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Items: 32

1.

Single-cell transcriptomics reveals a new dynamical function of transcription factors during embryonic hematopoiesis.

Bergiers I, Andrews T, Vargel Bölükbaşı Ö, Buness A, Janosz E, Lopez-Anguita N, Ganter K, Kosim K, Celen C, Itır Perçin G, Collier P, Baying B, Benes V, Hemberg M, Lancrin C.

Elife. 2018 Mar 20;7. pii: e29312. doi: 10.7554/eLife.29312.

2.

A transit-amplifying population underpins the efficient regenerative capacity of the testis.

Carrieri C, Comazzetto S, Grover A, Morgan M, Buness A, Nerlov C, O'Carroll D.

J Exp Med. 2017 Jun 5;214(6):1631-1641. doi: 10.1084/jem.20161371. Epub 2017 May 1.

3.

Quantitative predictions of protein interactions with long noncoding RNAs.

Cirillo D, Blanco M, Armaos A, Buness A, Avner P, Guttman M, Cerase A, Tartaglia GG.

Nat Methods. 2016 Dec 29;14(1):5-6. doi: 10.1038/nmeth.4100. No abstract available.

PMID:
28032625
4.

Endogenous Mouse Dicer Is an Exclusively Cytoplasmic Protein.

Much C, Auchynnikava T, Pavlinic D, Buness A, Rappsilber J, Benes V, Allshire R, O'Carroll D.

PLoS Genet. 2016 Jun 2;12(6):e1006095. doi: 10.1371/journal.pgen.1006095. eCollection 2016 Jun.

5.

Nuclear Architecture Organized by Rif1 Underpins the Replication-Timing Program.

Foti R, Gnan S, Cornacchia D, Dileep V, Bulut-Karslioglu A, Diehl S, Buness A, Klein FA, Huber W, Johnstone E, Loos R, Bertone P, Gilbert DM, Manke T, Jenuwein T, Buonomo SC.

Mol Cell. 2016 Jan 21;61(2):260-73. doi: 10.1016/j.molcel.2015.12.001. Epub 2015 Dec 24.

6.

Differential transcriptional profiling of damaged and intact adjacent dorsal root ganglia neurons in neuropathic pain.

Reinhold AK, Batti L, Bilbao D, Buness A, Rittner HL, Heppenstall PA.

PLoS One. 2015 Apr 16;10(4):e0123342. doi: 10.1371/journal.pone.0123342. eCollection 2015.

7.

Identification of metabolites, clinical chemistry markers and transcripts associated with hepatotoxicity.

Buness A, Roth A, Herrmann A, Schmitz O, Kamp H, Busch K, Suter L.

PLoS One. 2014 May 16;9(5):e97249. doi: 10.1371/journal.pone.0097249. eCollection 2014.

8.

A label-free, impedance-based real time assay to identify drug-induced toxicities and differentiate cytostatic from cytotoxic effects.

Kustermann S, Boess F, Buness A, Schmitz M, Watzele M, Weiser T, Singer T, Suter L, Roth A.

Toxicol In Vitro. 2013 Aug;27(5):1589-95. doi: 10.1016/j.tiv.2012.08.019. Epub 2012 Aug 28.

PMID:
22954529
9.

Rescue screens with secreted proteins reveal compensatory potential of receptor tyrosine kinases in driving cancer growth.

Harbinski F, Craig VJ, Sanghavi S, Jeffery D, Liu L, Sheppard KA, Wagner S, Stamm C, Buness A, Chatenay-Rivauday C, Yao Y, He F, Lu CX, Guagnano V, Metz T, Finan PM, Hofmann F, Sellers WR, Porter JA, Myer VE, Graus-Porta D, Wilson CJ, Buckler A, Tiedt R.

Cancer Discov. 2012 Oct;2(10):948-59. doi: 10.1158/2159-8290.CD-12-0237. Epub 2012 Aug 8.

10.

Loss of aquaporin-4 expression and putative function in non-small cell lung cancer.

Warth A, Muley T, Meister M, Herpel E, Pathil A, Hoffmann H, Schnabel PA, Bender C, Buness A, Schirmacher P, Kuner R.

BMC Cancer. 2011 May 6;11:161. doi: 10.1186/1471-2407-11-161.

11.

Serum cardiac troponin I concentrations transiently increase in rats given rosiglitazone.

Mikaelian I, Buness A, Hirkaler G, Fernandes R, Coluccio D, Geng W, Visalli T, Bachynsky MO, Berkofsky-Fessler W, Kanwal C, Hilton H, Nicklaus R, Hoflack JC, Dunn M, Sanders M, Giron M, Boyle BW, Singer T, Dick LS.

Toxicol Lett. 2011 Mar 5;201(2):110-5. doi: 10.1016/j.toxlet.2010.12.012. Epub 2010 Dec 21.

PMID:
21172411
12.

The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models.

Shi L, Campbell G, Jones WD, Campagne F, Wen Z, Walker SJ, Su Z, Chu TM, Goodsaid FM, Pusztai L, Shaughnessy JD Jr, Oberthuer A, Thomas RS, Paules RS, Fielden M, Barlogie B, Chen W, Du P, Fischer M, Furlanello C, Gallas BD, Ge X, Megherbi DB, Symmans WF, Wang MD, Zhang J, Bitter H, Brors B, Bushel PR, Bylesjo M, Chen M, Cheng J, Cheng J, Chou J, Davison TS, Delorenzi M, Deng Y, Devanarayan V, Dix DJ, Dopazo J, Dorff KC, Elloumi F, Fan J, Fan S, Fan X, Fang H, Gonzaludo N, Hess KR, Hong H, Huan J, Irizarry RA, Judson R, Juraeva D, Lababidi S, Lambert CG, Li L, Li Y, Li Z, Lin SM, Liu G, Lobenhofer EK, Luo J, Luo W, McCall MN, Nikolsky Y, Pennello GA, Perkins RG, Philip R, Popovici V, Price ND, Qian F, Scherer A, Shi T, Shi W, Sung J, Thierry-Mieg D, Thierry-Mieg J, Thodima V, Trygg J, Vishnuvajjala L, Wang SJ, Wu J, Wu Y, Xie Q, Yousef WA, Zhang L, Zhang X, Zhong S, Zhou Y, Zhu S, Arasappan D, Bao W, Lucas AB, Berthold F, Brennan RJ, Buness A, Catalano JG, Chang C, Chen R, Cheng Y, Cui J, Czika W, Demichelis F, Deng X, Dosymbekov D, Eils R, Feng Y, Fostel J, Fulmer-Smentek S, Fuscoe JC, Gatto L, Ge W, Goldstein DR, Guo L, Halbert DN, Han J, Harris SC, Hatzis C, Herman D, Huang J, Jensen RV, Jiang R, Johnson CD, Jurman G, Kahlert Y, Khuder SA, Kohl M, Li J, Li L, Li M, Li QZ, Li S, Li Z, Liu J, Liu Y, Liu Z, Meng L, Madera M, Martinez-Murillo F, Medina I, Meehan J, Miclaus K, Moffitt RA, Montaner D, Mukherjee P, Mulligan GJ, Neville P, Nikolskaya T, Ning B, Page GP, Parker J, Parry RM, Peng X, Peterson RL, Phan JH, Quanz B, Ren Y, Riccadonna S, Roter AH, Samuelson FW, Schumacher MM, Shambaugh JD, Shi Q, Shippy R, Si S, Smalter A, Sotiriou C, Soukup M, Staedtler F, Steiner G, Stokes TH, Sun Q, Tan PY, Tang R, Tezak Z, Thorn B, Tsyganova M, Turpaz Y, Vega SC, Visintainer R, von Frese J, Wang C, Wang E, Wang J, Wang W, Westermann F, Willey JC, Woods M, Wu S, Xiao N, Xu J, Xu L, Yang L, Zeng X, Zhang J, Zhang L, Zhang M, Zhao C, Puri RK, Scherf U, Tong W, Wolfinger RD; MAQC Consortium.

Nat Biotechnol. 2010 Aug;28(8):827-38. doi: 10.1038/nbt.1665. Epub 2010 Jul 30.

13.

Primary endothelial damage is the mechanism of cardiotoxicity of tubulin-binding drugs.

Mikaelian I, Buness A, de Vera-Mudry MC, Kanwal C, Coluccio D, Rasmussen E, Char HW, Carvajal V, Hilton H, Funk J, Hoflack JC, Fielden M, Herting F, Dunn M, Suter-Dick L.

Toxicol Sci. 2010 Sep;117(1):144-51. doi: 10.1093/toxsci/kfq189. Epub 2010 Jul 12.

PMID:
20624997
14.

Classification across gene expression microarray studies.

Buness A, Ruschhaupt M, Kuner R, Tresch A.

BMC Bioinformatics. 2009 Dec 30;10:453. doi: 10.1186/1471-2105-10-453.

15.

Down-regulation of HLA Class I and NKG2D ligands through a concerted action of MAPK and DNA methyltransferases in colorectal cancer cells.

Sers C, Kuner R, Falk CS, Lund P, Sueltmann H, Braun M, Buness A, Ruschhaupt M, Conrad J, Mang-Fatehi S, Stelniec I, Krapfenbauer U, Poustka A, Schäfer R.

Int J Cancer. 2009 Oct 1;125(7):1626-39. doi: 10.1002/ijc.24557.

16.

Expression and tissue localization of beta-catenin, alpha-actinin and chondroitin sulfate proteoglycan 6 is modulated during rat and human left ventricular hypertrophy.

Ridinger H, Rutenberg C, Lutz D, Buness A, Petersen I, Amann K, Maercker C.

Exp Mol Pathol. 2009 Feb;86(1):23-31. doi: 10.1016/j.yexmp.2008.11.004. Epub 2008 Nov 27.

PMID:
19094982
17.

Molecular cancer phenotype in normal prostate tissue.

Schlomm T, Hellwinkel OJ, Buness A, Ruschhaupt M, Lübke AM, Chun FK, Simon R, Budäus L, Erbersdobler A, Graefen M, Huland H, Poustka A, Sültmann H.

Eur Urol. 2009 Apr;55(4):885-90. doi: 10.1016/j.eururo.2008.04.105. Epub 2008 May 16.

PMID:
18501497
18.

Global gene expression analysis reveals specific patterns of cell junctions in non-small cell lung cancer subtypes.

Kuner R, Muley T, Meister M, Ruschhaupt M, Buness A, Xu EC, Schnabel P, Warth A, Poustka A, Sültmann H, Hoffmann H.

Lung Cancer. 2009 Jan;63(1):32-8. doi: 10.1016/j.lungcan.2008.03.033. Epub 2008 May 16.

PMID:
18486272
19.

Genomic analysis reveals poor separation of human cardiomyopathies of ischemic and nonischemic etiologies.

Kuner R, Barth AS, Ruschhaupt M, Buness A, Zwermann L, Kreuzer E, Steinbeck G, Poustka A, Sültmann H, Nabauer M.

Physiol Genomics. 2008 Jun 12;34(1):88-94. doi: 10.1152/physiolgenomics.00299.2007. Epub 2008 Apr 22.

PMID:
18430805
20.

Discrimination of direct and indirect interactions in a network of regulatory effects.

Tresch A, Beissbarth T, Sültmann H, Kuner R, Poustka A, Buness A.

J Comput Biol. 2007 Nov;14(9):1217-28.

PMID:
17990974
21.

Comparing active and repressed expression states of genes controlled by the Polycomb/Trithorax group proteins.

Beisel C, Buness A, Roustan-Espinosa IM, Koch B, Schmitt S, Haas SA, Hild M, Katsuyama T, Paro R.

Proc Natl Acad Sci U S A. 2007 Oct 16;104(42):16615-20. Epub 2007 Oct 5.

22.

Identification of aberrant chromosomal regions from gene expression microarray studies applied to human breast cancer.

Buness A, Kuner R, Ruschhaupt M, Poustka A, Sültmann H, Tresch A.

Bioinformatics. 2007 Sep 1;23(17):2273-80. Epub 2007 Jun 28.

PMID:
17599933
23.

Identification of cellular targets for the human papillomavirus E6 and E7 oncogenes by RNA interference and transcriptome analyses.

Kuner R, Vogt M, Sultmann H, Buness A, Dymalla S, Bulkescher J, Fellmann M, Butz K, Poustka A, Hoppe-Seyler F.

J Mol Med (Berl). 2007 Nov;85(11):1253-62. Epub 2007 Jun 23.

PMID:
17589817
24.

Marked gene transcript level alterations occur early during radical prostatectomy.

Schlomm T, Näkel E, Lübke A, Buness A, Chun FK, Steuber T, Graefen M, Simon R, Sauter G, Poustka A, Huland H, Erbersdobler A, Sültmann H, Hellwinkel OJ.

Eur Urol. 2008 Feb;53(2):333-44. Epub 2007 Apr 9.

PMID:
17448597
25.

Identification of a common gene expression signature in dilated cardiomyopathy across independent microarray studies.

Barth AS, Kuner R, Buness A, Ruschhaupt M, Merk S, Zwermann L, Kääb S, Kreuzer E, Steinbeck G, Mansmann U, Poustka A, Nabauer M, Sültmann H.

J Am Coll Cardiol. 2006 Oct 17;48(8):1610-7. Epub 2006 Sep 27.

26.

Identification and meta-analysis of a small gene expression signature for the diagnosis of estrogen receptor status in invasive ductal breast cancer.

Schneider J, Ruschhaupt M, Buness A, Asslaber M, Regitnig P, Zatloukal K, Schippinger W, Ploner F, Poustka A, Sültmann H.

Int J Cancer. 2006 Dec 15;119(12):2974-9.

27.

Analysis of pigmented villonodular synovitis with genome-wide complementary DNA microarray and tissue array technology reveals insight into potential novel therapeutic approaches.

Finis K, Sültmann H, Ruschhaupt M, Buness A, Helmchen B, Kuner R, Gross ML, Fink B, Schirmacher P, Poustka A, Berger I.

Arthritis Rheum. 2006 Mar;54(3):1009-19.

28.

Systematic comparison of surface coatings for protein microarrays.

Guilleaume B, Buness A, Schmidt C, Klimek F, Moldenhauer G, Huber W, Arlt D, Korf U, Wiemann S, Poustka A.

Proteomics. 2005 Dec;5(18):4705-12.

PMID:
16267812
29.

Gene expression levels influence amino acid usage and evolutionary rates in endosymbiotic bacteria.

Schaber J, Rispe C, Wernegreen J, Buness A, Delmotte F, Silva FJ, Moya A.

Gene. 2005 Jun 6;352:109-17.

PMID:
15935576
30.

Gene expression in kidney cancer is associated with cytogenetic abnormalities, metastasis formation, and patient survival.

Sültmann H, von Heydebreck A, Huber W, Kuner R, Buness A, Vogt M, Gunawan B, Vingron M, Füzesí L, Poustka A.

Clin Cancer Res. 2005 Jan 15;11(2 Pt 1):646-55.

31.

arrayMagic: two-colour cDNA microarray quality control and preprocessing.

Buness A, Huber W, Steiner K, Sültmann H, Poustka A.

Bioinformatics. 2005 Feb 15;21(4):554-6. Epub 2004 Sep 28.

PMID:
15454413
32.

Systematic analysis of T7 RNA polymerase based in vitro linear RNA amplification for use in microarray experiments.

Schneider J, Buness A, Huber W, Volz J, Kioschis P, Hafner M, Poustka A, Sültmann H.

BMC Genomics. 2004 Apr 30;5(1):29.

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