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Results: 1 to 20 of 62

1.

Riboregulation in plant-associated α-proteobacteria.

Becker A, Overlöper A, Schlüter JP, Reinkensmeier J, Robledo M, Giegerich R, Narberhaus F, Evguenieva-Hackenberg E, Narberhaus F.

RNA Biol. 2014 Jul 8;11(5). [Epub ahead of print] Review.

PMID:
25003187
[PubMed - as supplied by publisher]
2.

Genome-wide profiling of Hfq-binding RNAs uncovers extensive post-transcriptional rewiring of major stress response and symbiotic regulons in Sinorhizobium meliloti.

Torres-Quesada O, Reinkensmeier J, Schlüter JP, Robledo M, Peregrina A, Giegerich R, Toro N, Becker A, Jiménez-Zurdo JI.

RNA Biol. 2014 Feb 26;11(5). [Epub ahead of print]

PMID:
24786641
[PubMed - as supplied by publisher]
3.

Introduction to RNA secondary structure comparison.

Schirmer S, Ponty Y, Giegerich R.

Methods Mol Biol. 2014;1097:247-73. doi: 10.1007/978-1-62703-709-9_12.

PMID:
24639163
[PubMed - in process]
4.

Abstract shape analysis of RNA.

Janssen S, Giegerich R.

Methods Mol Biol. 2014;1097:215-45. doi: 10.1007/978-1-62703-709-9_11.

PMID:
24639162
[PubMed - in process]
5.

Introduction to stochastic context free grammars.

Giegerich R.

Methods Mol Biol. 2014;1097:85-106. doi: 10.1007/978-1-62703-709-9_5.

PMID:
24639156
[PubMed - in process]
6.

A silent exonic SNP in kdm3a affects nucleic acids structure but does not regulate experimental autoimmune encephalomyelitis.

Gillett A, Bergman P, Parsa R, Bremges A, Giegerich R, Jagodic M.

PLoS One. 2013 Dec 3;8(12):e81912. doi: 10.1371/journal.pone.0081912. eCollection 2013.

PMID:
24312603
[PubMed - in process]
Free PMC Article
7.

Global mapping of transcription start sites and promoter motifs in the symbiotic α-proteobacterium Sinorhizobium meliloti 1021.

Schlüter JP, Reinkensmeier J, Barnett MJ, Lang C, Krol E, Giegerich R, Long SR, Becker A.

BMC Genomics. 2013 Mar 7;14:156. doi: 10.1186/1471-2164-14-156.

PMID:
23497287
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Bellman's GAP--a language and compiler for dynamic programming in sequence analysis.

Sauthoff G, Möhl M, Janssen S, Giegerich R.

Bioinformatics. 2013 Mar 1;29(5):551-60. doi: 10.1093/bioinformatics/btt022. Epub 2013 Jan 25.

PMID:
23355290
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package.

El-Kalioby M, Abouelhoda M, Krüger J, Giegerich R, Sczyrba A, Wall DP, Tonellato P.

BMC Bioinformatics. 2012;13 Suppl 17:S22. doi: 10.1186/1471-2105-13-S17-S22. Epub 2012 Dec 13.

PMID:
23281941
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Lost in folding space? Comparing four variants of the thermodynamic model for RNA secondary structure prediction.

Janssen S, Schudoma C, Steger G, Giegerich R.

BMC Bioinformatics. 2011 Nov 3;12:429. doi: 10.1186/1471-2105-12-429.

PMID:
22051375
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Conveyor: a workflow engine for bioinformatic analyses.

Linke B, Giegerich R, Goesmann A.

Bioinformatics. 2011 Apr 1;27(7):903-11. doi: 10.1093/bioinformatics/btr040. Epub 2011 Jan 28.

PMID:
21278189
[PubMed - indexed for MEDLINE]
Free Article
12.

Semantics and ambiguity of stochastic RNA family models.

Giegerich R, Höner zu Siederdissen C.

IEEE/ACM Trans Comput Biol Bioinform. 2011 Mar-Apr;8(2):499-516. doi: 10.1109/TCBB.2010.12.

PMID:
21233528
[PubMed - indexed for MEDLINE]
13.

Conservation and Occurrence of Trans-Encoded sRNAs in the Rhizobiales.

Reinkensmeier J, Schlüter JP, Giegerich R, Becker A.

Genes (Basel). 2011 Nov 18;2(4):925-56. doi: 10.3390/genes2040925.

PMID:
24710299
[PubMed]
Free PMC Article
14.

WAMI: a web server for the analysis of minisatellite maps.

Abouelhoda M, El-Kalioby M, Giegerich R.

BMC Evol Biol. 2010 Jun 6;10:167. doi: 10.1186/1471-2148-10-167.

PMID:
20525398
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Fine-tuning structural RNA alignments in the twilight zone.

Bremges A, Schirmer S, Giegerich R.

BMC Bioinformatics. 2010 Apr 30;11:222. doi: 10.1186/1471-2105-11-222.

PMID:
20433706
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti.

Schlüter JP, Reinkensmeier J, Daschkey S, Evguenieva-Hackenberg E, Janssen S, Jänicke S, Becker JD, Giegerich R, Becker A.

BMC Genomics. 2010 Apr 17;11:245. doi: 10.1186/1471-2164-11-245.

PMID:
20398411
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Faster computation of exact RNA shape probabilities.

Janssen S, Giegerich R.

Bioinformatics. 2010 Mar 1;26(5):632-9. doi: 10.1093/bioinformatics/btq014. Epub 2010 Jan 14.

PMID:
20080511
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Significant speedup of database searches with HMMs by search space reduction with PSSM family models.

Beckstette M, Homann R, Giegerich R, Kurtz S.

Bioinformatics. 2009 Dec 15;25(24):3251-8. doi: 10.1093/bioinformatics/btp593. Epub 2009 Oct 14.

PMID:
19828575
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

RNA secondary structure analysis using the RNAshapes package.

Reeder J, Giegerich R.

Curr Protoc Bioinformatics. 2009 Jun;Chapter 12:Unit12.8. doi: 10.1002/0471250953.bi1208s26.

PMID:
19496058
[PubMed - indexed for MEDLINE]
20.

Alignment of minisatellite maps based on run-length encoding scheme.

Abouelhoda MI, Giegerich R, Behzadi B, Steyaert JM.

J Bioinform Comput Biol. 2009 Apr;7(2):287-308.

PMID:
19340916
[PubMed - indexed for MEDLINE]

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