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BIOS Instant Notes in Bioinformatics
J Howard Parish, Richard M Twyman, Charlie Hodgman, Andrew French, David Westhead
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eBook - ePub
BIOS Instant Notes in Bioinformatics
J Howard Parish, Richard M Twyman, Charlie Hodgman, Andrew French, David Westhead
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About This Book
The second edition of Instant Notes in Bioinformatics introduced the readers to the themes and terminology of bioinformatics. It is divided into three parts: the first being an introduction to bioinformatics in biology; the second covering the physical, mathematical, statistical and computational basis of bioinformatics, using biological examples wherever possible; the third describing applications, giving specific detail and including data standards. The applications covered are sequence analysis and annotation, transcriptomics, proteomics, metabolite study, supramolecular organization, systems biology and the integration of-omic data, physiology, image analysis, and text analysis.
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Information
INDEX
0-D data 30
1-D data 30
2-D data 31
2D-NMR 31, 270
3D-data 32
454 sequencing 107, 113
80–20 rule 46
abstraction 41, 69, 71
ACeDB 109, 120, 121, 128, 132, 138
adaptive method 87
adjacency list 72, 75
adjacency matrix 74, 75
alpha release 42
analysis of variance (ANOVA) 61, 65
arcs 72
annealing 13, 15–17, 103, 105
annotation 132
arithmetic mean 62, 169
arithmetic logic unit 37–39
ArMeT 270
array 3, 4, 19, 22, 23, 29, 32, 35–40, 50, 67, 73, 75, 94, 103, 114, 181–191, 194–196, 199–201, 205, 279, 299, 302–305, 311
artificial intelligence 89, 90, 168, 253
ASCII 19, 21, 22
bad 327
base calling 113
Bayesian belief network 196
Bayesian inference 57, 91, 92, 197
Bayesian networks 93, 94
Bayesian reasoning 91, 93
Bayesian statistics 57, 91, 93, 194, 196, 204
Bayes’ rule 57–59, 92, 93
Benjamini-Hochberg correction 61, 67
beta release 42
bifurcational analysis 283, 286
binomial distribution 49, 51, 52
biochemical pathway 76, 109, 125, 276, 277
Bioconductor 187–190
biological replicate 200, 201
biological system 4, 5, 10, 13, 14, 69, 79, 262, 275, 289
bipartite graph 77
bit 20–22, 35, 39, 43, 102, 103, 264, 265, 300–302
bit depth 299, 300
Bonferroni correction 67
Boolean network 194, 197
Boundary-element analysis 86
byte 4, 20–23, 31, 32, 40, 41
bytecode 40
C++ 25, 37, 39, 40, 75
Canny operator 315
cellular automata 78
central limit theorem 54, 311
central processing unit 20, 37, 38
chain termination sequencing 111
CheBI 277
ChIP-chip 181, 183
chi-squared 65
cladograms 165
cliques 73, 74, 219, 278
cluster 10, 90, 103, 113, 123, 126, 161, 168–171, 178, 182, 188–190, 194–196, 201, 203–205, 209, 219, 220, 255, 260, 311, 319, 320, 325
clustering 90, 109, 161, 168–171, 178, 188–190, 194–196, 201, 203, 209, 319, 320, 325
color images 301, 302
compiler 40
compression 302, 303
Computable Plant project 293
computing power 45, 273, 291, 296, 297, 327
conditional probability 49...