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Items: 1 to 50 of 91

1.

GRUU-Net: Integrated convolutional and gated recurrent neural network for cell segmentation.

Wollmann T, Gunkel M, Chung I, Erfle H, Rippe K, Rohr K.

Med Image Anal. 2019 Aug;56:68-79. doi: 10.1016/j.media.2019.04.011. Epub 2019 May 31.

PMID:
31200289
2.

Hyperparameter optimization for image analysis: application to prostate tissue images and live cell data of virus-infected cells.

Ritter C, Wollmann T, Bernhard P, Gunkel M, Braun DM, Lee JY, Meiners J, Simon R, Sauter G, Erfle H, Rippe K, Bartenschlager R, Rohr K.

Int J Comput Assist Radiol Surg. 2019 Jun 8. doi: 10.1007/s11548-019-02010-3. [Epub ahead of print]

PMID:
31177423
3.

Reciprocal Effects of Fibroblast Growth Factor Receptor Signaling on Dengue Virus Replication and Virion Production.

Cortese M, Kumar A, Matula P, Kaderali L, Scaturro P, Erfle H, Acosta EG, Buehler S, Ruggieri A, Chatel-Chaix L, Rohr K, Bartenschlager R.

Cell Rep. 2019 May 28;27(9):2579-2592.e6. doi: 10.1016/j.celrep.2019.04.105.

4.

High-Density Cell Arrays for Genome-Scale Phenotypic Screening.

Starkuviene V, Kallenberger SM, Beil N, Lisauskas T, Schumacher BS, Bulkescher R, Wajda P, Gunkel M, Beneke J, Erfle H.

SLAS Discov. 2019 Mar;24(3):274-283. doi: 10.1177/2472555218818757. Epub 2019 Jan 25.

PMID:
30682322
5.

Systematic RNA-interference in primary human monocyte-derived macrophages: A high-throughput platform to study foam cell formation.

Domschke G, Linden F, Pawig L, Hafner A, Akhavanpoor M, Reymann J, Doesch AO, Erbel C, Weber C, Katus HA, Noels H, Erfle H, Gleissner CA, Runz H.

Sci Rep. 2018 Jul 12;8(1):10516. doi: 10.1038/s41598-018-28790-3.

6.

Comparison of Cell Arrays and Multi-Well Plates in Microscopy-Based Screening.

Becker AK, Erfle H, Gunkel M, Beil N, Kaderali L, Starkuviene V.

High Throughput. 2018 May 15;7(2). pii: E13. doi: 10.3390/ht7020013.

7.

Fully Automated Targeted Confocal and Single-Molecule Localization Microscopy.

Eberle JP, Muranyi W, Erfle H, Gunkel M.

Methods Mol Biol. 2017;1663:139-152. doi: 10.1007/978-1-4939-7265-4_12.

PMID:
28924665
8.

Super-Resolution Microscopy Techniques and Their Potential for Applications in Radiation Biophysics.

Eberle JP, Rapp A, Krufczik M, Eryilmaz M, Gunkel M, Erfle H, Hausmann M.

Methods Mol Biol. 2017;1663:1-13. doi: 10.1007/978-1-4939-7265-4_1.

PMID:
28924654
9.

Solid-phase reverse transfection for intracellular delivery of functionally active proteins.

Bulkescher R, Starkuviene V, Erfle H.

Genome Res. 2017 Oct;27(10):1752-1758. doi: 10.1101/gr.215103.116. Epub 2017 Sep 5.

10.

Workflows for microscopy image analysis and cellular phenotyping.

Wollmann T, Erfle H, Eils R, Rohr K, Gunkel M.

J Biotechnol. 2017 Nov 10;261:70-75. doi: 10.1016/j.jbiotec.2017.07.019. Epub 2017 Jul 27. Review.

PMID:
28757289
11.

Dicer and microRNAs protect adult dopamine neurons.

Chmielarz P, Konovalova J, Najam SS, Alter H, Piepponen TP, Erfle H, Sonntag KC, Schütz G, Vinnikov IA, Domanskyi A.

Cell Death Dis. 2017 May 25;8(5):e2813. doi: 10.1038/cddis.2017.214.

12.

The long non-coding RNA LINC00152 is essential for cell cycle progression through mitosis in HeLa cells.

Nötzold L, Frank L, Gandhi M, Polycarpou-Schwarz M, Groß M, Gunkel M, Beil N, Erfle H, Harder N, Rohr K, Trendel J, Krijgsveld J, Longerich T, Schirmacher P, Boutros M, Erhardt S, Diederichs S.

Sci Rep. 2017 May 23;7(1):2265. doi: 10.1038/s41598-017-02357-0.

13.

Fluorescence-Based High-Throughput and Targeted Image Acquisition and Analysis for Phenotypic Screening.

Gunkel M, Eberle JP, Erfle H.

Methods Mol Biol. 2017;1563:269-280. doi: 10.1007/978-1-4939-6810-7_17.

PMID:
28324614
14.

Phosphorylation-Dependent Feedback Inhibition of RIG-I by DAPK1 Identified by Kinome-wide siRNA Screening.

Willemsen J, Wicht O, Wolanski JC, Baur N, Bastian S, Haas DA, Matula P, Knapp B, Meyniel-Schicklin L, Wang C, Bartenschlager R, Lohmann V, Rohr K, Erfle H, Kaderali L, Marcotrigiano J, Pichlmair A, Binder M.

Mol Cell. 2017 Feb 2;65(3):403-415.e8. doi: 10.1016/j.molcel.2016.12.021. Epub 2017 Jan 26.

15.

Quantification of telomere features in tumor tissue sections by an automated 3D imaging-based workflow.

Gunkel M, Chung I, Wörz S, Deeg KI, Simon R, Sauter G, Jones DTW, Korshunov A, Rohr K, Erfle H, Rippe K.

Methods. 2017 Feb 1;114:60-73. doi: 10.1016/j.ymeth.2016.09.014. Epub 2016 Oct 7.

PMID:
27725304
16.

High-Content Analysis of the Golgi Complex by Correlative Screening Microscopy.

Gunkel M, Erfle H, Starkuviene V.

Methods Mol Biol. 2016;1496:111-21. doi: 10.1007/978-1-4939-6463-5_9.

PMID:
27632005
17.

High-Throughput RNAi Screening Identifies a Role for the Osteopontin Pathway in Proliferation and Migration of Human Aortic Smooth Muscle Cells.

Zhang L, Erfle H, Harder N, Beneke J, Beil N, Bulkescher R, Rohr K, Keese M.

Cardiovasc Drugs Ther. 2016 Jun;30(3):281-95. doi: 10.1007/s10557-016-6663-4.

PMID:
27095116
18.

The SUMOylation Pathway Restricts Gene Transduction by Adeno-Associated Viruses.

Hölscher C, Sonntag F, Henrich K, Chen Q, Beneke J, Matula P, Rohr K, Kaderali L, Beil N, Erfle H, Kleinschmidt JA, Müller M.

PLoS Pathog. 2015 Dec 1;11(12):e1005281. doi: 10.1371/journal.ppat.1005281. eCollection 2015 Dec.

19.

PML induces compaction, TRF2 depletion and DNA damage signaling at telomeres and promotes their alternative lengthening.

Osterwald S, Deeg KI, Chung I, Parisotto D, Wörz S, Rohr K, Erfle H, Rippe K.

J Cell Sci. 2015 May 15;128(10):1887-900. doi: 10.1242/jcs.148296. Epub 2015 Apr 23.

20.

Targeting mitosis-regulating genes in cisplatin-sensitive and -resistant melanoma cells: A live-cell RNAi screen displays differential nucleus-derived phenotypes.

Erfle H, Pashayeva K, Harder N, Zhang L, Rohr K, Schadendorf D, Ugurel S, Keese M.

Biotechnol J. 2015 Sep;10(9):1467-77. doi: 10.1002/biot.201400501. Epub 2015 May 5.

PMID:
25880279
21.

Identification of HNRNPK as regulator of hepatitis C virus particle production.

Poenisch M, Metz P, Blankenburg H, Ruggieri A, Lee JY, Rupp D, Rebhan I, Diederich K, Kaderali L, Domingues FS, Albrecht M, Lohmann V, Erfle H, Bartenschlager R.

PLoS Pathog. 2015 Jan 8;11(1):e1004573. doi: 10.1371/journal.ppat.1004573. eCollection 2015 Jan.

22.

A direct role for ATP1A1 in unconventional secretion of fibroblast growth factor 2.

Zacherl S, La Venuta G, Müller HM, Wegehingel S, Dimou E, Sehr P, Lewis JD, Erfle H, Pepperkok R, Nickel W.

J Biol Chem. 2015 Feb 6;290(6):3654-65. doi: 10.1074/jbc.M114.590067. Epub 2014 Dec 22.

23.

The catalytically inactive tyrosine phosphatase HD-PTP/PTPN23 is a novel regulator of SMN complex localization.

Husedzinovic A, Neumann B, Reymann J, Draeger-Meurer S, Chari A, Erfle H, Fischer U, Gruss OJ.

Mol Biol Cell. 2015 Jan 15;26(2):161-71. doi: 10.1091/mbc.E14-06-1151. Epub 2014 Nov 12.

24.

Fluorescence microscopy-based RNA interference screening.

Gunkel M, Beil N, Beneke J, Reymann J, Erfle H.

Methods Mol Biol. 2015;1251:59-66. doi: 10.1007/978-1-4939-2080-8_4.

PMID:
25391794
25.

Terminally modified, short phosphorothioate oligonucleotides as inhibitors of gene expression in cells.

Marzenell P, Hagen H, Blechinger J, Erfle H, Mokhir A.

Bioorg Med Chem Lett. 2014 Oct 1;24(19):4694-4698. doi: 10.1016/j.bmcl.2014.08.027. Epub 2014 Aug 15.

PMID:
25176331
26.

Hypothalamic miR-103 protects from hyperphagic obesity in mice.

Vinnikov IA, Hajdukiewicz K, Reymann J, Beneke J, Czajkowski R, Roth LC, Novak M, Roller A, Dörner N, Starkuviene V, Theis FJ, Erfle H, Schütz G, Grinevich V, Konopka W.

J Neurosci. 2014 Aug 6;34(32):10659-74. doi: 10.1523/JNEUROSCI.4251-13.2014.

27.

An RNAi screen identifies KIF15 as a novel regulator of the endocytic trafficking of integrin.

Eskova A, Knapp B, Matelska D, Reusing S, Arjonen A, Lisauskas T, Pepperkok R, Russell R, Eils R, Ivaska J, Kaderali L, Erfle H, Starkuviene V.

J Cell Sci. 2014 Jun 1;127(Pt 11):2433-47. doi: 10.1242/jcs.137281. Epub 2014 Mar 21.

28.

Integrated and correlative high-throughput and super-resolution microscopy.

Gunkel M, Flottmann B, Heilemann M, Reymann J, Erfle H.

Histochem Cell Biol. 2014 Jun;141(6):597-603. doi: 10.1007/s00418-014-1209-y. Epub 2014 Mar 20.

PMID:
24647616
29.

Correlative light microscopy for high-content screening.

Flottmann B, Gunkel M, Lisauskas T, Heilemann M, Starkuviene V, Reymann J, Erfle H.

Biotechniques. 2013 Nov;55(5):243-52. doi: 10.2144/000114099.

30.

Robust RNAi enhancement via human Argonaute-2 overexpression from plasmids, viral vectors and cell lines.

Börner K, Niopek D, Cotugno G, Kaldenbach M, Pankert T, Willemsen J, Zhang X, Schürmann N, Mockenhaupt S, Serva A, Hiet MS, Wiedtke E, Castoldi M, Starkuviene V, Erfle H, Gilbert DF, Bartenschlager R, Boutros M, Binder M, Streetz K, Kräusslich HG, Grimm D.

Nucleic Acids Res. 2013 Nov;41(21):e199. doi: 10.1093/nar/gkt836. Epub 2013 Sep 17.

31.

Short, terminally modified 2'-OMe RNAs as inhibitors of microRNA.

Blechinger J, Pieper H, Marzenell P, Kovbasyuk L, Serva A, Starkuviene V, Erfle H, Mokhir A.

Chem Commun (Camb). 2013 Aug 28;49(67):7397-9. doi: 10.1039/c3cc43174f.

PMID:
23863995
32.

The microtubule affinity regulating kinase MARK4 promotes axoneme extension during early ciliogenesis.

Kuhns S, Schmidt KN, Reymann J, Gilbert DF, Neuner A, Hub B, Carvalho R, Wiedemann P, Zentgraf H, Erfle H, Klingmüller U, Boutros M, Pereira G.

J Cell Biol. 2013 Feb 18;200(4):505-22. doi: 10.1083/jcb.201206013. Epub 2013 Feb 11.

33.

miR-17-5p regulates endocytic trafficking through targeting TBC1D2/Armus.

Serva A, Knapp B, Tsai YT, Claas C, Lisauskas T, Matula P, Harder N, Kaderali L, Rohr K, Erfle H, Eils R, Braga V, Starkuviene V.

PLoS One. 2012;7(12):e52555. doi: 10.1371/journal.pone.0052555. Epub 2012 Dec 20.

34.

The first World Cell Race.

Maiuri P, Terriac E, Paul-Gilloteaux P, Vignaud T, McNally K, Onuffer J, Thorn K, Nguyen PA, Georgoulia N, Soong D, Jayo A, Beil N, Beneke J, Lim JC, Sim CP, Chu YS; WCR participants, Jiménez-Dalmaroni A, Joanny JF, Thiery JP, Erfle H, Parsons M, Mitchison TJ, Lim WA, Lennon-Duménil AM, Piel M, Théry M.

Curr Biol. 2012 Sep 11;22(17):R673-5. doi: 10.1016/j.cub.2012.07.052. No abstract available. Erratum in: Curr Biol. 2013 Jan 7;23(1):97.

35.

Genome-wide RNAi screening identifies human proteins with a regulatory function in the early secretory pathway.

Simpson JC, Joggerst B, Laketa V, Verissimo F, Cetin C, Erfle H, Bexiga MG, Singan VR, Hériché JK, Neumann B, Mateos A, Blake J, Bechtel S, Benes V, Wiemann S, Ellenberg J, Pepperkok R.

Nat Cell Biol. 2012 Jun 3;14(7):764-74. doi: 10.1038/ncb2510.

PMID:
22660414
36.

Normalizing for individual cell population context in the analysis of high-content cellular screens.

Knapp B, Rebhan I, Kumar A, Matula P, Kiani NA, Binder M, Erfle H, Rohr K, Eils R, Bartenschlager R, Kaderali L.

BMC Bioinformatics. 2011 Dec 20;12:485. doi: 10.1186/1471-2105-12-485.

37.

Live-cell assays to identify regulators of ER-to-Golgi trafficking.

Lisauskas T, Matula P, Claas C, Reusing S, Wiemann S, Erfle H, Lehmann L, Fischer P, Eils R, Rohr K, Storrie B, Starkuviene V.

Traffic. 2012 Mar;13(3):416-32. doi: 10.1111/j.1600-0854.2011.01318.x. Epub 2012 Jan 3.

38.

Cell arrays and high-content screening.

Erfle H, Eskova A, Reymann J, Starkuviene V.

Methods Mol Biol. 2011;785:277-87. doi: 10.1007/978-1-61779-286-1_19.

PMID:
21901607
39.

Phenotypic profiling of the human genome reveals gene products involved in plasma membrane targeting of SRC kinases.

Ritzerfeld J, Remmele S, Wang T, Temmerman K, Brügger B, Wegehingel S, Tournaviti S, Strating JR, Wieland FT, Neumann B, Ellenberg J, Lawerenz C, Hesser J, Erfle H, Pepperkok R, Nickel W.

Genome Res. 2011 Nov;21(11):1955-68. doi: 10.1101/gr.116087.110. Epub 2011 Jul 27.

40.

A three-dimensional colocalization RNA interference screening platform to elucidate the alternative lengthening of telomeres pathway.

Osterwald S, Wörz S, Reymann J, Sieckmann F, Rohr K, Erfle H, Rippe K.

Biotechnol J. 2012 Jan;7(1):103-16. doi: 10.1002/biot.201000474. Epub 2011 Jun 7.

PMID:
21648092
41.

Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment.

Reiss S, Rebhan I, Backes P, Romero-Brey I, Erfle H, Matula P, Kaderali L, Poenisch M, Blankenburg H, Hiet MS, Longerich T, Diehl S, Ramirez F, Balla T, Rohr K, Kaul A, Bühler S, Pepperkok R, Lengauer T, Albrecht M, Eils R, Schirmacher P, Lohmann V, Bartenschlager R.

Cell Host Microbe. 2011 Jan 20;9(1):32-45. doi: 10.1016/j.chom.2010.12.002.

42.

Cell arrays for the measurement of organelle dynamics in living cells.

Erfle H, Lisauskas T, Claas C, Reymann J, Starkuviene V.

Methods Mol Biol. 2011;706:73-81. doi: 10.1007/978-1-61737-970-3_6.

PMID:
21104055
43.

Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes.

Neumann B, Walter T, Hériché JK, Bulkescher J, Erfle H, Conrad C, Rogers P, Poser I, Held M, Liebel U, Cetin C, Sieckmann F, Pau G, Kabbe R, Wünsche A, Satagopam V, Schmitz MH, Chapuis C, Gerlich DW, Schneider R, Eils R, Huber W, Peters JM, Hyman AA, Durbin R, Pepperkok R, Ellenberg J.

Nature. 2010 Apr 1;464(7289):721-7. doi: 10.1038/nature08869.

44.

Tec-kinase-mediated phosphorylation of fibroblast growth factor 2 is essential for unconventional secretion.

Ebert AD, Laussmann M, Wegehingel S, Kaderali L, Erfle H, Reichert J, Lechner J, Beer HD, Pepperkok R, Nickel W.

Traffic. 2010 Jun;11(6):813-26. doi: 10.1111/j.1600-0854.2010.01059.x. Epub 2010 Mar 10.

45.

From experimental setup to bioinformatics: an RNAi screening platform to identify host factors involved in HIV-1 replication.

Börner K, Hermle J, Sommer C, Brown NP, Knapp B, Glass B, Kunkel J, Torralba G, Reymann J, Beil N, Beneke J, Pepperkok R, Schneider R, Ludwig T, Hausmann M, Hamprecht F, Erfle H, Kaderali L, Kräusslich HG, Lehmann MJ.

Biotechnol J. 2010 Jan;5(1):39-49. doi: 10.1002/biot.200900226.

PMID:
20013946
46.

Next-generation 9216-microwell cell arrays for high-content screening microscopy.

Reymann J, Beil N, Beneke J, Kaletta PP, Burkert K, Erfle H.

Biotechniques. 2009 Oct;47(4):877-8. doi: 10.2144/000113251.

47.

Identification of cholesterol-regulating genes by targeted RNAi screening.

Bartz F, Kern L, Erz D, Zhu M, Gilbert D, Meinhof T, Wirkner U, Erfle H, Muckenthaler M, Pepperkok R, Runz H.

Cell Metab. 2009 Jul;10(1):63-75. doi: 10.1016/j.cmet.2009.05.009.

48.

A systems biology approach to identify the combination effects of human herpesvirus 8 genes on NF-kappaB activation.

Konrad A, Wies E, Thurau M, Marquardt G, Naschberger E, Hentschel S, Jochmann R, Schulz TF, Erfle H, Brors B, Lausen B, Neipel F, Stürzl M.

J Virol. 2009 Mar;83(6):2563-74. doi: 10.1128/JVI.01512-08. Epub 2009 Jan 7.

49.

Measuring secretory membrane traffic: a quantitative fluorescence microscopy approach.

Starkuviene V, Seitz A, Erfle H, Pepperkok R.

Methods Mol Biol. 2008;457:193-201.

PMID:
19066028
50.

Single-cell-based image analysis of high-throughput cell array screens for quantification of viral infection.

Matula P, Kumar A, Wörz I, Erfle H, Bartenschlager R, Eils R, Rohr K.

Cytometry A. 2009 Apr;75(4):309-18. doi: 10.1002/cyto.a.20662.

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