RNA bioinformatics:
Gespeichert in:
| Weitere Verfasser: | |
|---|---|
| Format: | Buch |
| Sprache: | English |
| Veröffentlicht: |
New York, NY [u.a.]
Humana Press
2015
|
| Schriftenreihe: | Methods in molecular biology
1269 |
| Schlagworte: | |
| Online-Zugang: | Inhaltsverzeichnis |
| Beschreibung: | XII, 415 S. Ill., graph. Darst. |
| ISBN: | 9781493922901 |
Internformat
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| 245 | 1 | 0 | |a RNA bioinformatics |c Ed. by Ernesto Picardi |
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Datensatz im Suchindex
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| adam_text | Contents
Preface......................................................................... v
Contributors................................................................. ix
Part I RNA Secondary and Tertiary Structures
1 Free Energy Minimization to Predict RNA Secondary Structures
and Computational RNA Design................................................ 3
Alexander Churkin, Lina Weinbrand, and Danny Barash
2 RNA Secondary Structure Prediction from Multi-aligned Sequences........ 17
Michiaki Hamada
3 A Simple Protocol for the Inference of RNA Global Pairwise Alignments .... 39
Eugenio Mattei, Manuela Helmer-Citterich, and Fabrizio Ferre
4 De Novo Secondary Structure Motif Discovery Using RNAProfile........... 49
Federico Zambelli and Giulio Pavesi
5 Drawing and Editing the Secondary Structure(s) of RNA.................. 63
Yann Ponty and Fabrice Leclerc
6 Modeling and Predicting RNA Three-Dimensional Structures.................. 101
Jerome Waldispiihl and Vladimir Bjeinharz
7 Fast Prediction of RNA-RNA Interaction Using Heuristic Algorithm....... 123
Soheila Montaseri
Part II Analysis of High-Throughput RNA Sequencing Data
8 Quality Control of RNA-Seq Experiments.................................. 137
Xing Li, Asha Flair, Shengqin Wang, andLiguo Wang
9 Accurate Mapping of RNA-Seq Data........................................ 147
Kin Fai Au
10 Quantifying Entire Transcriptomes by Aligned RNA-Seq Data............... 163
Rajfaele A. Calogero and Francesca Zolezzi
11 Transcrip tome Assembly and Alternative Splicing Analysis............... 173
Paola Bonizzoni, Gianluca Della Vedova, Graziano Pesole,
Ernesto Picardi, Yuri Pirola, and Rajfaella Rizzi
12 Detection of Post-Transcriptional RNA Editing Events.................... 189
Ernesto Picardi, Anna Maria D’Erchia, Angela Gallo,
and Graziano Pesole
13 Prediction of miRNA Targets............................................. 207
Anastasis Oulas, Nestoras Karathanasis, Annita Louloupi,
Georgios A. Pavlopoulos, Panayiota Poirazi, Kriton Kalantidis,
and Ioannis Iliopoulos
VII
viü
Contents
14 Using Deep Sequencing Data for Identification of Editing Sites
in Mature miRNAs.......................................................... 231
Shahar Alon and Eli Eisenberg
15 NGS-Trex: An Automatic Analysis Workflow for RNA-Seq Data.............. 243
Ilenia Boria, Lara Boatti, Igor Saggese, and Flavio Mignone
16 e-DNA Meta-Barcoding: From NGS Raw Data to Taxonomic Profiling......... 257
Fosso Bruno, Marzano Marinella, and Monica Santamaria
17 Deciphering Metatranscriptomic Data....................................... 279
Evguenia Kopylova, Laurent Noé, Corinne Da Silva, Jean-Frédéric Berthelot,
Adriana Alberti, Jean-Marc Aury,and Hélène Touzet
18 RIP-Seq Data Analysis to Determine KNA-Protein Associations............ 293
Federico Zambelli and Giulio Pavesi
Part III Web Resources for RNA Data Analysis
19 The ViennaRNA Web Services................................................ 307
Andreas R. Gruber, Stephan H. Bernhart, and Ronny Lorenz
20 Exploring the RNA Editing Potential of RNA-Seq Data by Exp Edit........... 327
Mattia D’Antonio, Ernesto Picardi, Tiziana Castrignano,
Anna Maria D’Erchia, and Gmziano Pesole
21 A Guideline for the Annotation of UTR Regulatory Elements
in the UTRsite Collection................................................. 339
Matteo Giulietti, Giorgio Grillo, Sabino Liuni, and Gmziano Pesole
22 Rfam: Annotating Families of Non-Coding RNA Sequences..................... 349
Jennifer Daub, Ruth T. Eberhardt, John G. Tate, and Sarah W. Burge
23 ASPicDB: A Database Web Tool for Alternative Splicing Analysis............ 365
Mattia DAntonio, Tiziana Castrgnano, Matteo Pallocca,
Anna Maria D’Erchia, Ernesto Picardi, and Gmziano Pesole
24 Analysis of Alternative Splicing Events in Custom Gene Datasets
by AStalavista......................................................... 379
Sylvain Foissac and Michael Sammeth
25 Computational Design of Artificial RNA Molecules for Gene Regulation... 393
Alessandro Lagank, Dario Veneziano, Francesco Russo,
Alfredo Pulvirenti, Rosalba Giugno, Carlo Maria Croce,
and Alfredo Ferro
Index...................................................................... 413
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| illustrated | Illustrated |
| indexdate | 2024-07-10T01:19:47Z |
| institution | BVB |
| isbn | 9781493922901 |
| language | English |
| lccn | 2014958476 |
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| physical | XII, 415 S. Ill., graph. Darst. |
| publishDate | 2015 |
| publishDateSearch | 2015 |
| publishDateSort | 2015 |
| publisher | Humana Press |
| record_format | marc |
| series | Methods in molecular biology |
| series2 | Methods in molecular biology Springer protocols |
| spelling | RNA bioinformatics Ed. by Ernesto Picardi New York, NY [u.a.] Humana Press 2015 XII, 415 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Methods in molecular biology 1269 Springer protocols Bioinformatik (DE-588)4611085-9 gnd rswk-swf Strukturanalyse (DE-588)4183787-3 gnd rswk-swf RNS (DE-588)4076759-0 gnd rswk-swf RNS (DE-588)4076759-0 s Strukturanalyse (DE-588)4183787-3 s Bioinformatik (DE-588)4611085-9 s DE-604 Picardi, Ernesto edt Methods in molecular biology 1269 (DE-604)BV035362695 1269 Digitalisierung UB Regensburg - ADAM Catalogue Enrichment application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=027808412&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | RNA bioinformatics Methods in molecular biology Bioinformatik (DE-588)4611085-9 gnd Strukturanalyse (DE-588)4183787-3 gnd RNS (DE-588)4076759-0 gnd |
| subject_GND | (DE-588)4611085-9 (DE-588)4183787-3 (DE-588)4076759-0 |
| title | RNA bioinformatics |
| title_auth | RNA bioinformatics |
| title_exact_search | RNA bioinformatics |
| title_full | RNA bioinformatics Ed. by Ernesto Picardi |
| title_fullStr | RNA bioinformatics Ed. by Ernesto Picardi |
| title_full_unstemmed | RNA bioinformatics Ed. by Ernesto Picardi |
| title_short | RNA bioinformatics |
| title_sort | rna bioinformatics |
| topic | Bioinformatik (DE-588)4611085-9 gnd Strukturanalyse (DE-588)4183787-3 gnd RNS (DE-588)4076759-0 gnd |
| topic_facet | Bioinformatik Strukturanalyse RNS |
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