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Items: 33

1.

Nanopore sequencing improves the draft genome of the human pathogenic amoeba Naegleria fowleri.

Liechti N, Schürch N, Bruggmann R, Wittwer M.

Sci Rep. 2019 Nov 5;9(1):16040. doi: 10.1038/s41598-019-52572-0.

2.

Antimicrobial resistance classification using MALDI-TOF-MS is not that easy: lessons from vancomycin-resistant Enterococcus faecium.

Brackmann M, Leib SL, Tonolla M, Schürch N, Wittwer M.

Clin Microbiol Infect. 2019 Nov 1. pii: S1198-743X(19)30563-4. doi: 10.1016/j.cmi.2019.10.027. [Epub ahead of print] No abstract available.

3.

An unusual case of bovine anthrax in the canton of Jura, Switzerland in 2017.

Gobeli Brawand S, Kittl S, Dettwiler M, Thomann A, Feyer S, Cachim J, Theubet G, Liechti N, Wittwer M, Schürch N, Oberhänsli S, Heinimann A, Jores J.

BMC Vet Res. 2019 Jul 29;15(1):265. doi: 10.1186/s12917-019-1996-4.

4.

Relative Abundance of Transcripts ( RATs): Identifying differential isoform abundance from RNA-seq.

Froussios K, Mourão K, Simpson G, Barton G, Schurch N.

F1000Res. 2019 Feb 24;8:213. doi: 10.12688/f1000research.17916.1. eCollection 2019.

5.

How well do RNA-Seq differential gene expression tools perform in a complex eukaryote? A case study in Arabidopsis thaliana.

Froussios K, Schurch NJ, Mackinnon K, Gierliński M, Duc C, Simpson GG, Barton GJ.

Bioinformatics. 2019 Sep 15;35(18):3372-3377. doi: 10.1093/bioinformatics/btz089.

6.

The genome of Naegleria lovaniensis, the basis for a comparative approach to unravel pathogenicity factors of the human pathogenic amoeba N. fowleri.

Liechti N, Schürch N, Bruggmann R, Wittwer M.

BMC Genomics. 2018 Sep 5;19(1):654. doi: 10.1186/s12864-018-4994-1.

7.

Population Genomics of Francisella tularensis subsp. holarctica and its Implication on the Eco-Epidemiology of Tularemia in Switzerland.

Wittwer M, Altpeter E, Pilo P, Gygli SM, Beuret C, Foucault F, Ackermann-Gäumann R, Karrer U, Jacob D, Grunow R, Schürch N.

Front Cell Infect Microbiol. 2018 Mar 22;8:89. doi: 10.3389/fcimb.2018.00089. eCollection 2018.

8.

Structural Insights into the Mode of Action of the Peptide Antibiotic Copsin.

Franzoi M, van Heuvel Y, Thomann S, Schürch N, Kallio PT, Venier P, Essig A.

Biochemistry. 2017 Sep 19;56(37):4992-5001. doi: 10.1021/acs.biochem.7b00697. Epub 2017 Sep 6.

PMID:
28825809
9.

Erratum: How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

Schurch NJ, Schofield P, Gierliński M, Cole C, Sherstnev A, Singh V, Wrobel N, Gharbi K, Simpson GG, Owen-Hughes T, Blaxter M, Barton GJ.

RNA. 2016 Oct;22(10):1641. doi: 10.1261/rna.058339.116. No abstract available.

10.

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

Schurch NJ, Schofield P, Gierliński M, Cole C, Sherstnev A, Singh V, Wrobel N, Gharbi K, Simpson GG, Owen-Hughes T, Blaxter M, Barton GJ.

RNA. 2016 Jun;22(6):839-51. doi: 10.1261/rna.053959.115. Epub 2016 Mar 28. Erratum in: RNA. 2016 Oct;22(10 ):1641.

11.

Development of a bead-based Luminex assay using lipopolysaccharide specific monoclonal antibodies to detect biological threats from Brucella species.

Silbereisen A, Tamborrini M, Wittwer M, Schürch N, Pluschke G.

BMC Microbiol. 2015 Oct 5;15:198. doi: 10.1186/s12866-015-0534-1.

12.

Statistical models for RNA-seq data derived from a two-condition 48-replicate experiment.

Gierliński M, Cole C, Schofield P, Schurch NJ, Sherstnev A, Singh V, Wrobel N, Gharbi K, Simpson G, Owen-Hughes T, Blaxter M, Barton GJ.

Bioinformatics. 2015 Nov 15;31(22):3625-30. doi: 10.1093/bioinformatics/btv425. Epub 2015 Jul 23.

13.

Major transcriptome re-organisation and abrupt changes in signalling, cell cycle and chromatin regulation at neural differentiation in vivo.

Olivera-Martinez I, Schurch N, Li RA, Song J, Halley PA, Das RM, Burt DW, Barton GJ, Storey KG.

Development. 2014 Aug;141(16):3266-76. doi: 10.1242/dev.112623. Epub 2014 Jul 25.

14.

Genome-wide identification of pathogenicity factors of the free-living amoeba Naegleria fowleri.

Zysset-Burri DC, Müller N, Beuret C, Heller M, Schürch N, Gottstein B, Wittwer M.

BMC Genomics. 2014 Jun 19;15:496. doi: 10.1186/1471-2164-15-496.

15.

Filaggrin-stratified transcriptomic analysis of pediatric skin identifies mechanistic pathways in patients with atopic dermatitis.

Cole C, Kroboth K, Schurch NJ, Sandilands A, Sherstnev A, O'Regan GM, Watson RM, McLean WH, Barton GJ, Irvine AD, Brown SJ.

J Allergy Clin Immunol. 2014 Jul;134(1):82-91. doi: 10.1016/j.jaci.2014.04.021. Epub 2014 May 28.

16.

Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-Seq and ESTs.

Schurch NJ, Cole C, Sherstnev A, Song J, Duc C, Storey KG, McLean WH, Brown SJ, Simpson GG, Barton GJ.

PLoS One. 2014 Apr 10;9(4):e94270. doi: 10.1371/journal.pone.0094270. eCollection 2014.

17.

Mycobacterium ulcerans persistence at a village water source of Buruli ulcer patients.

Bratschi MW, Ruf MT, Andreoli A, Minyem JC, Kerber S, Wantong FG, Pritchard J, Chakwera V, Beuret C, Wittwer M, Noumen D, Schürch N, Um Book A, Pluschke G.

PLoS Negl Trop Dis. 2014 Mar 27;8(3):e2756. doi: 10.1371/journal.pntd.0002756. eCollection 2014 Mar.

18.

The impact of KLF2 modulation on the transcriptional program and function of CD8 T cells.

Preston GC, Feijoo-Carnero C, Schurch N, Cowling VH, Cantrell DA.

PLoS One. 2013 Oct 14;8(10):e77537. doi: 10.1371/journal.pone.0077537. eCollection 2013.

19.

Molecular epidemiology and antibiotic susceptibility of livestock Brucella melitensis isolates from Naryn Oblast, Kyrgyzstan.

Kasymbekov J, Imanseitov J, Ballif M, Schürch N, Paniga S, Pilo P, Tonolla M, Benagli C, Akylbekova K, Jumakanova Z, Schelling E, Zinsstag J.

PLoS Negl Trop Dis. 2013;7(2):e2047. doi: 10.1371/journal.pntd.0002047. Epub 2013 Feb 28.

20.

Development of a high- versus low-pathogenicity model of the free-living amoeba Naegleria fowleri.

Burri DC, Gottstein B, Zumkehr B, Hemphill A, Schürch N, Wittwer M, Müller N.

Microbiology. 2012 Oct;158(Pt 10):2652-60. Epub 2012 Aug 9.

PMID:
22878396
21.

Comparison of rapid methods for detection of Giardia spp. and Cryptosporidium spp. (oo)cysts using transportable instrumentation in a field deployment.

Keserue HA, Füchslin HP, Wittwer M, Nguyen-Viet H, Nguyen TT, Surinkul N, Koottatep T, Schürch N, Egli T.

Environ Sci Technol. 2012 Aug 21;46(16):8952-9. doi: 10.1021/es301974m. Epub 2012 Aug 3.

PMID:
22816735
22.

PTEN protein phosphatase activity correlates with control of gene expression and invasion, a tumor-suppressing phenotype, but not with AKT activity.

Tibarewal P, Zilidis G, Spinelli L, Schurch N, Maccario H, Gray A, Perera NM, Davidson L, Barton GJ, Leslie NR.

Sci Signal. 2012 Feb 28;5(213):ra18. doi: 10.1126/scisignal.2002138.

23.

Re-replication induced by geminin depletion occurs from G2 and is enhanced by checkpoint activation.

Klotz-Noack K, McIntosh D, Schurch N, Pratt N, Blow JJ.

J Cell Sci. 2012 May 15;125(Pt 10):2436-45. doi: 10.1242/jcs.100883. Epub 2012 Feb 24.

24.

Tapping the potential of intact cell mass spectrometry with a combined data analytical approach applied to Yersinia spp.: detection, differentiation and identification of Y. pestis.

Wittwer M, Heim J, Schär M, Dewarrat G, Schürch N.

Syst Appl Microbiol. 2011 Feb;34(1):12-9. doi: 10.1016/j.syapm.2010.11.006. Epub 2011 Jan 15.

PMID:
21239132
25.

Anthrax spore detection by a luminex assay based on monoclonal antibodies that recognize anthrose-containing oligosaccharides.

Tamborrini M, Holzer M, Seeberger PH, Schürch N, Pluschke G.

Clin Vaccine Immunol. 2010 Sep;17(9):1446-51. doi: 10.1128/CVI.00205-10. Epub 2010 Jul 21.

26.

Screening of Swiss hot spring resorts for potentially pathogenic free-living amoebae.

Gianinazzi C, Schild M, Zumkehr B, Wüthrich F, Nüesch I, Ryter R, Schürch N, Gottstein B, Müller N.

Exp Parasitol. 2010 Sep;126(1):45-53. doi: 10.1016/j.exppara.2009.12.008. Epub 2009 Dec 29.

PMID:
20036656
27.

Screening Swiss water bodies for potentially pathogenic free-living amoebae.

Gianinazzi C, Schild M, Wüthrich F, Ben Nouir N, Füchslin HP, Schürch N, Gottstein B, Müller N.

Res Microbiol. 2009 Jul-Aug;160(6):367-74. doi: 10.1016/j.resmic.2009.06.007. Epub 2009 Jul 7.

PMID:
19589386
28.

Immuno-detection of anthrose containing tetrasaccharide in the exosporium of Bacillus anthracis and Bacillus cereus strains.

Tamborrini M, Oberli MA, Werz DB, Schürch N, Frey J, Seeberger PH, Pluschke G.

J Appl Microbiol. 2009 May;106(5):1618-28. doi: 10.1111/j.1365-2672.2008.04129.x. Epub 2009 Feb 16.

29.

Potentially human pathogenic Acanthamoeba isolated from a heated indoor swimming pool in Switzerland.

Gianinazzi C, Schild M, Wüthrich F, Müller N, Schürch N, Gottstein B.

Exp Parasitol. 2009 Feb;121(2):180-6. doi: 10.1016/j.exppara.2008.11.001. Epub 2008 Nov 17.

PMID:
19041307
30.

Unravelling the procyclin coat of Trypanosoma brucei.

Roditi I, Furger A, Ruepp S, Schürch N, Bütikofer P.

Mol Biochem Parasitol. 1998 Mar 1;91(1):117-30. Review. No abstract available.

PMID:
9574930
31.
33.

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