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Results: 1 to 20 of 78

1.

A sentinel protein assay for simultaneously quantifying cellular processes.

Soste M, Hrabakova R, Wanka S, Melnik A, Boersema P, Maiolica A, Wernas T, Tognetti M, von Mering C, Picotti P.

Nat Methods. 2014 Sep 7. doi: 10.1038/nmeth.3101. [Epub ahead of print]

PMID:
25194849
[PubMed - as supplied by publisher]
2.

Limits to Robustness and Reproducibility in the Demarcation of Operational Taxonomic Units.

Schmidt TS, Matias Rodrigues JF, von Mering C.

Environ Microbiol. 2014 Aug 26. doi: 10.1111/1462-2920.12610. [Epub ahead of print]

PMID:
25156547
[PubMed - as supplied by publisher]
3.

Genome-wide small interfering RNA screens reveal VAMP3 as a novel host factor required for Uukuniemi virus late penetration.

Meier R, Franceschini A, Horvath P, Tetard M, Mancini R, von Mering C, Helenius A, Lozach PY.

J Virol. 2014 Aug;88(15):8565-78. doi: 10.1128/JVI.00388-14. Epub 2014 May 21.

PMID:
24850728
[PubMed - in process]
4.

Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support.

Stockinger H, Altenhoff AM, Arnold K, Bairoch A, Bastian F, Bergmann S, Bougueleret L, Bucher P, Delorenzi M, Lane L, Le Mercier P, Lisacek F, Michielin O, Palagi PM, Rougemont J, Schwede T, von Mering C, van Nimwegen E, Walther D, Xenarios I, Zavolan M, Zdobnov EM, Zoete V, Appel RD.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W436-41. doi: 10.1093/nar/gku380. Epub 2014 May 3.

PMID:
24792157
[PubMed - indexed for MEDLINE]
Free Article
5.

Ecological consistency of SSU rRNA-based operational taxonomic units at a global scale.

Schmidt TS, Matias Rodrigues JF, von Mering C.

PLoS Comput Biol. 2014 Apr 24;10(4):e1003594. doi: 10.1371/journal.pcbi.1003594. eCollection 2014 Apr.

PMID:
24763141
[PubMed - in process]
Free PMC Article
6.

Specific inhibition of diverse pathogens in human cells by synthetic microRNA-like oligonucleotides inferred from RNAi screens.

Franceschini A, Meier R, Casanova A, Kreibich S, Daga N, Andritschke D, Dilling S, Rämö P, Emmenlauer M, Kaufmann A, Conde-Álvarez R, Low SH, Pelkmans L, Helenius A, Hardt WD, Dehio C, von Mering C.

Proc Natl Acad Sci U S A. 2014 Mar 25;111(12):4548-53. doi: 10.1073/pnas.1402353111. Epub 2014 Mar 10.

PMID:
24616511
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Pathogens and host immunity in the ancient human oral cavity.

Warinner C, Rodrigues JF, Vyas R, Trachsel C, Shved N, Grossmann J, Radini A, Hancock Y, Tito RY, Fiddyment S, Speller C, Hendy J, Charlton S, Luder HU, Salazar-García DC, Eppler E, Seiler R, Hansen LH, Castruita JA, Barkow-Oesterreicher S, Teoh KY, Kelstrup CD, Olsen JV, Nanni P, Kawai T, Willerslev E, von Mering C, Lewis CM Jr, Collins MJ, Gilbert MT, Rühli F, Cappellini E.

Nat Genet. 2014 Apr;46(4):336-44. doi: 10.1038/ng.2906. Epub 2014 Feb 23.

PMID:
24562188
[PubMed - indexed for MEDLINE]
8.

Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens.

Cai H, Kumar N, Bagheri HC, von Mering C, Robinson MD, Baudis M.

BMC Genomics. 2014 Jan 29;15:82. doi: 10.1186/1471-2164-15-82.

PMID:
24476156
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Microbiota-derived hydrogen fuels Salmonella typhimurium invasion of the gut ecosystem.

Maier L, Vyas R, Cordova CD, Lindsay H, Schmidt TS, Brugiroux S, Periaswamy B, Bauer R, Sturm A, Schreiber F, von Mering C, Robinson MD, Stecher B, Hardt WD.

Cell Host Microbe. 2013 Dec 11;14(6):641-51. doi: 10.1016/j.chom.2013.11.002.

PMID:
24331462
[PubMed - indexed for MEDLINE]
10.

eggNOG v4.0: nested orthology inference across 3686 organisms.

Powell S, Forslund K, Szklarczyk D, Trachana K, Roth A, Huerta-Cepas J, Gabaldón T, Rattei T, Creevey C, Kuhn M, Jensen LJ, von Mering C, Bork P.

Nucleic Acids Res. 2014 Jan;42(Database issue):D231-9. doi: 10.1093/nar/gkt1253. Epub 2013 Dec 1.

PMID:
24297252
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

STITCH 4: integration of protein-chemical interactions with user data.

Kuhn M, Szklarczyk D, Pletscher-Frankild S, Blicher TH, von Mering C, Jensen LJ, Bork P.

Nucleic Acids Res. 2014 Jan;42(Database issue):D401-7. doi: 10.1093/nar/gkt1207. Epub 2013 Nov 28.

PMID:
24293645
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

HPC-CLUST: distributed hierarchical clustering for large sets of nucleotide sequences.

Matias Rodrigues JF, von Mering C.

Bioinformatics. 2014 Jan 15;30(2):287-8. doi: 10.1093/bioinformatics/btt657. Epub 2013 Nov 9.

PMID:
24215029
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

STRING v9.1: protein-protein interaction networks, with increased coverage and integration.

Franceschini A, Szklarczyk D, Frankild S, Kuhn M, Simonovic M, Roth A, Lin J, Minguez P, Bork P, von Mering C, Jensen LJ.

Nucleic Acids Res. 2013 Jan;41(Database issue):D808-15. doi: 10.1093/nar/gks1094. Epub 2012 Nov 29.

PMID:
23203871
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Specific genomic regions are differentially affected by copy number alterations across distinct cancer types, in aggregated cytogenetic data.

Kumar N, Cai H, von Mering C, Baudis M.

PLoS One. 2012;7(8):e43689. doi: 10.1371/journal.pone.0043689. Epub 2012 Aug 24.

PMID:
22937079
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

High confidence prediction of essential genes in Burkholderia cenocepacia.

Juhas M, Stark M, von Mering C, Lumjiaktase P, Crook DW, Valvano MA, Eberl L.

PLoS One. 2012;7(6):e40064. doi: 10.1371/journal.pone.0040064. Epub 2012 Jun 29.

PMID:
22768221
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

PaxDb, a database of protein abundance averages across all three domains of life.

Wang M, Weiss M, Simonovic M, Haertinger G, Schrimpf SP, Hengartner MO, von Mering C.

Mol Cell Proteomics. 2012 Aug;11(8):492-500. doi: 10.1074/mcp.O111.014704. Epub 2012 Apr 24.

PMID:
22535208
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Bacterial anoxygenic photosynthesis on plant leaf surfaces.

Atamna-Ismaeel N, Finkel O, Glaser F, von Mering C, Vorholt JA, Koblížek M, Belkin S, Béjà O.

Environ Microbiol Rep. 2012 Apr;4(2):209-16. doi: 10.1111/j.1758-2229.2011.00323.x. Epub 2012 Jan 16.

PMID:
23757275
[PubMed]
18.

The initiative on Model Organism Proteomes (iMOP) Session September 6, 2011, Geneva, Switzerland.

Schrimpf SP, von Mering C, Bendixen E, Heazlewood JL, Bumann D, Omenn G, Hengartner MO.

Proteomics. 2012 Feb;12(3):346-50. doi: 10.1002/pmic.201290015.

PMID:
22290801
[PubMed - indexed for MEDLINE]
19.

Metaproteogenomic analysis of microbial communities in the phyllosphere and rhizosphere of rice.

Knief C, Delmotte N, Chaffron S, Stark M, Innerebner G, Wassmann R, von Mering C, Vorholt JA.

ISME J. 2012 Jul;6(7):1378-90. doi: 10.1038/ismej.2011.192. Epub 2011 Dec 22.

PMID:
22189496
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges.

Powell S, Szklarczyk D, Trachana K, Roth A, Kuhn M, Muller J, Arnold R, Rattei T, Letunic I, Doerks T, Jensen LJ, von Mering C, Bork P.

Nucleic Acids Res. 2012 Jan;40(Database issue):D284-9. doi: 10.1093/nar/gkr1060. Epub 2011 Nov 16.

PMID:
22096231
[PubMed - indexed for MEDLINE]
Free PMC Article

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