Pattern discovery in biomolecular data: tools, techniques, and applications
Gespeichert in:
| Format: | Buch |
|---|---|
| Sprache: | English |
| Veröffentlicht: |
New York [u.a.]
Oxford Univ. Press
1999
|
| Schlagworte: | |
| Online-Zugang: | Inhaltsverzeichnis |
| Beschreibung: | XIX, 251 S. Ill., graph. Darst. |
| ISBN: | 0195119401 |
Internformat
MARC
| LEADER | 00000nam a2200000 c 4500 | ||
|---|---|---|---|
| 001 | BV012974460 | ||
| 003 | DE-604 | ||
| 005 | 20020916 | ||
| 007 | t | ||
| 008 | 000207s1999 ad|| |||| 00||| eng d | ||
| 020 | |a 0195119401 |9 0-19-511940-1 | ||
| 035 | |a (OCoLC)39051708 | ||
| 035 | |a (DE-599)BVBBV012974460 | ||
| 040 | |a DE-604 |b ger |e rakwb | ||
| 041 | 0 | |a eng | |
| 049 | |a DE-19 |a DE-29T |a DE-526 |a DE-11 |a DE-188 | ||
| 050 | 0 | |a QP620 | |
| 082 | 0 | |a 572.8/5/0285 |2 21 | |
| 084 | |a WC 4150 |0 (DE-625)148092: |2 rvk | ||
| 084 | |a WC 7700 |0 (DE-625)148144: |2 rvk | ||
| 245 | 1 | 0 | |a Pattern discovery in biomolecular data |b tools, techniques, and applications |c ed. by Jason T. L. Wang ... |
| 264 | 1 | |a New York [u.a.] |b Oxford Univ. Press |c 1999 | |
| 300 | |a XIX, 251 S. |b Ill., graph. Darst. | ||
| 336 | |b txt |2 rdacontent | ||
| 337 | |b n |2 rdamedia | ||
| 338 | |b nc |2 rdacarrier | ||
| 650 | 7 | |a Algoritmos e estruturas de dados |2 larpcal | |
| 650 | 7 | |a Bioinformática |2 larpcal | |
| 650 | 4 | |a Datenverarbeitung | |
| 650 | 4 | |a Amino Acid Sequence | |
| 650 | 4 | |a Aminoacid sequence |x Data processing | |
| 650 | 4 | |a Automation |x methods | |
| 650 | 4 | |a Base Sequence | |
| 650 | 4 | |a Information Storage and Retrieval | |
| 650 | 4 | |a Information storage and retrieval systems |x Nucleotide sequence | |
| 650 | 4 | |a Nucleotide sequence |x Data processing | |
| 650 | 4 | |a Pattern Recognition, Automated | |
| 650 | 4 | |a Pattern recognition systems | |
| 700 | 1 | |a Wang, Jason T. L. |e Sonstige |0 (DE-588)129518077 |4 oth | |
| 856 | 4 | 2 | |m HBZ Datenaustausch |q application/pdf |u http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008839105&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |3 Inhaltsverzeichnis |
| 999 | |a oai:aleph.bib-bvb.de:BVB01-008839105 | ||
Datensatz im Suchindex
| _version_ | 1804127670927097856 |
|---|---|
| adam_text | Contents
Contributors xi
Introduction xv
Part I. Finding Patterns in Sequences
1 Discovering Patterns in DNA Sequences by the
Algorithmic Significance Method
Aleksandar Milosavljevid 3
1.1 Encoding Schemes 5
1.2 Algorithms for Minimal Length Encoding 9
1.3 Algorithmic Significance 10
1.4 Applications 14
1.5 Future Work and Generalizations 21
2 Assembling Blocks
Jorja G. Henikoff 24
2.1 Algorithmic Techniques 25
2.2 Future Work and Generalizations 28
3 MEME, MAST, and Meta MEME: New Tools for
Motif Discovery in Protein Sequences
Timothy L. Bailey, Michael E. Baker, Charles P. Elkan,
and William N. Grundy 30
3.1 Software for Finding Sequence Motifs 30
3.2 Methods 34
3.3 Results 46
3.4 Discussion 53
4 Pattern Discovery and Classification in Biosequences
Jason T. L. Wang, Thomas G. Marr, Steve Rozen,
Dennis Shasha, Bruce A. Shapiro, Gung Wei Chirn,
Zhiyuan Wang, and Kaizhong Zhang 55
4.1 Pattern Discovery in Protein Sequences 55
4.2 Classification of DNA Sequences 65
4.3 Generalizations and Future Work 73
viii Contents
Part II. Finding Patterns in 3D Structures
5 Motif Discovery in Protein Structure Databases
Janice Glasgow, Evan Steeg, and Suzanne Fortier 77
5.1 Protein Motifs 78
5.2 Computational Approaches to Knowledge Discovery 82
5.3 Assessing Protein Motifs and Discovery Methods 89
5.4 Issues in Protein Motif Discovery 90
5.5 Conclusion 95
6 Systematic Detection of Protein Structural Motifs
Kentaro Tomii and Minoru Kanehisa 97
6.1 Structural Building Blocks 99
6.2 Symbol String Representation of 3D Structures 102
6.3 Detection of Structural Motifs by Structure Comparisons 105
6.4 Detection of Structural Motifs by Sequence Comparisons 107
6.5 Discussion and Future Directions 108
7 Representation and Matching of Small Flexible
Molecules in Large Databases of 3D
Molecular Information
Isidore Rigoutsos, Daniel Platt, Andrea Califano,
and David Silverman 111
7.1 The Representation Scheme 117
7.2 Storage/Retrieval and Threading 121
7.3 The Algorithm 124
7.4 Experimental Results 127
7.5 Discussion 129
Part III. System Components for Discovery
8 A Framework for Biological Pattern Discovery on
Networks of Workstations
Bin Li, Dennis Shasha, and Jason T. L. Wang 133
8.1 Biological Pattern Discovery 133
8.2 Biological Pattern Discovery Framework 137
8.3 Parallel Computing on Networks of Workstations 142
8.4 Parallel E dag Traversal in PLinda 142
Contents ix
9 Discovering Concepts in Structural Data
Diane J. Cook, Lawrence B. Holder, and Gehad Galal 145
9.1 Algorithmic Techniques 146
9.2 Future Work and Generalizations 158
10 Overview: A System for Tracking and Managing the
Results from Sequence Comparison Programs
David P. Yee, Judith Bayard Cushing, Tim Hunkapiller,
Elizabeth Kutter, Justin Laird, and Frank Zucker 160
10.1 Related Work 162
10.2 Molecular Biology Applications and Databases 163
10.3 Algorithmic Techniques 166
10.4 The Overview Information Model 170
10.5 Biological Experiments and Applications: User Scenarios 176
10.6 Future Work and Generalizations 179
11 RNA Structure Analysis: A Multifaceted Approach
Bruce A. Shapiro, Wojciech Kasprzak, Jin Chu Wu,
and Kathleen Currey 183
11.1 A Brief Introduction to RNA 184
11.2 RNA Folding Problem 187
11.3 The Genetic Algorithm: An Overview 189
11.4 The Structurelab Workbench 192
11.5 Structurelab in Use 209
11.6 Future Directions and Challenges 213
Glossary 216
References 226
Index 248
|
| any_adam_object | 1 |
| author_GND | (DE-588)129518077 |
| building | Verbundindex |
| bvnumber | BV012974460 |
| callnumber-first | Q - Science |
| callnumber-label | QP620 |
| callnumber-raw | QP620 |
| callnumber-search | QP620 |
| callnumber-sort | QP 3620 |
| callnumber-subject | QP - Physiology |
| classification_rvk | WC 4150 WC 7700 |
| ctrlnum | (OCoLC)39051708 (DE-599)BVBBV012974460 |
| dewey-full | 572.8/5/0285 |
| dewey-hundreds | 500 - Natural sciences and mathematics |
| dewey-ones | 572 - Biochemistry |
| dewey-raw | 572.8/5/0285 |
| dewey-search | 572.8/5/0285 |
| dewey-sort | 3572.8 15 3285 |
| dewey-tens | 570 - Biology |
| discipline | Biologie |
| format | Book |
| fullrecord | <?xml version="1.0" encoding="UTF-8"?><collection xmlns="http://www.loc.gov/MARC21/slim"><record><leader>01778nam a2200457 c 4500</leader><controlfield tag="001">BV012974460</controlfield><controlfield tag="003">DE-604</controlfield><controlfield tag="005">20020916 </controlfield><controlfield tag="007">t</controlfield><controlfield tag="008">000207s1999 ad|| |||| 00||| eng d</controlfield><datafield tag="020" ind1=" " ind2=" "><subfield code="a">0195119401</subfield><subfield code="9">0-19-511940-1</subfield></datafield><datafield tag="035" ind1=" " ind2=" "><subfield code="a">(OCoLC)39051708</subfield></datafield><datafield tag="035" ind1=" " ind2=" "><subfield code="a">(DE-599)BVBBV012974460</subfield></datafield><datafield tag="040" ind1=" " ind2=" "><subfield code="a">DE-604</subfield><subfield code="b">ger</subfield><subfield code="e">rakwb</subfield></datafield><datafield tag="041" ind1="0" ind2=" "><subfield code="a">eng</subfield></datafield><datafield tag="049" ind1=" " ind2=" "><subfield code="a">DE-19</subfield><subfield code="a">DE-29T</subfield><subfield code="a">DE-526</subfield><subfield code="a">DE-11</subfield><subfield code="a">DE-188</subfield></datafield><datafield tag="050" ind1=" " ind2="0"><subfield code="a">QP620</subfield></datafield><datafield tag="082" ind1="0" ind2=" "><subfield code="a">572.8/5/0285</subfield><subfield code="2">21</subfield></datafield><datafield tag="084" ind1=" " ind2=" "><subfield code="a">WC 4150</subfield><subfield code="0">(DE-625)148092:</subfield><subfield code="2">rvk</subfield></datafield><datafield tag="084" ind1=" " ind2=" "><subfield code="a">WC 7700</subfield><subfield code="0">(DE-625)148144:</subfield><subfield code="2">rvk</subfield></datafield><datafield tag="245" ind1="1" ind2="0"><subfield code="a">Pattern discovery in biomolecular data</subfield><subfield code="b">tools, techniques, and applications</subfield><subfield code="c">ed. by Jason T. L. Wang ...</subfield></datafield><datafield tag="264" ind1=" " ind2="1"><subfield code="a">New York [u.a.]</subfield><subfield code="b">Oxford Univ. Press</subfield><subfield code="c">1999</subfield></datafield><datafield tag="300" ind1=" " ind2=" "><subfield code="a">XIX, 251 S.</subfield><subfield code="b">Ill., graph. Darst.</subfield></datafield><datafield tag="336" ind1=" " ind2=" "><subfield code="b">txt</subfield><subfield code="2">rdacontent</subfield></datafield><datafield tag="337" ind1=" " ind2=" "><subfield code="b">n</subfield><subfield code="2">rdamedia</subfield></datafield><datafield tag="338" ind1=" " ind2=" "><subfield code="b">nc</subfield><subfield code="2">rdacarrier</subfield></datafield><datafield tag="650" ind1=" " ind2="7"><subfield code="a">Algoritmos e estruturas de dados</subfield><subfield code="2">larpcal</subfield></datafield><datafield tag="650" ind1=" " ind2="7"><subfield code="a">Bioinformática</subfield><subfield code="2">larpcal</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Datenverarbeitung</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Amino Acid Sequence</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Aminoacid sequence</subfield><subfield code="x">Data processing</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Automation</subfield><subfield code="x">methods</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Base Sequence</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Information Storage and Retrieval</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Information storage and retrieval systems</subfield><subfield code="x">Nucleotide sequence</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Nucleotide sequence</subfield><subfield code="x">Data processing</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Pattern Recognition, Automated</subfield></datafield><datafield tag="650" ind1=" " ind2="4"><subfield code="a">Pattern recognition systems</subfield></datafield><datafield tag="700" ind1="1" ind2=" "><subfield code="a">Wang, Jason T. L.</subfield><subfield code="e">Sonstige</subfield><subfield code="0">(DE-588)129518077</subfield><subfield code="4">oth</subfield></datafield><datafield tag="856" ind1="4" ind2="2"><subfield code="m">HBZ Datenaustausch</subfield><subfield code="q">application/pdf</subfield><subfield code="u">http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008839105&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA</subfield><subfield code="3">Inhaltsverzeichnis</subfield></datafield><datafield tag="999" ind1=" " ind2=" "><subfield code="a">oai:aleph.bib-bvb.de:BVB01-008839105</subfield></datafield></record></collection> |
| id | DE-604.BV012974460 |
| illustrated | Illustrated |
| indexdate | 2024-07-09T18:37:03Z |
| institution | BVB |
| isbn | 0195119401 |
| language | English |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-008839105 |
| oclc_num | 39051708 |
| open_access_boolean | |
| owner | DE-19 DE-BY-UBM DE-29T DE-526 DE-11 DE-188 |
| owner_facet | DE-19 DE-BY-UBM DE-29T DE-526 DE-11 DE-188 |
| physical | XIX, 251 S. Ill., graph. Darst. |
| publishDate | 1999 |
| publishDateSearch | 1999 |
| publishDateSort | 1999 |
| publisher | Oxford Univ. Press |
| record_format | marc |
| spelling | Pattern discovery in biomolecular data tools, techniques, and applications ed. by Jason T. L. Wang ... New York [u.a.] Oxford Univ. Press 1999 XIX, 251 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Algoritmos e estruturas de dados larpcal Bioinformática larpcal Datenverarbeitung Amino Acid Sequence Aminoacid sequence Data processing Automation methods Base Sequence Information Storage and Retrieval Information storage and retrieval systems Nucleotide sequence Nucleotide sequence Data processing Pattern Recognition, Automated Pattern recognition systems Wang, Jason T. L. Sonstige (DE-588)129518077 oth HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008839105&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Pattern discovery in biomolecular data tools, techniques, and applications Algoritmos e estruturas de dados larpcal Bioinformática larpcal Datenverarbeitung Amino Acid Sequence Aminoacid sequence Data processing Automation methods Base Sequence Information Storage and Retrieval Information storage and retrieval systems Nucleotide sequence Nucleotide sequence Data processing Pattern Recognition, Automated Pattern recognition systems |
| title | Pattern discovery in biomolecular data tools, techniques, and applications |
| title_auth | Pattern discovery in biomolecular data tools, techniques, and applications |
| title_exact_search | Pattern discovery in biomolecular data tools, techniques, and applications |
| title_full | Pattern discovery in biomolecular data tools, techniques, and applications ed. by Jason T. L. Wang ... |
| title_fullStr | Pattern discovery in biomolecular data tools, techniques, and applications ed. by Jason T. L. Wang ... |
| title_full_unstemmed | Pattern discovery in biomolecular data tools, techniques, and applications ed. by Jason T. L. Wang ... |
| title_short | Pattern discovery in biomolecular data |
| title_sort | pattern discovery in biomolecular data tools techniques and applications |
| title_sub | tools, techniques, and applications |
| topic | Algoritmos e estruturas de dados larpcal Bioinformática larpcal Datenverarbeitung Amino Acid Sequence Aminoacid sequence Data processing Automation methods Base Sequence Information Storage and Retrieval Information storage and retrieval systems Nucleotide sequence Nucleotide sequence Data processing Pattern Recognition, Automated Pattern recognition systems |
| topic_facet | Algoritmos e estruturas de dados Bioinformática Datenverarbeitung Amino Acid Sequence Aminoacid sequence Data processing Automation methods Base Sequence Information Storage and Retrieval Information storage and retrieval systems Nucleotide sequence Nucleotide sequence Data processing Pattern Recognition, Automated Pattern recognition systems |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008839105&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| work_keys_str_mv | AT wangjasontl patterndiscoveryinbiomoleculardatatoolstechniquesandapplications |