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Items: 1 to 50 of 193

1.

DNA accessibility of chromatosomes quantified by automated image analysis of AFM data.

Würtz M, Aumiller D, Gundelwein L, Jung P, Schütz C, Lehmann K, Tóth K, Rohr K.

Sci Rep. 2019 Sep 4;9(1):12788. doi: 10.1038/s41598-019-49163-4.

2.

Globally optimal segmentation of cell nuclei in fluorescence microscopy images using shape and intensity information.

Kostrykin L, Schnörr C, Rohr K.

Med Image Anal. 2019 Jul 19;58:101536. doi: 10.1016/j.media.2019.101536. [Epub ahead of print]

PMID:
31369995
3.

Biomarkers of extracellular matrix turnover in patients with idiopathic pulmonary fibrosis given nintedanib (INMARK study): a randomised, placebo-controlled study.

Maher TM, Stowasser S, Nishioka Y, White ES, Cottin V, Noth I, Selman M, Rohr KB, Michael A, Ittrich C, Diefenbach C, Jenkins RG; INMARK trial investigators.

Lancet Respir Med. 2019 Sep;7(9):771-779. doi: 10.1016/S2213-2600(19)30255-3. Epub 2019 Jul 17.

PMID:
31326319
4.

Spatiotemporal Coupling of the Hepatitis C Virus Replication Cycle by Creating a Lipid Droplet- Proximal Membranous Replication Compartment.

Lee JY, Cortese M, Haselmann U, Tabata K, Romero-Brey I, Funaya C, Schieber NL, Qiang Y, Bartenschlager M, Kallis S, Ritter C, Rohr K, Schwab Y, Ruggieri A, Bartenschlager R.

Cell Rep. 2019 Jun 18;27(12):3602-3617.e5. doi: 10.1016/j.celrep.2019.05.063.

5.

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
6.

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
7.

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.

8.

Experimental and computational analyses reveal that environmental restrictions shape HIV-1 spread in 3D cultures.

Imle A, Kumberger P, Schnellbächer ND, Fehr J, Carrillo-Bustamante P, Ales J, Schmidt P, Ritter C, Godinez WJ, Müller B, Rohr K, Hamprecht FA, Schwarz US, Graw F, Fackler OT.

Nat Commun. 2019 May 13;10(1):2144. doi: 10.1038/s41467-019-09879-3.

9.

Determination of the Maximum Velocity of Filaments in the in vitro Motility Assay.

Bopp N, Scheid LM, Fink RHA, Rohr K.

Front Physiol. 2019 Mar 27;10:289. doi: 10.3389/fphys.2019.00289. eCollection 2019.

10.

Combined automated 3D volumetry by pulmonary CT angiography and echocardiography for detection of pulmonary hypertension.

Melzig C, Wörz S, Egenlauf B, Partovi S, Rohr K, Grünig E, Kauczor HU, Heussel CP, Rengier F.

Eur Radiol. 2019 Apr 8. doi: 10.1007/s00330-019-06188-7. [Epub ahead of print]

PMID:
30963276
11.

Predicting breast tumor proliferation from whole-slide images: The TUPAC16 challenge.

Veta M, Heng YJ, Stathonikos N, Bejnordi BE, Beca F, Wollmann T, Rohr K, Shah MA, Wang D, Rousson M, Hedlund M, Tellez D, Ciompi F, Zerhouni E, Lanyi D, Viana M, Kovalev V, Liauchuk V, Phoulady HA, Qaiser T, Graham S, Rajpoot N, Sjöblom E, Molin J, Paeng K, Hwang S, Park S, Jia Z, Chang EI, Xu Y, Beck AH, van Diest PJ, Pluim JPW.

Med Image Anal. 2019 May;54:111-121. doi: 10.1016/j.media.2019.02.012. Epub 2019 Feb 27. Erratum in: Med Image Anal. 2019 Aug;56:43.

PMID:
30861443
12.

A Global Method for Non-Rigid Registration of Cell Nuclei in Live Cell Time-Lapse Images.

Gao Q, Rohr K.

IEEE Trans Med Imaging. 2019 Oct;38(10):2259-2270. doi: 10.1109/TMI.2019.2901918. Epub 2019 Feb 27.

PMID:
30835217
13.

Circuit development in the master clock network of mammals.

Carmona-Alcocer V, Rohr KE, Joye DAM, Evans JA.

Eur J Neurosci. 2018 Nov 6. doi: 10.1111/ejn.14259. [Epub ahead of print] Review.

PMID:
30402923
14.

Personalized stent design for congenital heart defects using pulsatile blood flow simulations.

Gundelwein L, Miró J, Gonzalez Barlatay F, Lapierre C, Rohr K, Duong L.

J Biomech. 2018 Nov 16;81:68-75. doi: 10.1016/j.jbiomech.2018.09.013. Epub 2018 Sep 19.

PMID:
30274737
15.

Rigid and non-rigid registration of polarized light imaging data for 3D reconstruction of the temporal lobe of the human brain at micrometer resolution.

Ali S, Wörz S, Amunts K, Eils R, Axer M, Rohr K.

Neuroimage. 2018 Nov 1;181:235-251. doi: 10.1016/j.neuroimage.2018.06.084. Epub 2018 Jul 6.

PMID:
30018015
16.

Asymmetric vasopressin signaling spatially organizes the master circadian clock.

Bedont JL, Rohr KE, Bathini A, Hattar S, Blackshaw S, Sehgal A, Evans JA.

J Comp Neurol. 2018 Sep 1;526(13):2048-2067. doi: 10.1002/cne.24478. Epub 2018 Aug 22.

17.

Production of the potential sweetener 5-ketofructose from fructose in fed-batch cultivation with Gluconobacter oxydans.

Herweg E, Schöpping M, Rohr K, Siemen A, Frank O, Hofmann T, Deppenmeier U, Büchs J.

Bioresour Technol. 2018 Jul;259:164-172. doi: 10.1016/j.biortech.2018.03.038. Epub 2018 Mar 9.

PMID:
29550669
18.

Clathrin-adaptor ratio and membrane tension regulate the flat-to-curved transition of the clathrin coat during endocytosis.

Bucher D, Frey F, Sochacki KA, Kummer S, Bergeest JP, Godinez WJ, Kräusslich HG, Rohr K, Taraska JW, Schwarz US, Boulant S.

Nat Commun. 2018 Mar 16;9(1):1109. doi: 10.1038/s41467-018-03533-0.

19.

Phenotypic memory in Bacillus subtilis links dormancy entry and exit by a spore quantity-quality tradeoff.

Mutlu A, Trauth S, Ziesack M, Nagler K, Bergeest JP, Rohr K, Becker N, Höfer T, Bischofs IB.

Nat Commun. 2018 Jan 4;9(1):69. doi: 10.1038/s41467-017-02477-1.

20.

An objective comparison of cell-tracking algorithms.

Ulman V, Maška M, Magnusson KEG, Ronneberger O, Haubold C, Harder N, Matula P, Matula P, Svoboda D, Radojevic M, Smal I, Rohr K, Jaldén J, Blau HM, Dzyubachyk O, Lelieveldt B, Xiao P, Li Y, Cho SY, Dufour AC, Olivo-Marin JC, Reyes-Aldasoro CC, Solis-Lemus JA, Bensch R, Brox T, Stegmaier J, Mikut R, Wolf S, Hamprecht FA, Esteves T, Quelhas P, Demirel Ö, Malmström L, Jug F, Tomancak P, Meijering E, Muñoz-Barrutia A, Kozubek M, Ortiz-de-Solorzano C.

Nat Methods. 2017 Dec;14(12):1141-1152. doi: 10.1038/nmeth.4473. Epub 2017 Oct 30.

21.

Development of a new software and test setup for analyzing hVOR in very young children by vHIT.

Wenzel A, Eck S, Hülse K, Rohr K, Hörmann K, Umbreit C, Hülse M, Hülse R.

J Vestib Res. 2017;27(2-3):155-162. doi: 10.3233/VES-170611.

PMID:
29064825
22.

Non-Rigid Contour-Based Registration of Cell Nuclei in 2-D Live Cell Microscopy Images Using a Dynamic Elasticity Model.

Sorokin DV, Peterlik I, Tektonidis M, Rohr K, Matula P.

IEEE Trans Med Imaging. 2018 Jan;37(1):173-184. doi: 10.1109/TMI.2017.2734169. Epub 2017 Jul 31.

PMID:
28783625
23.

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
24.

Long days enhance recognition memory and increase insulin-like growth factor 2 in the hippocampus.

Dellapolla A, Kloehn I, Pancholi H, Callif B, Wertz D, Rohr KE, Hurley MM, Baker KM, Hattar S, Gilmartin MR, Evans JA.

Sci Rep. 2017 Jun 20;7(1):3925. doi: 10.1038/s41598-017-03896-2.

25.

How Precise Are Preinterventional Measurements Using Centerline Analysis Applications? Objective Ground Truth Evaluation Reveals Software-Specific Centerline Characteristics.

Hoegen P, Wörz S, Müller-Eschner M, Geisbüsch P, Liao W, Rohr K, Schmitt M, Rengier F, Kauczor HU, von Tengg-Kobligk H.

J Endovasc Ther. 2017 Aug;24(4):584-594. doi: 10.1177/1526602817713737. Epub 2017 Jun 7.

PMID:
28587563
26.

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.

27.

Progressive Minimal Path Method for Segmentation of 2D and 3D Line Structures.

Liao W, Worz S, Kang CK, Cho ZH, Rohr K.

IEEE Trans Pattern Anal Mach Intell. 2018 Mar;40(3):696-709. doi: 10.1109/TPAMI.2017.2691709. Epub 2017 Apr 6.

PMID:
28410097
28.

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.

29.

Diffeomorphic Multi-Frame Non-Rigid Registration of Cell Nuclei in 2D and 3D Live Cell Images.

Tektonidis M, Rohr K.

IEEE Trans Image Process. 2017 Mar;26(3):1405-1417. doi: 10.1109/TIP.2017.2653360. Epub 2017 Jan 16.

PMID:
28092560
30.

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
31.

Automated 3D Volumetry of the Pulmonary Arteries based on Magnetic Resonance Angiography Has Potential for Predicting Pulmonary Hypertension.

Rengier F, Wörz S, Melzig C, Ley S, Fink C, Benjamin N, Partovi S, von Tengg-Kobligk H, Rohr K, Kauczor HU, Grünig E.

PLoS One. 2016 Sep 14;11(9):e0162516. doi: 10.1371/journal.pone.0162516. eCollection 2016.

32.

3D Geometric Analysis of the Pediatric Aorta in 3D MRA Follow-Up Images with Application to Aortic Coarctation.

Wörz S, Schenk JP, Alrajab A, von Tengg-Kobligk H, Rohr K, Arnold R.

Methods Inf Med. 2016 Oct 17;55(5):455-462. Epub 2016 Jul 13.

PMID:
27405687
33.

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
34.

A spherical harmonics intensity model for 3D segmentation and 3D shape analysis of heterochromatin foci.

Eck S, Wörz S, Müller-Ott K, Hahn M, Biesdorf A, Schotta G, Rippe K, Rohr K.

Med Image Anal. 2016 Aug;32:18-31. doi: 10.1016/j.media.2016.03.001. Epub 2016 Mar 17.

PMID:
27037463
35.

Live Cell Analysis and Mathematical Modeling Identify Determinants of Attenuation of Dengue Virus 2'-O-Methylation Mutant.

Schmid B, Rinas M, Ruggieri A, Acosta EG, Bartenschlager M, Reuter A, Fischl W, Harder N, Bergeest JP, Flossdorf M, Rohr K, Höfer T, Bartenschlager R.

PLoS Pathog. 2015 Dec 31;11(12):e1005345. doi: 10.1371/journal.ppat.1005345. eCollection 2015 Dec.

36.

Automated Analysis of Single-Molecule Photobleaching Data by Statistical Modeling of Spot Populations.

Liesche C, Grussmayer KS, Ludwig M, Wörz S, Rohr K, Herten DP, Beaudouin J, Eils R.

Biophys J. 2015 Dec 1;109(11):2352-62. doi: 10.1016/j.bpj.2015.10.035.

37.

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.

38.

Quantitative analysis of chromatin interaction changes upon a 4.3 Mb deletion at mouse 4E2.

Zepeda-Mendoza CJ, Mukhopadhyay S, Wong ES, Harder N, Splinter E, de Wit E, Eckersley-Maslin MA, Ried T, Eils R, Rohr K, Mills A, de Laat W, Flicek P, Sengupta AM, Spector DL.

BMC Genomics. 2015 Nov 21;16:982. doi: 10.1186/s12864-015-2137-5.

39.

Automatic 3D Segmentation and Quantification of Lenticulostriate Arteries from High-Resolution 7 Tesla MRA Images.

Wei Liao, Rohr K, Chang-Ki Kang, Zang-Hee Cho, Worz S.

IEEE Trans Image Process. 2016 Jan;25(1):400-13. doi: 10.1109/TIP.2015.2499085. Epub 2015 Nov 9.

PMID:
26571526
40.

Tracking Virus Particles in Fluorescence Microscopy Images Using Multi-Scale Detection and Multi-Frame Association.

Jaiswal A, Godinez WJ, Eils R, Lehmann MJ, Rohr K.

IEEE Trans Image Process. 2015 Nov;24(11):4122-36. doi: 10.1109/TIP.2015.2458174. Epub 2015 Jul 17.

PMID:
26208342
41.

Performance and sensitivity evaluation of 3D spot detection methods in confocal microscopy.

Štěpka K, Matula P, Matula P, Wörz S, Rohr K, Kozubek M.

Cytometry A. 2015 Aug;87(8):759-72. doi: 10.1002/cyto.a.22692. Epub 2015 May 28.

42.

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.

43.

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
44.

Aortic morphometry at endograft position as assessed by 3D image analysis affects risk of type I endoleak formation after TEVAR.

Kotelis D, Brenke C, Wörz S, Rengier F, Rohr K, Kauczor HU, Böckler D, von Tengg-Kobligk H.

Langenbecks Arch Surg. 2015 May;400(4):523-9. doi: 10.1007/s00423-015-1291-1. Epub 2015 Feb 22.

PMID:
25702140
45.

Large-scale tracking and classification for automatic analysis of cell migration and proliferation, and experimental optimization of high-throughput screens of neuroblastoma cells.

Harder N, Batra R, Diessl N, Gogolin S, Eils R, Westermann F, König R, Rohr K.

Cytometry A. 2015 Jun;87(6):524-40. doi: 10.1002/cyto.a.22632. Epub 2015 Jan 28.

46.

Characterizing protein interactions employing a genome-wide siRNA cellular phenotyping screen.

Suratanee A, Schaefer MH, Betts MJ, Soons Z, Mannsperger H, Harder N, Oswald M, Gipp M, Ramminger E, Marcus G, Männer R, Rohr K, Wanker E, Russell RB, Andrade-Navarro MA, Eils R, König R.

PLoS Comput Biol. 2014 Sep 25;10(9):e1003814. doi: 10.1371/journal.pcbi.1003814. eCollection 2014 Sep.

47.

Tracking multiple particles in fluorescence time-lapse microscopy images via probabilistic data association.

Godinez WJ, Rohr K.

IEEE Trans Med Imaging. 2015 Feb;34(2):415-32. doi: 10.1109/TMI.2014.2359541. Epub 2014 Sep 19.

PMID:
25252280
48.

Non-rigid multi-frame registration of cell nuclei in live cell fluorescence microscopy image data.

Tektonidis M, Kim IH, Chen YC, Eils R, Spector DL, Rohr K.

Med Image Anal. 2015 Jan;19(1):1-14. doi: 10.1016/j.media.2014.07.006. Epub 2014 Aug 11.

PMID:
25181702
49.

An inducible hepatocellular carcinoma model for preclinical evaluation of antiangiogenic therapy in adult mice.

Runge A, Hu J, Wieland M, Bergeest JP, Mogler C, Neumann A, Géraud C, Arnold B, Rohr K, Komljenovic D, Schirmacher P, Goerdt S, Augustin HG.

Cancer Res. 2014 Aug 1;74(15):4157-69. doi: 10.1158/0008-5472.CAN-13-2311. Epub 2014 Jun 6.

50.

3D morphometry using automated aortic segmentation in native MR angiography: an alternative to contrast enhanced MRA?

Müller-Eschner M, Müller T, Biesdorf A, Wörz S, Rengier F, Böckler D, Kauczor HU, Rohr K, von Tengg-Kobligk H.

Cardiovasc Diagn Ther. 2014 Apr;4(2):80-7. doi: 10.3978/j.issn.2223-3652.2013.10.06.

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