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Items: 27

1.

TT-seq captures enhancer landscapes immediately after T-cell stimulation.

Michel M, Demel C, Zacher B, Schwalb B, Krebs S, Blum H, Gagneur J, Cramer P.

Mol Syst Biol. 2017 Mar 7;13(3):920. doi: 10.15252/msb.20167507.

2.

Accurate Promoter and Enhancer Identification in 127 ENCODE and Roadmap Epigenomics Cell Types and Tissues by GenoSTAN.

Zacher B, Michel M, Schwalb B, Cramer P, Tresch A, Gagneur J.

PLoS One. 2017 Jan 5;12(1):e0169249. doi: 10.1371/journal.pone.0169249. eCollection 2017.

3.

TT-seq maps the human transient transcriptome.

Schwalb B, Michel M, Zacher B, Frühauf K, Demel C, Tresch A, Gagneur J, Cramer P.

Science. 2016 Jun 3;352(6290):1225-8. doi: 10.1126/science.aad9841.

4.

Simultaneous characterization of sense and antisense genomic processes by the double-stranded hidden Markov model.

Glas J, Dümcke S, Zacher B, Poron D, Gagneur J, Tresch A.

Nucleic Acids Res. 2016 Mar 18;44(5):e44. doi: 10.1093/nar/gkv1184. Epub 2015 Nov 17.

5.

Annotation of genomics data using bidirectional hidden Markov models unveils variations in Pol II transcription cycle.

Zacher B, Lidschreiber M, Cramer P, Gagneur J, Tresch A.

Mol Syst Biol. 2014 Dec 19;10:768. doi: 10.15252/msb.20145654.

6.

Scanning electrochemical microscopy of individual catalytic nanoparticles.

Sun T, Yu Y, Zacher BJ, Mirkin MV.

Angew Chem Int Ed Engl. 2014 Dec 15;53(51):14120-3. doi: 10.1002/anie.201408408. Epub 2014 Oct 21.

PMID:
25332196
7.

Hepatitis B virus DNA quantification with the three-in-one (3io) method allows accurate single-step differentiation of total HBV DNA and cccDNA in biopsy-size liver samples.

Taranta A, Tien Sy B, Zacher BJ, Rogalska-Taranta M, Manns MP, Bock CT, Wursthorn K.

J Clin Virol. 2014 Aug;60(4):354-60. doi: 10.1016/j.jcv.2014.04.015. Epub 2014 May 2.

PMID:
24890819
8.

Increased HEV seroprevalence in patients with autoimmune hepatitis.

Pischke S, Gisa A, Suneetha PV, Wiegand SB, Taubert R, Schlue J, Wursthorn K, Bantel H, Raupach R, Bremer B, Zacher BJ, Schmidt RE, Manns MP, Rifai K, Witte T, Wedemeyer H.

PLoS One. 2014 Jan 21;9(1):e85330. doi: 10.1371/journal.pone.0085330. eCollection 2014.

9.

Organic Solar Cells-At the Interface.

Zacher B, Gantz JL, Richards RE, Armstrong NR.

J Phys Chem Lett. 2013 Jun 6;4(11):1949-52. doi: 10.1021/jz4009932. No abstract available.

PMID:
26283132
10.

Global DNA hypomethylation prevents consolidation of differentiation programs and allows reversion to the embryonic stem cell state.

Schmidt CS, Bultmann S, Meilinger D, Zacher B, Tresch A, Maier KC, Peter C, Martin DE, Leonhardt H, Spada F.

PLoS One. 2012;7(12):e52629. doi: 10.1371/journal.pone.0052629. Epub 2012 Dec 27.

11.

Improved immune status corresponds with long-term decline of quantitative serum hepatitis B surface antigen in HBV/HIV co-infected patients.

Arendt E, Jaroszewicz J, Rockstroh J, Meyer-Olson D, Zacher BJ, Mederacke I, Manns MP, Wedemeyer H, Cornberg M, Wursthorn K.

Viral Immunol. 2012 Dec;25(6):442-7. doi: 10.1089/vim.2012.0036. Epub 2012 Nov 6.

PMID:
23131018
12.

Modelling and simulating generic RNA-Seq experiments with the flux simulator.

Griebel T, Zacher B, Ribeca P, Raineri E, Lacroix V, Guigó R, Sammeth M.

Nucleic Acids Res. 2012 Nov 1;40(20):10073-83. doi: 10.1093/nar/gks666. Epub 2012 Sep 7.

13.

HBeAg-positive hepatitis delta: virological patterns and clinical long-term outcome.

Heidrich B, Serrano BC, Idilman R, Kabaçam G, Bremer B, Raupach R, Önder FO, Deterding K, Zacher BJ, Taranta A, Bozkaya H, Zachou K, Tillmann HL, Bozdayi AM, Manns MP, Yurdaydın C, Wedemeyer H.

Liver Int. 2012 Oct;32(9):1415-25. doi: 10.1111/j.1478-3231.2012.02831.x. Epub 2012 Jun 20.

PMID:
22716112
14.

Joint Bayesian inference of condition-specific miRNA and transcription factor activities from combined gene and microRNA expression data.

Zacher B, Abnaof K, Gade S, Younesi E, Tresch A, Fröhlich H.

Bioinformatics. 2012 Jul 1;28(13):1714-20. doi: 10.1093/bioinformatics/bts257. Epub 2012 May 4.

PMID:
22563068
15.

Ectopic expression of murine CD47 minimizes macrophage rejection of human hepatocyte xenografts in immunodeficient mice.

Waern JM, Yuan Q, Rüdrich U, Becker PD, Schulze K, Strick-Marchand H, Huntington ND, Zacher BJ, Wursthorn K, DiSanto JP, Guzman CA, Manns MP, Ott M, Bock M.

Hepatology. 2012 Oct;56(4):1479-88. doi: 10.1002/hep.25816.

PMID:
22535707
16.

Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA).

Schwalb B, Schulz D, Sun M, Zacher B, Dümcke S, Martin DE, Cramer P, Tresch A.

Bioinformatics. 2012 Mar 15;28(6):884-5. doi: 10.1093/bioinformatics/bts052. Epub 2012 Jan 28.

PMID:
22285829
17.

Multicenter evaluation of the Elecsys hepatitis B surface antigen quantitative assay.

Zacher BJ, Moriconi F, Bowden S, Hammond R, Louisirirotchanakul S, Phisalprapa P, Tanwandee T, Wursthorn K, Brunetto MR, Wedemeyer H, Bonino F.

Clin Vaccine Immunol. 2011 Nov;18(11):1943-50. doi: 10.1128/CVI.05122-11. Epub 2011 Aug 31.

18.

Rapid early HDV RNA decline in the peripheral blood but prolonged intrahepatic hepatitis delta antigen persistence after liver transplantation.

Mederacke I, Filmann N, Yurdaydin C, Bremer B, Puls F, Zacher BJ, Heidrich B, Tillmann HL, Rosenau J, Bock CT, Savas B, Helfritz F, Lehner F, Strassburg CP, Klempnauer J, Wursthorn K, Lehmann U, Manns MP, Herrmann E, Wedemeyer H.

J Hepatol. 2012 Jan;56(1):115-22. doi: 10.1016/j.jhep.2011.06.016. Epub 2011 Jul 14.

PMID:
21762665
19.

Selective Interlayers and Contacts in Organic Photovoltaic Cells.

Ratcliff EL, Zacher B, Armstrong NR.

J Phys Chem Lett. 2011 Jun 2;2(11):1337-50. doi: 10.1021/jz2002259. Epub 2011 May 23.

PMID:
26295432
20.

Analysis of Affymetrix ChIP-chip data using starr and R/Bioconductor.

Zacher B, Torkler P, Tresch A.

Cold Spring Harb Protoc. 2011 May 1;2011(5):pdb.top110. doi: 10.1101/pdb.top110.

PMID:
21536772
21.

Correlation between the Elecsys HBsAg II assay and the Architect assay for the quantification of hepatitis B surface antigen (HBsAg) in the serum.

Wursthorn K, Jaroszewicz J, Zacher BJ, Darnedde M, Raupach R, Mederacke I, Cornberg M, Manns MP, Wedemeyer H.

J Clin Virol. 2011 Apr;50(4):292-6. doi: 10.1016/j.jcv.2010.12.008. Epub 2011 Jan 26.

PMID:
21273117
22.

Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast.

Miller C, Schwalb B, Maier K, Schulz D, Dümcke S, Zacher B, Mayer A, Sydow J, Marcinowski L, Dölken L, Martin DE, Tresch A, Cramer P.

Mol Syst Biol. 2011 Jan 4;7:458. doi: 10.1038/msb.2010.112.

23.

Development of a protocol for the quantitative determination of HBeAg using the Elecsys® HBeAg immunoassay.

Wursthorn K, Zacher BJ, Jaroszewicz J, Darnedde M, Manns M, Wedemeyer H.

J Viral Hepat. 2011 Jul;18(7):e179-83. doi: 10.1111/j.1365-2893.2010.01419.x. Epub 2010 Dec 30.

PMID:
21199189
24.

Starr: Simple Tiling ARRay analysis of Affymetrix ChIP-chip data.

Zacher B, Kuan PF, Tresch A.

BMC Bioinformatics. 2010 Apr 17;11:194. doi: 10.1186/1471-2105-11-194.

25.

Photoemission spectroscopy of tethered CdSe nanocrystals: shifts in ionization potential and local vacuum level as a function of nanocrystal capping ligand.

Munro AM, Zacher B, Graham A, Armstrong NR.

ACS Appl Mater Interfaces. 2010 Mar;2(3):863-9. doi: 10.1021/am900834y.

PMID:
20356292
26.

A planar, chip-based, dual-beam refractometer using an integrated organic light-emitting diode (OLED) light source and organic photovoltaic (OPV) detectors.

Ratcliff EL, Veneman PA, Simmonds A, Zacher B, Huebner D, Saavedra SS, Armstrong NR.

Anal Chem. 2010 Apr 1;82(7):2734-42. doi: 10.1021/ac9026109.

27.

Evaluation of bacterial polysaccharide immune globulin for the treatment or prevention of Haemophilus influenzae type b and pneumococcal disease.

Siber GR, Thompson C, Reid GR, Almeido-Hill J, Zacher B, Wolff M, Santosham M.

J Infect Dis. 1992 Jun;165 Suppl 1:S129-33. Review.

PMID:
1588146

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