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Publications

2017


 

Sun T, Yang L, Kaur H, Pestel J, Looso M, Nolte H, Krasel C, Heil D, Krishnan RK, Santoni MJ, Borg JP, Bünemann M, Offermanns S, Swiercz JM, Worzfeld T. A reverse signaling pathway downstream of Sema4A controls cell migration via Scrib. J Cell Biol. 2017, doi:10.1083/jcb.201602002

2016


Bayer J, Kuenne C, Preussner J, Looso M. LimiTT: link miRNAs to targets. BMC Bioinformatics 2016, doi: 10.1186/s12859-016-1070-1

 

Kaur H, Takefuji M, Ngai CY, Carvalho J, Bayer J, Wietelmann A, Poetsch A, Hoelper S, Conway SJ, Möllmann H, Looso M, Troidl C, Offermanns S, Wettschureck N. Targeted Ablation of Periostin-Expressing Activated Fibroblasts Prevents Adverse Cardiac Remodeling in Mice. Circulation Research 2016, doi: 10.1161/CIRCRESAHA.116.308643

 

Josipovic I, Fork C, Preussner J, Prior KK, Iloska D, Vasconez AE, Labocha S, Angioni C, Thomas D, Ferreirós N, Looso M, Pullamsetti SS, Geisslinger G, Steinhilber D, Brandes RP, Leisegang MS. PAFAH1B1 and the lncRNA NONHSAT073641 maintain an angiogenic phenotype in human endothelial cells. Acta Physiologica 2016, doi:10.1111/apha.12700

 

Gu L, Hitzel J, Moll F, Kruse C, Malik RA, Preussner J, Looso M, Leisegang MS, Steinhilber D, Brandes RP, Fork C. The Histone Demethylase PHF8 Is Essential for Endothelial Cell Migration. Plos &One 2016, doi:10.1186/s13072-015-0045-1

2015


Preussner J, Bayer J, Kuenne C and Looso M. ADMIRE: analysis and visualization of differential methylation in genomic regions using the Infinium HumanMethylation450 Assay. Epigenetics & Chromatin 2015, doi:10.1186/s13072-015-0045-1

 

Kuenne C, Guenther S, Looso M, Zhang T, Krueger M, Zhou Y, Braun T, Kim J. RNA-Seq analysis of isolated satellite cells in Prmt5 deficient mice. Genomics Data 2015, doi:10.1016/j.gdata.2015.05.013

 

Caputo L, Witzel HR, Kolovos P, Cheedipudi S, Looso M, Mylona A, van IJcken WF, Laugwitz KL, Evans SM, Braun T, Soler E, Grosveld F, Dobreva G. The Isl1/Ldb1 Complex Orchestrates Genome-wide Chromatin Organization to Instruct Differentiation of Multipotent Cardiac Progenitors. Cell Stem Cell 2015, doi:10.1016/j.stem.2015.08.007

 

Singh I, Ozturk N, Cordero J, Mehta A, Hasan D, Cosentino C, Sebastian C, Krüger M, Looso M, Carraro G, Bellusci S, Seeger W, Braun T, Mostoslavsky R, Barreto G. High mobility group protein-mediated transcription requires DNA damage marker ?-H2AX. Cell Res. 2015, doi:10.1038/cr.2015.67

 

Zhang T, Günther S, Looso M, Kuenne C, Krüger M, Kim J, Zhou Y and Braun T. Prmt5 is a regulator of muscle stem cell expansion in adult mice. Nat. Comm. 2015, doi:10.1038/ncomms8140

 

Geng J, Gates PB, Kumar A, Guenther S, Garza-Garcia A, Kuenne C, Zhang P, Looso M, Brockes JP. Identification of the orphan gene Prod 1 in basal and other salamander families. Evodevo. 2015, doi: 10.1186/s13227-015-0006-6

 

Looso M and Braun, T. Data mining in newt-omics, the repository for omics data from the newt. Methods Mol. Biol. 2015, doi:10.1007/978-1-4939-2495-0_26

 

Krishnan RK, Nolte H, Sun T, Kaur H, Sreenivasan K, Looso M, Offermanns S, Krüger M, and Swiercz J. Quantitative analysis of the TNF-a-induced phosphoproteome reveals AEG-1/MTDH/LYRIC as an IKKß substrate. Nat. Comm. 2015, doi: 10.1038/ncomms7658

2014


Sousounis K, Bhavsar R, Looso M, Krüger M, Beebe J, Braun T, Tsonis PA. Molecular signatures that correlate with induction of lens regeneration in newts: lessons from proteomic analysis. Hum. Genomics 2014, doi:10.1186/s40246-014-0022-y

 

Yang J, Hung LH, Licht T, Kostin S, Looso M, Khrameeva E, Bindereif A, Schneider A, Braun T. RBM24 Is a Major Regulator of Muscle-Specific Alternative Splicing. Dev. Cell 2014, doi: 10.1016/j.devcel.2014.08.025

 

Kuenne C, Preussner J, Herzog M, Braun T and Looso M. MIRPIPE - quantification of microRNAs in niche model organisms. Bioinformatics 2014, doi: 10.1093/bioinformatics/btu573

 

Adhi Susanto S, Schönfeld C, Geyer M, Schreiyäck C, Lange U, Looso M, Braun T, Neumann E, Müller-Ladner U. A9.2 Tenascin-C expression during knee joint regeneration in the red-spotted NEWT notophthalmus viridescens. Ann Rheum Dis. 2014 Mar 1, doi: 10.1136/annrheumdis-2013-205124.215

 

Looso, M. Opening the genetic toolbox of niche model organisms with high throughput techniques: Novel proteins in regeneration as a case study. Bioessays. 2014, doi: 10.1002/bies.201300093

2013


Berghoff BA, Konzer A, Mank NN, Looso M, Rische T, Förstner KU, Krüger M, Klug G. Integrative "omics"-approach discovers dynamic and regulatory features of bacterial stress responses, PLoS Genetics. 2013 9(6), doi: 10.1371/journal.pgen.1003576

 

Sousounis K, Looso M, Maki N, Ivester CJ, Braun T, Tsonis PA. Transcriptome analysis of newt lens regeneration reveals distinct gradients in gene expression patterns, PLoS One. 2013 8(4), doi: 10.1371/journal.pone.0061445

 

Looso M, Preussner J, Sousounis K, Bruckskotten M, Michel CS, Lignelli E, Reinhardt R, Höffner S, Krüger M, Tsonis PA, Borchardt T, Braun T. A de novo assembly of the newt transcriptome combined with proteomic validation identifies new protein families expressed during tissue regeneration. Genome Biology. 2013 14(2)

 

Kuenne C, Billion A, Mraheil MA, Strittmatter A, Daniel R, Goesmann A, Barbuddhe S, Hain T, Chakraborty T. Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome. BMC Genomics. 2013 14:47, doi: 10.1186/1471-2164-14-47

 

Fritzenwanker M, Kuenne C, Billion A, Hain T, Zimmermann K, Goesmann A, Chakraborty T, Domann E. Complete Genome Sequence of the Probiotic Enterococcus faecalis Symbioflor 1 Clone DSM 16431. Genome Announc. 2013 1(1), doi:pii: e00165-12. 10.1128/genomeA.00165-12

 

Sousounis K, Michel CS, Bruckskotten M, Maki N, Borchardt T, Braun T, Looso M, Tsonis PA. A microarray analysis of gene expression patterns during early phases of newt lens regeneration. Mol Vis. 2013 19

2012


Zischka M, Kuenne C, Blom J, Dabrowski PW, Linke B, Hain T, Nitsche A, Goesmann A, Larsen J, Jensen LB, Witte W, Werner G. Complete genome sequence of the porcine isolate Enterococcus faecalis D32. J Bacteriol. 2012 194(19), doi: 10.1128/JB.01298-12

 

Looso M, Michel CS, Konzer A, Bruckskotten M, Borchardt T, Krüger M, Braun T. Spiked-in pulsed in vivo labeling identifies a new member of the CCN family in regenerating newt hearts. J Proteome Res. 2012 11(9), doi: 10.1021/pr300521p

 

Pischimarov J, Kuenne C, Billion A, Hemberger J, Cemic F, Chakraborty T, Hain T. sRNAdb: a small non-coding RNA database for gram-positive bacteria. BMC Genomics. 2012 13:384, doi: 10.1186/1471-2164-13-384

 

Drexler HC, Ruhs A, Konzer A, Mendler L, Bruckskotten M, Looso M, Günther S, Boettger T, Krüger M, Braun T. On marathons and Sprints: an integrated quantitative proteomics and transcriptomics analysis of differences between slow and fast muscle fibers. Mol Cell Proteomics. 2012 11(6), doi: 10.1074/mcp.M111.010801

 

Worzfeld T, Swiercz JM, Looso M, Straub BK, Sivaraj KK, Offermanns S. ErbB-2 signals through Plexin-B1 to promote breast cancer metastasis. J Clin Invest. 2012 122(4), doi: 10.1172/JCI60568

 

Bruckskotten M, Looso M, Reinhardt R, Braun T, Borchardt T. Newt-omics: a comprehensive repository for omics data from the newt Notophthalmus viridescens. Nucleic Acids Res. 2012 40(Database issue), doi: 10.1093/nar/gkr873

2011


Shioya K, Michaux C, Kuenne C, Hain T, Verneuil N, Budin-Verneuil A, Hartsch T, Hartke A, Giard JC. Genome-wide identification of small RNAs in the opportunistic pathogen Enterococcus faecalis V583. PLoS One. 2011 6(9), doi:10.1371/journal.pone.0023948

 

Imirzalioglu C, Dahmen H, Hain T, Billion A, Kuenne C, Chakraborty T, Domann E. Highly specific and quick detection of Mycobacterium avium subsp. paratuberculosis in feces and gut tissue of cattle and humans by multiple real-time PCR assays. J Clin Microbiol. 2011 49(5), doi:10.1128/JCM.01492-10

 

Mraheil MA, Billion A, Mohamed W, Mukherjee K, Kuenne C, Pischimarov J, Krawitz C, Retey J, Hartsch T, Chakraborty T, Hain T. The intracellular sRNA transcriptome of Listeria monocytogenes during growth in macrophages. Nucleic Acids Res. 2011 39(10), doi: 10.1093/nar/gkr033

2010


Bruckskotten M, Looso M, Cemic F, Konzer A, Hemberger J, Krüger M, Braun T. PCA2GO: a new multivariate statistics based method to identify highly expressed GO-Terms. BMC Bioinformatics. 2010 11, doi: 10.1186/1471-2105-11-336

 

Mraheil MA, Billion A, Kuenne C, Pischimarov J, Kreikemeyer B, Engelmann S, Hartke A, Giard JC, Rupnik M, Vorwerk S, Beier M, Retey J, Hartsch T, Jacob A, Cemic F, Hemberger J, Chakraborty T, Hain T. Comparative genome-wide analysis of small RNAs of major Gram-positive pathogens: from identification to application. Microb Biotechnol. 2010 3(6), doi: 10.1111/j.1751-7915.2010.00171.x.Review

 

Kuenne C, Voget S, Pischimarov J, Oehm S, Goesmann A, Daniel R, Hain T, Chakraborty T. Comparative analysis of plasmids in the genus Listeria. PLoS One. 2010 5(9), doi:pii: e12511. 10.1371/journal.pone.0012511

 

Looso M, Borchardt T, Krüger M, Braun T. Advanced identification of proteins in uncharacterized proteomes by pulsed in vivo stable isotope labeling-based mass spectrometry. Mol Cell Proteomics. 2010 9(6), doi: 10.1074/mcp.M900426-MCP200

 

Borchardt T, Looso M, Bruckskotten M, Weis P, Kruse J, Braun T. Analysis of newly established EST databases reveals similarities between heart regeneration in newt and fish. BMC Genomics. 2010 11(4), doi: 10.1186/1471-2164-11-4

2007


Domann E, Hain T, Ghai R, Billion A, Kuenne C, Zimmermann K, Chakraborty T. Comparative genomic analysis for the presence of potential enterococcal virulence factors in the probiotic Enterococcus faecalis strain Symbioflor 1. Int J Med Microbiol. 2007 297(7-8)

2006


Chatterjee SS, Hossain H, Otten S, Kuenne C, Kuchmina K, Machata S, Domann E, Chakraborty T, Hain T. Intracellular gene expression profile of Listeria monocytogenes. Infect Immun. 2006 74(2)

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