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Items: 1 to 50 of 245

1.

Fecal SCFAs and SCFA-producing bacteria in gut microbiome of human NAFLD as a putative link to systemic T-cell activation and advanced disease.

Rau M, Rehman A, Dittrich M, Groen AK, Hermanns HM, Seyfried F, Beyersdorf N, Dandekar T, Rosenstiel P, Geier A.

United European Gastroenterol J. 2018 Dec;6(10):1496-1507. doi: 10.1177/2050640618804444. Epub 2018 Sep 30.

2.

Plasma steroid metabolome profiling for the diagnosis of adrenocortical carcinoma.

Schweitzer S, Kunz M, Kurlbaum M, Vey J, Kendl S, Deutschbein T, Hahner S, Fassnacht M, Dandekar T, Kroiss M.

Eur J Endocrinol. 2018 Nov 1. pii: EJE-18-0782.R1. doi: 10.1530/EJE-18-0782. [Epub ahead of print]

PMID:
30481155
3.

Systems Biology Analysis to Understand Regulatory miRNA Networks in Lung Cancer.

Kunz M, Pittroff A, Dandekar T.

Methods Mol Biol. 2018;1819:235-247. doi: 10.1007/978-1-4939-8618-7_11.

PMID:
30421407
4.

Automated classification of synaptic vesicles in electron tomograms of C. elegans using machine learning.

Kaltdorf KV, Theiss M, Markert SM, Zhen M, Dandekar T, Stigloher C, Kollmannsberger P.

PLoS One. 2018 Oct 8;13(10):e0205348. doi: 10.1371/journal.pone.0205348. eCollection 2018.

5.

Functional genomics identifies AMPD2 as a new prognostic marker for undifferentiated pleomorphic sarcoma.

Orth MF, Gerke JS, Knösel T, Altendorf-Hofmann A, Musa J, Alba-Rubio R, Stein S, Hölting TLB, Cidre-Aranaz F, Romero-Pérez L, Dallmayer M, Baldauf MC, Marchetto A, Sannino G, Knott MML, Wehweck F, Ohmura S, Li J, Hakozaki M, Kirchner T, Dandekar T, Butt E, Grünewald TGP.

Int J Cancer. 2019 Feb 15;144(4):859-867. doi: 10.1002/ijc.31903. Epub 2018 Dec 4.

PMID:
30267407
6.

HPLC-ESI-MS method for C60 fullerene mitochondrial content quantification.

Grebinyk A, Grebinyk S, Prylutska S, Ritter U, Matyshevska O, Dandekar T, Frohme M.

Data Brief. 2018 Jul 10;19:2047-2052. doi: 10.1016/j.dib.2018.06.089. eCollection 2018 Aug.

7.

Evaluation of Aspergillus and Mucorales specific T-cells and peripheral blood mononuclear cell cytokine signatures as biomarkers of environmental mold exposure.

Page L, Weis P, Müller T, Dittrich M, Lazariotou M, Dragan M, Waaga-Gasser AM, Helm J, Dandekar T, Einsele H, Löffler J, Ullmann AJ, Wurster S.

Int J Med Microbiol. 2018 Dec;308(8):1018-1026. doi: 10.1016/j.ijmm.2018.09.002. Epub 2018 Sep 3.

PMID:
30201279
8.

Omics and bioinformatics applied to vaccine development against Borrelia.

Bencurova E, Gupta SK, Oskoueian E, Bhide M, Dandekar T.

Mol Omics. 2018 Oct 8;14(5):330-340. doi: 10.1039/c8mo00130h.

PMID:
30113617
9.

In Silico Designed Axl Receptor Blocking Drug Candidates Against Zika Virus Infection.

Sarukhanyan E, Shityakov S, Dandekar T.

ACS Omega. 2018 May 31;3(5):5281-5290. doi: 10.1021/acsomega.8b00223. Epub 2018 May 16.

10.

Identification of Antifungal Targets Based on Computer Modeling.

Bencurova E, Gupta SK, Sarukhanyan E, Dandekar T.

J Fungi (Basel). 2018 Jul 4;4(3). pii: E81. doi: 10.3390/jof4030081. Review.

11.

C60 fullerene accumulation in human leukemic cells and perspectives of LED-mediated photodynamic therapy.

Grebinyk A, Grebinyk S, Prylutska S, Ritter U, Matyshevska O, Dandekar T, Frohme M.

Free Radic Biol Med. 2018 Aug 20;124:319-327. doi: 10.1016/j.freeradbiomed.2018.06.022. Epub 2018 Jun 27.

12.

A combined tissue-engineered/in silico signature tool patient stratification in lung cancer.

Göttlich C, Kunz M, Zapp C, Nietzer SL, Walles H, Dandekar T, Dandekar G.

Mol Oncol. 2018 Aug;12(8):1264-1285. doi: 10.1002/1878-0261.12323. Epub 2018 Jun 22.

13.

An open source tool for automatic spatiotemporal assessment of calcium transients and local 'signal-close-to-noise' activity in calcium imaging data.

Prada J, Sasi M, Martin C, Jablonka S, Dandekar T, Blum R.

PLoS Comput Biol. 2018 Mar 30;14(3):e1006054. doi: 10.1371/journal.pcbi.1006054. eCollection 2018 Mar.

14.

The Cytokinin-Activating LOG-Family Proteins Are Not Lysine Decarboxylases.

Naseem M, Bencurova E, Dandekar T.

Trends Biochem Sci. 2018 Apr;43(4):232-236. doi: 10.1016/j.tibs.2018.01.002. Epub 2018 Mar 7. Review.

PMID:
29525484
15.

Proteomics of Aspergillus fumigatus Conidia-containing Phagolysosomes Identifies Processes Governing Immune Evasion.

Schmidt H, Vlaic S, Krüger T, Schmidt F, Balkenhol J, Dandekar T, Guthke R, Kniemeyer O, Heinekamp T, Brakhage AA.

Mol Cell Proteomics. 2018 Jun;17(6):1084-1096. doi: 10.1074/mcp.RA117.000069. Epub 2018 Mar 5.

PMID:
29507050
16.

Genetic profiling and surface proteome analysis of human atrial stromal cells and rat ventricular epicardium-derived cells reveals novel insights into their cardiogenic potential.

Temme S, Friebe D, Schmidt T, Poschmann G, Hesse J, Steckel B, Stühler K, Kunz M, Dandekar T, Ding Z, Akhyari P, Lichtenberg A, Schrader J.

Stem Cell Res. 2017 Dec;25:183-190. doi: 10.1016/j.scr.2017.11.006. Epub 2017 Nov 7.

17.

TRPM7 Kinase Controls Calcium Responses in Arterial Thrombosis and Stroke in Mice.

Gotru SK, Chen W, Kraft P, Becker IC, Wolf K, Stritt S, Zierler S, Hermanns HM, Rao D, Perraud AL, Schmitz C, Zahedi RP, Noy PJ, Tomlinson MG, Dandekar T, Matsushita M, Chubanov V, Gudermann T, Stoll G, Nieswandt B, Braun A.

Arterioscler Thromb Vasc Biol. 2018 Feb;38(2):344-352. doi: 10.1161/ATVBAHA.117.310391. Epub 2017 Nov 16.

PMID:
29146750
18.

Sexual dimorphism of AMBRA1-related autistic features in human and mouse.

Mitjans M, Begemann M, Ju A, Dere E, Wüstefeld L, Hofer S, Hassouna I, Balkenhol J, Oliveira B, van der Auwera S, Tammer R, Hammerschmidt K, Völzke H, Homuth G, Cecconi F, Chowdhury K, Grabe H, Frahm J, Boretius S, Dandekar T, Ehrenreich H.

Transl Psychiatry. 2017 Oct 10;7(10):e1247. doi: 10.1038/tp.2017.213.

19.

Mucorales spores induce a proinflammatory cytokine response in human mononuclear phagocytes and harbor no rodlet hydrophobins.

Wurster S, Thielen V, Weis P, Walther P, Elias J, Waaga-Gasser AM, Dragan M, Dandekar T, Einsele H, Löffler J, Ullmann AJ.

Virulence. 2017 Nov 17;8(8):1708-1718. doi: 10.1080/21505594.2017.1342920. Epub 2017 Aug 8.

20.

Plant-Pathogen Maneuvering over Apoplastic Sugars.

Naseem M, Kunz M, Dandekar T.

Trends Plant Sci. 2017 Sep;22(9):740-743. doi: 10.1016/j.tplants.2017.07.001. Epub 2017 Aug 2. Review.

PMID:
28779901
21.

MicroRNA-21 versus microRNA-34: Lung cancer promoting and inhibitory microRNAs analysed in silico and in vitro and their clinical impact.

Kunz M, Göttlich C, Walles T, Nietzer S, Dandekar G, Dandekar T.

Tumour Biol. 2017 Jul;39(7):1010428317706430. doi: 10.1177/1010428317706430. Review.

PMID:
28705115
22.

Modelling the host-pathogen interactions of macrophages and Candida albicans using Game Theory and dynamic optimization.

Dühring S, Ewald J, Germerodt S, Kaleta C, Dandekar T, Schuster S.

J R Soc Interface. 2017 Jul;14(132). pii: 20170095. doi: 10.1098/rsif.2017.0095.

23.

Transcriptomic buffering of cryptic genetic variation contributes to meningococcal virulence.

Ampattu BJ, Hagmann L, Liang C, Dittrich M, Schlüter A, Blom J, Krol E, Goesmann A, Becker A, Dandekar T, Müller T, Schoen C.

BMC Genomics. 2017 Apr 7;18(1):282. doi: 10.1186/s12864-017-3616-7.

24.

A Systems Biology Methodology Combining Transcriptome and Interactome Datasets to Assess the Implications of Cytokinin Signaling for Plant Immune Networks.

Kunz M, Dandekar T, Naseem M.

Methods Mol Biol. 2017;1569:165-173. doi: 10.1007/978-1-4939-6831-2_14.

PMID:
28265997
25.

Reconstruction of an Immune Dynamic Model to Simulate the Contrasting Role of Auxin and Cytokinin in Plant Immunity.

Kaltdorf M, Dandekar T, Naseem M.

Methods Mol Biol. 2017;1569:83-92. doi: 10.1007/978-1-4939-6831-2_6.

PMID:
28265989
26.

A Staphylococcus aureus Proteome Overview: Shared and Specific Proteins and Protein Complexes from Representative Strains of All Three Clades.

Liang C, Schaack D, Srivastava M, Gupta SK, Sarukhanyan E, Giese A, Pagels M, Romanov N, Pané-Farré J, Fuchs S, Dandekar T.

Proteomes. 2016 Feb 19;4(1). pii: E8. doi: 10.3390/proteomes4010008.

27.

Optimality principles reveal a complex interplay of intermediate toxicity and kinetic efficiency in the regulation of prokaryotic metabolism.

Ewald J, Bartl M, Dandekar T, Kaleta C.

PLoS Comput Biol. 2017 Feb 17;13(2):e1005371. doi: 10.1371/journal.pcbi.1005371. eCollection 2017 Feb.

28.

Frequency of regulatory T cells determines the outcome of the T-cell-engaging antibody blinatumomab in patients with B-precursor ALL.

Duell J, Dittrich M, Bedke T, Mueller T, Eisele F, Rosenwald A, Rasche L, Hartmann E, Dandekar T, Einsele H, Topp MS.

Leukemia. 2017 Oct;31(10):2181-2190. doi: 10.1038/leu.2017.41. Epub 2017 Jan 25.

29.

FIJI Macro 3D ART VeSElecT: 3D Automated Reconstruction Tool for Vesicle Structures of Electron Tomograms.

Kaltdorf KV, Schulze K, Helmprobst F, Kollmannsberger P, Dandekar T, Stigloher C.

PLoS Comput Biol. 2017 Jan 5;13(1):e1005317. doi: 10.1371/journal.pcbi.1005317. eCollection 2017 Jan.

30.

Non-Coding RNAs in Lung Cancer: Contribution of Bioinformatics Analysis to the Development of Non-Invasive Diagnostic Tools.

Kunz M, Wolf B, Schulze H, Atlan D, Walles T, Walles H, Dandekar T.

Genes (Basel). 2016 Dec 26;8(1). pii: E8. doi: 10.3390/genes8010008. Review.

31.

The Plant Hormone Cytokinin Confers Protection against Oxidative Stress in Mammalian Cells.

Othman EM, Naseem M, Awad E, Dandekar T, Stopper H.

PLoS One. 2016 Dec 22;11(12):e0168386. doi: 10.1371/journal.pone.0168386. eCollection 2016.

32.

Oxime Ethers of (E)-11-Isonitrosostrychnine as Highly Potent Glycine Receptor Antagonists.

Mohsen AM, Mandour YM, Sarukhanyan E, Breitinger U, Villmann C, Banoub MM, Breitinger HG, Dandekar T, Holzgrabe U, Sotriffer C, Jensen AA, Zlotos DP.

J Nat Prod. 2016 Dec 23;79(12):2997-3005. doi: 10.1021/acs.jnatprod.6b00479. Epub 2016 Dec 14.

PMID:
27966945
33.

Influence of Platelet-rich Plasma on the immune response of human monocyte-derived dendritic cells and macrophages stimulated with Aspergillus fumigatus.

Czakai K, Dittrich M, Kaltdorf M, Müller T, Krappmann S, Schedler A, Bonin M, Dühring S, Schuster S, Speth C, Rambach G, Einsele H, Dandekar T, Löffler J.

Int J Med Microbiol. 2017 Feb;307(2):95-107. doi: 10.1016/j.ijmm.2016.11.010. Epub 2016 Dec 9.

PMID:
27965080
34.

Mining biomedical images towards valuable information retrieval in biomedical and life sciences.

Ahmed Z, Zeeshan S, Dandekar T.

Database (Oxford). 2016 Sep 6;2016. pii: baw134. doi: 10.1093/database/baw134. Print 2016. No abstract available.

35.

Mining biomedical images towards valuable information retrieval in biomedical and life sciences.

Ahmed Z, Zeeshan S, Dandekar T.

Database (Oxford). 2016 Aug 18;2016. pii: baw118. doi: 10.1093/database/baw118. Print 2016. Review. Erratum in: Database (Oxford). 2016;2016. pii: baw134. doi: 10.1093/database/baw134.

36.

An antibiotic target ranking and prioritization pipeline combining sequence, structure and network-based approaches exemplified for Serratia marcescens.

Gupta SK, Gross R, Dandekar T.

Gene. 2016 Oct 10;591(1):268-278. doi: 10.1016/j.gene.2016.07.030. Epub 2016 Jul 16.

PMID:
27425866
37.

Systematic Identification of Anti-Fungal Drug Targets by a Metabolic Network Approach.

Kaltdorf M, Srivastava M, Gupta SK, Liang C, Binder J, Dietl AM, Meir Z, Haas H, Osherov N, Krappmann S, Dandekar T.

Front Mol Biosci. 2016 Jun 17;3:22. doi: 10.3389/fmolb.2016.00022. eCollection 2016.

38.

Analyzing ERK 1/2 signalling and targets.

Brietz A, Schuch KV, Wangorsch G, Lorenz K, Dandekar T.

Mol Biosyst. 2016 Jul 19;12(8):2436-46. doi: 10.1039/c6mb00255b.

PMID:
27301697
39.

A Combined 3D Tissue Engineered In Vitro/In Silico Lung Tumor Model for Predicting Drug Effectiveness in Specific Mutational Backgrounds.

Göttlich C, Müller LC, Kunz M, Schmitt F, Walles H, Walles T, Dandekar T, Dandekar G, Nietzer SL.

J Vis Exp. 2016 Apr 6;(110):e53885. doi: 10.3791/53885.

40.

The drug-minded protein interaction database (DrumPID) for efficient target analysis and drug development.

Kunz M, Liang C, Nilla S, Cecil A, Dandekar T.

Database (Oxford). 2016 Apr 7;2016. pii: baw041. doi: 10.1093/database/baw041. Print 2016.

41.

Long noncoding RNA Chast promotes cardiac remodeling.

Viereck J, Kumarswamy R, Foinquinos A, Xiao K, Avramopoulos P, Kunz M, Dittrich M, Maetzig T, Zimmer K, Remke J, Just A, Fendrich J, Scherf K, Bolesani E, Schambach A, Weidemann F, Zweigerdt R, de Windt LJ, Engelhardt S, Dandekar T, Batkai S, Thum T.

Sci Transl Med. 2016 Feb 17;8(326):326ra22. doi: 10.1126/scitranslmed.aaf1475.

PMID:
26888430
42.

Revisiting adult neurogenesis and the role of erythropoietin for neuronal and oligodendroglial differentiation in the hippocampus.

Hassouna I, Ott C, Wüstefeld L, Offen N, Neher RA, Mitkovski M, Winkler D, Sperling S, Fries L, Goebbels S, Vreja IC, Hagemeyer N, Dittrich M, Rossetti MF, Kröhnert K, Hannke K, Boretius S, Zeug A, Höschen C, Dandekar T, Dere E, Neher E, Rizzoli SO, Nave KA, Sirén AL, Ehrenreich H.

Mol Psychiatry. 2016 Dec;21(12):1752-1767. doi: 10.1038/mp.2015.212. Epub 2016 Jan 26.

43.

LONELY-GUY Knocks Every Door: Crosskingdom Microbial Pathogenesis.

Naseem M, Sarukhanyan E, Dandekar T.

Trends Plant Sci. 2015 Dec;20(12):781-783. doi: 10.1016/j.tplants.2015.10.017.

PMID:
26777904
44.

MSL: Facilitating automatic and physical analysis of published scientific literature in PDF format.

Ahmed Z, Dandekar T.

Version 3. F1000Res. 2015 Dec 16 [revised 2018 Jan 1];4:1453. doi: 10.12688/f1000research.7329.3. eCollection 2015.

45.

Gene expression profiles and protein-protein interaction network analysis in AIDS patients with HIV-associated encephalitis and dementia.

Shityakov S, Dandekar T, Förster C.

HIV AIDS (Auckl). 2015 Nov 18;7:265-76. doi: 10.2147/HIV.S88438. eCollection 2015.

46.

Draft Genome Sequence of the Moderately Heat-Tolerant Lactococcus lactis subsp. lactis bv. diacetylactis Strain GL2 from Algerian Dromedary Milk.

Gabed N, Yang M, Bey Baba Hamed M, Drici H, Gross R, Dandekar T, Liang C.

Genome Announc. 2015 Nov 19;3(6). pii: e01334-15. doi: 10.1128/genomeA.01334-15.

47.

Development of Long Noncoding RNA-Based Strategies to Modulate Tissue Vascularization.

Fiedler J, Breckwoldt K, Remmele CW, Hartmann D, Dittrich M, Pfanne A, Just A, Xiao K, Kunz M, Müller T, Hansen A, Geffers R, Dandekar T, Eschenhagen T, Thum T.

J Am Coll Cardiol. 2015 Nov 3;66(18):2005-2015. doi: 10.1016/j.jacc.2015.07.081.

48.

Integrated inference and evaluation of host-fungi interaction networks.

Remmele CW, Luther CH, Balkenhol J, Dandekar T, Müller T, Dittrich MT.

Front Microbiol. 2015 Aug 4;6:764. doi: 10.3389/fmicb.2015.00764. eCollection 2015.

49.

Scrutinizing the immune defence inventory of Camponotus floridanus applying total transcriptome sequencing.

Gupta SK, Kupper M, Ratzka C, Feldhaar H, Vilcinskas A, Gross R, Dandekar T, Förster F.

BMC Genomics. 2015 Jul 22;16:540. doi: 10.1186/s12864-015-1748-1.

50.

Host-pathogen interactions between the human innate immune system and Candida albicans-understanding and modeling defense and evasion strategies.

Dühring S, Germerodt S, Skerka C, Zipfel PF, Dandekar T, Schuster S.

Front Microbiol. 2015 Jun 30;6:625. doi: 10.3389/fmicb.2015.00625. eCollection 2015. Review.

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