
Talking Glossary: Non-coding DNA (1 min)
12.2
Talking Glossary: Nonsene mutation
12.3
Nucleic Acids - Overview
12.3.1
DNA and RNA
12.3.2
DNA Double-Helix Structure
12.3.3
RNA
12.3.4
Protein function
12.3.5
Summary
12.3.6
Glossary
12.3.7
Contributors and Attributions
13
O
13.1
Talking Glossary : Open reading frame definition (3 min)
14
P
14.1
Talking Glossary: PCR - The Polymerase Chain Reaction (0.5 min)
14.2
Protein Data Bank
14.2.1
History
14.2.2
File format
14.3
PFam
14.3.1
Uses
14.4
Talking Glossary: Phenotype
14.5
Phylogenetics vocab
14.6
Talking Glossary: Plasmid (1 min)
14.7
Talking Glossary: Point mutation (0.5 min)
14.8
Talking Glossary: Polymorphism (1 min)
14.9
Talking Glossary U03: Primer (0.5 min)
14.10
Talking Glossary: Promoter (1.5 min)
15
Q
16
R
16.1
Talking Glossary: Recessive
16.2
Talking Glossary: Recombinant DNA (0.5 min)
16.3
Talking Glossary: Repressor (1 min)
16.4
Talking Glossary: Restriction Enzyme (0.5 min)
17
S
17.1
Structural Classification of Proteins database (SCOP)
17.1.1
Hierarchical organisation
17.1.2
Superfamilies
17.1.3
Families
17.1.4
PDB entry domains
17.2
Sequence alignment
17.2.1
Interpretation
17.2.2
Alignment methods
17.2.3
Representations
17.2.4
Global and local alignments
17.2.5
Pairwise alignment
17.2.6
Dot-matrix methods
17.2.7
Dynamic programming
17.2.8
Word methods
17.2.9
Multiple sequence alignment
17.2.10
Phylogenetic analysis
17.2.11
Assessment of significance
17.2.12
Other biological uses
17.2.13
References
17.3
Talking Glossary U03: Shotgun sequencing (1 min)
17.4
Talking Glossary: Sickle Cell Disease (4 min)
17.5
Medline: SNPs (single nucleotide polymorphism)
17.6
Talking glossary: Somatic cells (0.75 min)
17.7
Sequence annotation
17.7.1
Process
17.8
Talking Glossary: Substitution mutation (1.75 min)
18
T
18.1
Taxa, Taxon, and clades: A Brief Primer
18.1.1
What is a “taxon”
18.1.2
What is a clade?
18.1.3
Further Reading:
18.2
Talking Glossary: Trait (0.75 min)
19
U
19.1
Uniprot
19.1.1
The UniProt consortium
19.1.2
The roots of UniProt databases
20
V
20.1
Talking Glossary: Vector (2 min)
21
W
21.1
Talking Glossary: X-chromosome (1.25 min)
21.2
Talking Glossary: X-inactivation (“Lyonization”; 1.45 min))
22
X
23
V
23.1
Additional Glossaries
24
Z
Published with bookdown
Foundations of Biology and Environmental Science: An Open-Access Encyclopedia
15
Q