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Items: 1 to 20 of 144

1.

IntaRNA 2.0: enhanced and customizable prediction of RNA-RNA interactions.

Mann M, Wright PR, Backofen R.

Nucleic Acids Res. 2017 May 4. doi: 10.1093/nar/gkx279. [Epub ahead of print]

PMID:
28472523
2.

DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome.

Aktaş T, Avşar Ilık İ, Maticzka D, Bhardwaj V, Pessoa Rodrigues C, Mittler G, Manke T, Backofen R, Akhtar A.

Nature. 2017 Apr 6;544(7648):115-119. doi: 10.1038/nature21715. Epub 2017 Mar 29.

PMID:
28355180
3.

RNAscClust: clustering RNA sequences using structure conservation and graph based motifs.

Miladi M, Junge A, Costa F, Seemann SE, Hull Havgaard J, Gorodkin J, Backofen R.

Bioinformatics. 2017 Feb 27. doi: 10.1093/bioinformatics/btx114. [Epub ahead of print]

PMID:
28334186
4.

sRNA154 a newly identified regulator of nitrogen fixation in Methanosarcina mazei strain Gö1.

Prasse D, Förstner KU, Jäger D, Backofen R, Schmitz RA.

RNA Biol. 2017 Mar 15:1-15. doi: 10.1080/15476286.2017.1306170. [Epub ahead of print]

PMID:
28296572
5.

Computational analysis of CLIP-seq data.

Uhl M, Houwaart T, Corrado G, Wright PR, Backofen R.

Methods. 2017 Apr 15;118-119:60-72. doi: 10.1016/j.ymeth.2017.02.006. Epub 2017 Feb 22. Review.

PMID:
28254606
6.

Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq - ryhB encodes the regulatory RNA RyhB and a peptide, RyhP.

Neuhaus K, Landstorfer R, Simon S, Schober S, Wright PR, Smith C, Backofen R, Wecko R, Keim DA, Scherer S.

BMC Genomics. 2017 Feb 28;18(1):216. doi: 10.1186/s12864-017-3586-9.

7.

Mechanism of β-actin mRNA Recognition by ZBP1.

Nicastro G, Candel AM, Uhl M, Oregioni A, Hollingworth D, Backofen R, Martin SR, Ramos A.

Cell Rep. 2017 Jan 31;18(5):1187-1199. doi: 10.1016/j.celrep.2016.12.091.

8.

GRIN3B missense mutation as an inherited risk factor for schizophrenia: whole-exome sequencing in a family with a familiar history of psychotic disorders.

Hornig T, Grüning B, Kundu K, Houwaart T, Backofen R, Biber K, Normann C.

Genet Res (Camb). 2017 Jan 30;99:e1. doi: 10.1017/S0016672316000148.

PMID:
28132660
9.

SnoReport 2.0: new features and a refined Support Vector Machine to improve snoRNA identification.

de Araujo Oliveira JV, Costa F, Backofen R, Stadler PF, Machado Telles Walter ME, Hertel J.

BMC Bioinformatics. 2016 Dec 15;17(Suppl 18):464. doi: 10.1186/s12859-016-1345-6.

10.

An Efficient Semi-supervised Learning Approach to Predict SH2 Domain Mediated Interactions.

Kundu K, Backofen R.

Methods Mol Biol. 2017;1555:83-97. doi: 10.1007/978-1-4939-6762-9_6.

PMID:
28092029
11.

Corrigendum: Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells.

Hölzer M, Krähling V, Amman F, Barth E, Bernhart SH, Carmelo VA, Collatz M, Doose G, Eggenhofer F, Ewald J, Fallmann J, Feldhahn LM, Fricke M, Gebauer J, Gruber AJ, Hufsky F, Indrischek H, Kanton S, Linde J, Mostajo N, Ochsenreiter R, Riege K, Rivarola-Duarte L, Sahyoun AH, Saunders SJ, Seemann SE, Tanzer A, Vogel B, Wehner S, Wolfinger MT, Backofen R, Gorodkin J, Grosse I, Hofacker I, Hoffmann S, Kaleta C, Stadler PF, Becker S, Marz M.

Sci Rep. 2017 Jan 11;7:39421. doi: 10.1038/srep39421. No abstract available.

12.

5'-Hydroxymethylcytosine Precedes Loss of CpG Methylation in Enhancers and Genes Undergoing Activation in Cardiomyocyte Maturation.

Kranzhöfer DK, Gilsbach R, Grüning BA, Backofen R, Nührenberg TG, Hein L.

PLoS One. 2016 Nov 16;11(11):e0166575. doi: 10.1371/journal.pone.0166575. eCollection 2016.

13.

Plasticity of archaeal C/D box sRNA biogenesis.

Tripp V, Martin R, Orell A, Alkhnbashi OS, Backofen R, Randau L.

Mol Microbiol. 2017 Jan;103(1):151-164. doi: 10.1111/mmi.13549. Epub 2016 Oct 29.

PMID:
27743417
14.

Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells.

Hölzer M, Krähling V, Amman F, Barth E, Bernhart SH, Carmelo VA, Collatz M, Doose G, Eggenhofer F, Ewald J, Fallmann J, Feldhahn LM, Fricke M, Gebauer J, Gruber AJ, Hufsky F, Indrischek H, Kanton S, Linde J, Mostajo N, Ochsenreiter R, Riege K, Rivarola-Duarte L, Sahyoun AH, Saunders SJ, Seemann SE, Tanzer A, Vogel B, Wehner S, Wolfinger MT, Backofen R, Gorodkin J, Grosse I, Hofacker I, Hoffmann S, Kaleta C, Stadler PF, Becker S, Marz M.

Sci Rep. 2016 Oct 7;6:34589. doi: 10.1038/srep34589.

15.

The lncRNA landscape of breast cancer reveals a role for DSCAM-AS1 in breast cancer progression.

Niknafs YS, Han S, Ma T, Speers C, Zhang C, Wilder-Romans K, Iyer MK, Pitchiaya S, Malik R, Hosono Y, Prensner JR, Poliakov A, Singhal U, Xiao L, Kregel S, Siebenaler RF, Zhao SG, Uhl M, Gawronski A, Hayes DF, Pierce LJ, Cao X, Collins C, Backofen R, Sahinalp CS, Rae JM, Chinnaiyan AM, Feng FY.

Nat Commun. 2016 Sep 26;7:12791. doi: 10.1038/ncomms12791.

16.

GenToS: Use of Orthologous Gene Information to Prioritize Signals from Human GWAS.

Hoppmann AS, Schlosser P, Backofen R, Lausch E, Köttgen A.

PLoS One. 2016 Sep 9;11(9):e0162466. doi: 10.1371/journal.pone.0162466. eCollection 2016.

17.

Structural constraints and enzymatic promiscuity in the Cas6-dependent generation of crRNAs.

Reimann V, Alkhnbashi OS, Saunders SJ, Scholz I, Hein S, Backofen R, Hess WR.

Nucleic Acids Res. 2017 Jan 25;45(2):915-925. doi: 10.1093/nar/gkw786. Epub 2016 Sep 5.

PMID:
27599840
18.

Characterizing leader sequences of CRISPR loci.

Alkhnbashi OS, Shah SA, Garrett RA, Saunders SJ, Costa F, Backofen R.

Bioinformatics. 2016 Sep 1;32(17):i576-i585. doi: 10.1093/bioinformatics/btw454.

PMID:
27587677
19.

Photorhabdus-nematode symbiosis is dependent on hfq-mediated regulation of secondary metabolites.

Tobias NJ, Heinrich AK, Eresmann H, Wright PR, Neubacher N, Backofen R, Bode HB.

Environ Microbiol. 2017 Jan;19(1):119-129. doi: 10.1111/1462-2920.13502. Epub 2016 Sep 7.

PMID:
27555343
20.

AptaTRACE Elucidates RNA Sequence-Structure Motifs from Selection Trends in HT-SELEX Experiments.

Dao P, Hoinka J, Takahashi M, Zhou J, Ho M, Wang Y, Costa F, Rossi JJ, Backofen R, Burnett J, Przytycka TM.

Cell Syst. 2016 Jul;3(1):62-70. doi: 10.1016/j.cels.2016.07.003.

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