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Items: 1 to 50 of 99

1.

Nitrous Oxide-Promoted Pauson-Khand Cycloadditions.

Ricker JD, Mohammadrezaei V, Crippen TJ, Zell AM, Geary LM.

Organometallics. 2018 Dec 24;37(24):4556-4559. doi: 10.1021/acs.organomet.8b00810. Epub 2018 Dec 10.

PMID:
31363297
2.

From bedside to benchmarks: A physician-scientist workforce dashboard for biomedical research institutions.

Zell A, Smith L, Yanez ND, Guise JM, Pelkey R, Ellison DH.

J Clin Transl Sci. 2018 Oct;2(5):305-311. doi: 10.1017/cts.2018.328. Epub 2018 Dec 7.

3.

The First National Institutes of Health Institutional Training Program in Emergency Care Research: Productivity and Outcomes.

Newgard CD, Morris CD, Smith L, Cook JNB, Yealy DM, Collins S, Holmes JF, Kuppermann N, Richardson LD, Kimmel S, Becker LB, Scott JD, Lowe RA, Callaway CW, Gowen LK, Baren J, Storrow AB, Vasilevsky N, White M, Zell A.

Ann Emerg Med. 2018 Dec;72(6):679-690. doi: 10.1016/j.annemergmed.2018.06.018. Epub 2018 Aug 2.

PMID:
30078658
4.

BUILD EXITO: a multi-level intervention to support diversity in health-focused research.

Richardson DM, Keller TE, Wolf DSS, Zell A, Morris C, Crespo CJ.

BMC Proc. 2017 Dec 4;11(Suppl 12):19. doi: 10.1186/s12919-017-0080-y. eCollection 2017.

5.

Mesenchyme-derived factors enhance preneoplastic growth by non-genotoxic carcinogens in rat liver.

Nejabat M, Riegler T, Reitinger T, Subosits S, Römer M, Eichner J, Bilban M, Zell A, Huber WW, Schulte-Hermann R, Grasl-Kraupp B.

Arch Toxicol. 2018 Feb;92(2):953-966. doi: 10.1007/s00204-017-2080-0. Epub 2017 Dec 21.

6.

Xenobiotic CAR Activators Induce Dlk1-Dio3 Locus Noncoding RNA Expression in Mouse Liver.

Pouché L, Vitobello A, Römer M, Glogovac M, MacLeod AK, Ellinger-Ziegelbauer H, Westphal M, Dubost V, Stiehl DP, Dumotier B, Fekete A, Moulin P, Zell A, Schwarz M, Moreno R, Huang JTJ, Elcombe CR, Henderson CJ, Roland Wolf C, Moggs JG, Terranova R.

Toxicol Sci. 2017 Aug 1;158(2):367-378. doi: 10.1093/toxsci/kfx104.

PMID:
28541575
7.

ZBIT Bioinformatics Toolbox: A Web-Platform for Systems Biology and Expression Data Analysis.

Römer M, Eichner J, Dräger A, Wrzodek C, Wrzodek F, Zell A.

PLoS One. 2016 Feb 16;11(2):e0149263. doi: 10.1371/journal.pone.0149263. eCollection 2016.

8.

Tumor promotion and inhibition by phenobarbital in livers of conditional Apc-deficient mice.

Braeuning A, Gavrilov A, Geissler M, Wenz C, Colnot S, Templin MF, Metzger U, Römer M, Zell A, Schwarz M.

Arch Toxicol. 2016 Jun;90(6):1481-94. doi: 10.1007/s00204-016-1667-1. Epub 2016 Feb 2.

PMID:
26838046
9.

Coordinating Role of RXRα in Downregulating Hepatic Detoxification during Inflammation Revealed by Fuzzy-Logic Modeling.

Keller R, Klein M, Thomas M, Dräger A, Metzger U, Templin MF, Joos TO, Thasler WE, Zell A, Zanger UM.

PLoS Comput Biol. 2016 Jan 4;12(1):e1004431. doi: 10.1371/journal.pcbi.1004431. eCollection 2016 Jan.

10.

SBMLsqueezer 2: context-sensitive creation of kinetic equations in biochemical networks.

Dräger A, Zielinski DC, Keller R, Rall M, Eichner J, Palsson BO, Zell A.

BMC Syst Biol. 2015 Oct 9;9:68. doi: 10.1186/s12918-015-0212-9.

11.

Intestinal microbial communities associated with acute enteric infections and disease recovery.

Singh P, Teal TK, Marsh TL, Tiedje JM, Mosci R, Jernigan K, Zell A, Newton DW, Salimnia H, Lephart P, Sundin D, Khalife W, Britton RA, Rudrik JT, Manning SD.

Microbiome. 2015 Sep 22;3:45. doi: 10.1186/s40168-015-0109-2.

12.

Proinflammatory mesenchymal effects of the non-genotoxic hepatocarcinogen phenobarbital: a novel mechanism of antiapoptosis and tumor promotion.

Riegler T, Nejabat M, Eichner J, Stiebellehner M, Subosits S, Bilban M, Zell A, Huber WW, Schulte-Hermann R, Grasl-Kraupp B.

Carcinogenesis. 2015 Dec;36(12):1521-30. doi: 10.1093/carcin/bgv135. Epub 2015 Sep 16.

PMID:
26378027
13.

Influence of Feature Encoding and Choice of Classifier on Disease Risk Prediction in Genome-Wide Association Studies.

Mittag F, Römer M, Zell A.

PLoS One. 2015 Aug 18;10(8):e0135832. doi: 10.1371/journal.pone.0135832. eCollection 2015.

14.

A Novel Approach to Measuring Efficiency of Scientific Research Projects: Data Envelopment Analysis.

Dilts DM, Zell A, Orwoll E.

Clin Transl Sci. 2015 Oct;8(5):495-501. doi: 10.1111/cts.12303. Epub 2015 Aug 3.

15.

A ranking method for the concurrent learning of compounds with various activity profiles.

Dörr A, Rosenbaum L, Zell A.

J Cheminform. 2015 Jan 16;7(1):2. doi: 10.1186/s13321-014-0050-6. eCollection 2015.

16.

ToxDBScan: Large-scale similarity screening of toxicological databases for drug candidates.

Römer M, Backert L, Eichner J, Zell A.

Int J Mol Sci. 2014 Oct 21;15(10):19037-55. doi: 10.3390/ijms151019037.

17.

Dysregulated serum response factor triggers formation of hepatocellular carcinoma.

Ohrnberger S, Thavamani A, Braeuning A, Lipka DB, Kirilov M, Geffers R, Autenrieth SE, Römer M, Zell A, Bonin M, Schwarz M, Schütz G, Schirmacher P, Plass C, Longerich T, Nordheim A.

Hepatology. 2015 Mar;61(3):979-89. doi: 10.1002/hep.27539. Epub 2015 Jan 30. Erratum in: Hepatology. 2015 May;61(5):1772. Authenrieth, Stella E [corrected to Autenrieth, Stella E].

18.

Investigating recurrent neural networks for OCT A-scan based tissue analysis.

Otte C, Otte S, Wittig L, Hüttmann G, Kugler C, Drömann D, Zell A, Schlaefer A.

Methods Inf Med. 2014;53(4):245-9. doi: 10.3414/ME13-01-0135. Epub 2014 Jul 4.

PMID:
24992968
19.

RPPApipe: a pipeline for the analysis of reverse-phase protein array data.

Eichner J, Heubach Y, Ruff M, Kohlhof H, Strobl S, Mayer B, Pawlak M, Templin MF, Zell A.

Biosystems. 2014 Aug;122:19-24. doi: 10.1016/j.biosystems.2014.06.009. Epub 2014 Jun 18.

PMID:
24951946
20.

Cross-platform toxicogenomics for the prediction of non-genotoxic hepatocarcinogenesis in rat.

Römer M, Eichner J, Metzger U, Templin MF, Plummer S, Ellinger-Ziegelbauer H, Zell A.

PLoS One. 2014 May 15;9(5):e97640. doi: 10.1371/journal.pone.0097640. eCollection 2014.

21.

Evaluation of toxicogenomics approaches for assessing the risk of nongenotoxic carcinogenicity in rat liver.

Eichner J, Wrzodek C, Römer M, Ellinger-Ziegelbauer H, Zell A.

PLoS One. 2014 May 14;9(5):e97678. doi: 10.1371/journal.pone.0097678. eCollection 2014.

22.

Integrated enrichment analysis and pathway-centered visualization of metabolomics, proteomics, transcriptomics, and genomics data by using the InCroMAP software.

Eichner J, Rosenbaum L, Wrzodek C, Häring HU, Zell A, Lehmann R.

J Chromatogr B Analyt Technol Biomed Life Sci. 2014 Sep 1;966:77-82. doi: 10.1016/j.jchromb.2014.04.030. Epub 2014 Apr 25.

PMID:
24811976
23.

Ha-ras and β-catenin oncoproteins orchestrate metabolic programs in mouse liver tumors.

Unterberger EB, Eichner J, Wrzodek C, Lempiäinen H, Luisier R, Terranova R, Metzger U, Plummer S, Knorpp T, Braeuning A, Moggs J, Templin MF, Honndorf V, Piotto M, Zell A, Schwarz M.

Int J Cancer. 2014 Oct 1;135(7):1574-85. doi: 10.1002/ijc.28798. Epub 2014 Mar 3.

24.

Identification of short terminal motifs enriched by antibodies using peptide mass fingerprinting.

Planatscher H, Weiß F, Eisen D, van den Berg BH, Zell A, Joos T, Poetz O.

Bioinformatics. 2014 May 1;30(9):1205-13. doi: 10.1093/bioinformatics/btu009. Epub 2014 Jan 9.

PMID:
24413521
25.

TFpredict and SABINE: sequence-based prediction of structural and functional characteristics of transcription factors.

Eichner J, Topf F, Dräger A, Wrzodek C, Wanke D, Zell A.

PLoS One. 2013 Dec 12;8(12):e82238. doi: 10.1371/journal.pone.0082238. eCollection 2013.

26.

Integrative pathway-based approach for genome-wide association studies: identification of new pathways for rheumatoid arthritis and type 1 diabetes.

Büchel F, Mittag F, Wrzodek C, Zell A, Gasser T, Sharma M.

PLoS One. 2013 Oct 25;8(10):e78577. doi: 10.1371/journal.pone.0078577. eCollection 2013.

27.

Parkinson's disease: dopaminergic nerve cell model is consistent with experimental finding of increased extracellular transport of α-synuclein.

Büchel F, Saliger S, Dräger A, Hoffmann S, Wrzodek C, Zell A, Kahle PJ.

BMC Neurosci. 2013 Nov 6;14:136. doi: 10.1186/1471-2202-14-136.

28.

Path2Models: large-scale generation of computational models from biochemical pathway maps.

Büchel F, Rodriguez N, Swainston N, Wrzodek C, Czauderna T, Keller R, Mittag F, Schubert M, Glont M, Golebiewski M, van Iersel M, Keating S, Rall M, Wybrow M, Hermjakob H, Hucka M, Kell DB, Müller W, Mendes P, Zell A, Chaouiya C, Saez-Rodriguez J, Schreiber F, Laibe C, Dräger A, Le Novère N.

BMC Syst Biol. 2013 Nov 1;7:116. doi: 10.1186/1752-0509-7-116.

29.

Automated label-free quantification of metabolites from liquid chromatography-mass spectrometry data.

Kenar E, Franken H, Forcisi S, Wörmann K, Häring HU, Lehmann R, Schmitt-Kopplin P, Zell A, Kohlbacher O.

Mol Cell Proteomics. 2014 Jan;13(1):348-59. doi: 10.1074/mcp.M113.031278. Epub 2013 Oct 31.

30.

Screening for protein-DNA interactions by automatable DNA-protein interaction ELISA.

Brand LH, Henneges C, Schüssler A, Kolukisaoglu HÜ, Koch G, Wallmeroth N, Hecker A, Thurow K, Zell A, Harter K, Wanke D.

PLoS One. 2013 Oct 11;8(10):e75177. doi: 10.1371/journal.pone.0075177. eCollection 2013. Erratum in: PLoS One. 2014;9(1). doi:10.1371/annotation/25496321-a034-46b0-90e4-5af462e8f068. PLoS One. 2014;9(1). doi:10.1371/annotation/57c9046c-1549-445c-8733-d0b2cccc5bb9.

31.

A toxicogenomic approach for the prediction of murine hepatocarcinogenesis using ensemble feature selection.

Eichner J, Kossler N, Wrzodek C, Kalkuhl A, Bach Toft D, Ostenfeldt N, Richard V, Zell A.

PLoS One. 2013 Sep 10;8(9):e73938. doi: 10.1371/journal.pone.0073938. eCollection 2013.

32.

Loss of mitochondrial peptidase Clpp leads to infertility, hearing loss plus growth retardation via accumulation of CLPX, mtDNA and inflammatory factors.

Gispert S, Parganlija D, Klinkenberg M, Dröse S, Wittig I, Mittelbronn M, Grzmil P, Koob S, Hamann A, Walter M, Büchel F, Adler T, Hrabé de Angelis M, Busch DH, Zell A, Reichert AS, Brandt U, Osiewacz HD, Jendrach M, Auburger G.

Hum Mol Genet. 2013 Dec 15;22(24):4871-87. doi: 10.1093/hmg/ddt338. Epub 2013 Jul 12.

PMID:
23851121
33.

Inferring multi-target QSAR models with taxonomy-based multi-task learning.

Rosenbaum L, Dörr A, Bauer MR, Boeckler FM, Zell A.

J Cheminform. 2013 Jul 11;5(1):33. doi: 10.1186/1758-2946-5-33.

34.

The systems biology simulation core algorithm.

Keller R, Dörr A, Tabira A, Funahashi A, Ziller MJ, Adams R, Rodriguez N, Le Novère N, Hiroi N, Planatscher H, Zell A, Dräger A.

BMC Syst Biol. 2013 Jul 5;7:55. doi: 10.1186/1752-0509-7-55.

35.

Applicability of different hydraulic parameters to describe soil detachment in eroding rills.

Wirtz S, Seeger M, Zell A, Wagner C, Wagner JF, Ries JB.

PLoS One. 2013 May 24;8(5):e64861. doi: 10.1371/journal.pone.0064861. Print 2013.

36.

Optimization and visualization of the edge weights in optimal assignment methods for virtual screening.

Rosenbaum L, Jahn A, Dörr A, Zell A.

BioData Min. 2013 Mar 26;6(1):7. doi: 10.1186/1756-0381-6-7.

37.

Circulating lysophosphatidylcholines are markers of a metabolically benign nonalcoholic fatty liver.

Lehmann R, Franken H, Dammeier S, Rosenbaum L, Kantartzis K, Peter A, Zell A, Adam P, Li J, Xu G, Königsrainer A, Machann J, Schick F, Hrabé de Angelis M, Schwab M, Staiger H, Schleicher E, Gastaldelli A, Fritsche A, Häring HU, Stefan N.

Diabetes Care. 2013 Aug;36(8):2331-8. doi: 10.2337/dc12-1760. Epub 2013 Mar 20.

38.

Precise generation of systems biology models from KEGG pathways.

Wrzodek C, Büchel F, Ruff M, Dräger A, Zell A.

BMC Syst Biol. 2013 Feb 21;7:15. doi: 10.1186/1752-0509-7-15.

39.

Preanalytical aspects and sample quality assessment in metabolomics studies of human blood.

Yin P, Peter A, Franken H, Zhao X, Neukamm SS, Rosenbaum L, Lucio M, Zell A, Häring HU, Xu G, Lehmann R.

Clin Chem. 2013 May;59(5):833-45. doi: 10.1373/clinchem.2012.199257. Epub 2013 Feb 5.

40.

InCroMAP: integrated analysis of cross-platform microarray and pathway data.

Wrzodek C, Eichner J, Büchel F, Zell A.

Bioinformatics. 2013 Feb 15;29(4):506-8. doi: 10.1093/bioinformatics/bts709. Epub 2012 Dec 20.

41.

Identification of Dlk1-Dio3 imprinted gene cluster noncoding RNAs as novel candidate biomarkers for liver tumor promotion.

Lempiäinen H, Couttet P, Bolognani F, Müller A, Dubost V, Luisier R, Del Rio Espinola A, Vitry V, Unterberger EB, Thomson JP, Treindl F, Metzger U, Wrzodek C, Hahne F, Zollinger T, Brasa S, Kalteis M, Marcellin M, Giudicelli F, Braeuning A, Morawiec L, Zamurovic N, Längle U, Scheer N, Schübeler D, Goodman J, Chibout SD, Marlowe J, Theil D, Heard DJ, Grenet O, Zell A, Templin MF, Meehan RR, Wolf RC, Elcombe CR, Schwarz M, Moulin P, Terranova R, Moggs JG.

Toxicol Sci. 2013 Feb;131(2):375-86. doi: 10.1093/toxsci/kfs303. Epub 2012 Oct 22.

PMID:
23091169
42.

Pathway-based visualization of cross-platform microarray datasets.

Wrzodek C, Eichner J, Zell A.

Bioinformatics. 2012 Dec 1;28(23):3021-6. doi: 10.1093/bioinformatics/bts583. Epub 2012 Oct 9.

PMID:
23047564
43.

Qualitative translation of relations from BioPAX to SBML qual.

Büchel F, Wrzodek C, Mittag F, Dräger A, Eichner J, Rodriguez N, Le Novère N, Zell A.

Bioinformatics. 2012 Oct 15;28(20):2648-53. doi: 10.1093/bioinformatics/bts508. Epub 2012 Aug 24.

44.

Use of support vector machines for disease risk prediction in genome-wide association studies: concerns and opportunities.

Mittag F, Büchel F, Saad M, Jahn A, Schulte C, Bochdanovits Z, Simón-Sánchez J, Nalls MA, Keller M, Hernandez DG, Gibbs JR, Lesage S, Brice A, Heutink P, Martinez M, Wood NW, Hardy J, Singleton AB, Zell A, Gasser T, Sharma M; International Parkinson’s Disease Genomics Consortium.

Hum Mutat. 2012 Dec;33(12):1708-18. doi: 10.1002/humu.22161. Epub 2012 Aug 3.

45.

Linking the epigenome to the genome: correlation of different features to DNA methylation of CpG islands.

Wrzodek C, Büchel F, Hinselmann G, Eichner J, Mittag F, Zell A.

PLoS One. 2012;7(4):e35327. doi: 10.1371/journal.pone.0035327. Epub 2012 Apr 30.

46.

TDP-43 regulates global translational yield by splicing of exon junction complex component SKAR.

Fiesel FC, Weber SS, Supper J, Zell A, Kahle PJ.

Nucleic Acids Res. 2012 Mar;40(6):2668-82. doi: 10.1093/nar/gkr1082. Epub 2011 Nov 25.

47.

Genomics of ADME gene expression: mapping expression quantitative trait loci relevant for absorption, distribution, metabolism and excretion of drugs in human liver.

Schröder A, Klein K, Winter S, Schwab M, Bonin M, Zell A, Zanger UM.

Pharmacogenomics J. 2013 Feb;13(1):12-20. doi: 10.1038/tpj.2011.44. Epub 2011 Oct 18.

48.

Inferring statin-induced gene regulatory relationships in primary human hepatocytes.

Schröder A, Wollnik J, Wrzodek C, Dräger A, Bonin M, Burk O, Thomas M, Thasler WE, Zanger UM, Zell A.

Bioinformatics. 2011 Sep 15;27(18):2473-7. doi: 10.1093/bioinformatics/btr416. Epub 2011 Jul 14.

PMID:
21757465
49.

4D Flexible Atom-Pairs: An efficient probabilistic conformational space comparison for ligand-based virtual screening.

Jahn A, Rosenbaum L, Hinselmann G, Zell A.

J Cheminform. 2011 Jul 6;3(1):23. doi: 10.1186/1758-2946-3-23.

50.

KEGGtranslator: visualizing and converting the KEGG PATHWAY database to various formats.

Wrzodek C, Dräger A, Zell A.

Bioinformatics. 2011 Aug 15;27(16):2314-5. doi: 10.1093/bioinformatics/btr377. Epub 2011 Jun 23.

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