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Salzberg S., Searls D., Kasif S. — Computational methods in molecular biology
Salzberg S., Searls D., Kasif S. — Computational methods in molecular biology



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Название: Computational methods in molecular biology

Авторы: Salzberg S., Searls D., Kasif S.

Аннотация:

Computational biology is a rapidly expanding field, and the number and variety of computational methods used for DNA and protein sequence analysis is growing every day. These algorithms are extremely valuable to biotechnology companies and to researchers and teachers in universities. This book explains the latest computer technology for analyzing DNA, RNA, and protein sequences. Clear and easy to follow, designed specifically for the non-computer scientist, it will help biologists make better choices on which algorithm to use. New techniques and demonstrations are elucidated, as are state-of-the-art problems, and more advanced material on the latest algorithms. The primary audience for this volume are molecular biologists working either in biotechnology companies or academic research environments, individual researchers and the institutions they work for, and students. Any biologist who relies on computers should want this book. A secondary audience will be computer scientists developing techniques with applications in biology. An excellent reference for leading techniques, it will also help introduce computer scientists to the biology problems. This is an outstanding work which will be ideal for the increasing number of scientists moving into computational biology.


Язык: en

Рубрика: Computer science/

Статус предметного указателя: Готов указатель с номерами страниц

ed2k: ed2k stats

Год издания: 1998

Количество страниц: 399

Добавлена в каталог: 20.08.2014

Операции: Положить на полку | Скопировать ссылку для форума | Скопировать ID
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Предметный указатель
Prior probability      24
Probabilistic models      133—135
Probabilistic networks      335—351
Probe      97
ProClass      97
Procrustes      357
ProDom      98
Profile hidden Markov models      49—55
PROF_PAT      98
Promoters      16 31 61 68 83
PROSITE      95 98
Protein domains      88 89 93 230 272
Protein protein docking      319—324
Protein structure prediction      4 5
Protein threading      16 17 221—224 227—280 285—310
Pruning decision trees      190
Pseudo-energies      235
Pseudocounts      50—54
Pyrimidine tract (in acceptor sites)      138 145 151
Quad-trees      256
Quinlan, J.R.      188 191
RAM      13
Rank-sum test      210
Rarey, M.      314
Receptor-ligand recognition      see "Docking"
Reese, M.      136 162
Regular expressions      46 47
REPBASE      99
Repeat Pattern Toolkit      357
RepeatMasker      35
Repetitive sequence elements      87 90
Reva, B.      292
Ribosome binding site      31
Richards, F.      291
Richardson, Jane      230
Rigid docking      315 317 323 332
RNA lariat      132
Rooman, M.      286
Rossmann fold      216 295
Rotamer library      224
RPT      99
Salzberg, S.      190
SAM      34 61
Sander, C.      290 302
Satisfiability      265
SBASE      99
Schema theorem      168 173
scop      87 101
Scoring schemes (for threading)      278 279
SCWRL      224
Search space      4 19 20 87 166 167 228 256 257 259—262 268 303
Searls, D.      56 76
Secondary structure      38 67 234
Secondary structure prediction      251 254 344
SEG      35 93
Senapathy, P.      196
SENSEI      92
Sequence alignment      see "Pairwise alignment"
Sequence analysis programs, ADE      357
Sequence analysis programs, BCM Gene Finder      355
Sequence analysis programs, GenelD      355
Sequence analysis programs, GeneMark      358
Sequence analysis programs, GeneParser      356
Sequence analysis programs, Genie      356
Sequence analysis programs, GenLang      356
Sequence analysis programs, GENSCAN      355
Sequence analysis programs, Glimmer      357
Sequence analysis programs, GRAIL      355
Sequence analysis programs, MarFinder      356
Sequence analysis programs, MORGAN      355
Sequence analysis programs, MZEF      356
Sequence analysis programs, NetPlantGene      356
Sequence analysis programs, PROCRUSTES      357
Sequence analysis programs, Repeat Pattern Toolkit      357
Sequence analysis programs, SorFind      357
Sequence analysis programs, SplicePredictor      357
Sequence analysis programs, TESS      358
Sequence analysis programs, THREADER      356
Sequence analysis programs, THREADER2      356
Sequence analysis programs, TIGR Assembler      358
Sequence analysis programs, VEIL      355
Sequence analysis programs, WebGene      358
Sequence annotation      89—91
Sequence signals      36
Sequence similarity      see "Pairwise homology"
Sequence-structure alignment      227—280
Serine protease active sites      214
Shape complementarity      314
Shortest path      347
Side-chain interactions      279
Simulated annealing      303 304
Sippl, M.      234 290 291 295—297 300
Sirajuddin, K.      162
Small nuclear RNAs (snRNAs)      130
Smith-Waterman algorithm      15 33
Sodium binding sites      214
Solovyev, V      162
Solvation effects      295
Solvation energy model      290
Solvation potential      301
Solvent accessibility      234 292
SorFind      194 357
Speech recognition      45
Splice junctions      113 114
Splice sites      26 36 57 88 113 115 129—163 195 197 201
Spliceosome      129 131 143
SplicePredictor      357
Splitting rules      189 190
SSP (sequence structure parser)      71—73
Staden, R.      30 134
Starkweather, T.      178
Statistical entropy      297
Steric clashes      224
Stultz, C.      248
Super-secondary structures      250 257
Swapping      13
SwissProt      33 70 96—98 101 102
Taylor, W.      305 308
Tentative human consensus (THC)      36
Tertiary structure      39
TESS (Transcription Element Search Software)      69 83 358
THREADER      310 356
THREADER2      356
TIGR (The Institute for Genomic Research)      36 357
TIGR Assembler      35 358
TIM (Triose phosphate isomerase)      294
TIM barrels      295 309
Torsion angles      285
Torsion space      285
Transcription elements      68 69 80
Transcription factors      68 80
TRANSFAC      70 80 83 359
TransTerm      359
Traveling salesman problem      15 175
TRRD      70
Tung, C.-S.      192
van der Waals effects      286 291 313 315 316
Variable loop regions      234 240 302
Variable-length gaps      235
VEIL      61 134 194 196 200 355
Virtual memory      13
Viterbi algorithm      23 54 59 343 346—349
WebGene      358
Weight array model (WAM)      134
Weight matrix models (WMMs)      134 136—147
White, J.V      248
Whitley, D.      183
Wilcoxon rank test      210
Windowed weight array model (WWAM)      145—147
Wu, T.      196
WU2BLAST      92
Wunsch, C.      295
X-ray crystallography      207
XNU      35 93
Yoo, N.      183
Zhang, M.      134
Zhang, X.      351
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