Works by Dandekar, Thomas

Results: 190

Carbon metabolism of intracellular bacterial pathogens and possible links to virulence.

Published in:

Nature Reviews Microbiology, 2010, v. 8, n. 6, p. 401, doi. 10.1038/nrmicro2351

By:

Eisenreich, Wolfgang;
Dandekar, Thomas;
Heesemann, Jürgen;
Goebel, Werner

Publication type:

Article

Chagas Disease: Detection of Trypanosoma cruzi by a New, High-Specific Real Time PCR.

Published in:

Journal of Clinical Medicine, 2020, v. 9, n. 5, p. 1517, doi. 10.3390/jcm9051517

By:

Kann, Simone;
Kunz, Meik;
Hansen, Jessica;
Sievertsen, Jürgen;
Crespo, Jose J.;
Loperena, Aristides;
Arriens, Sandra;
Dandekar, Thomas

Publication type:

Article

Stem-cell-triggered immunity safeguards cytokinin enriched plant shoot apexes from pathogen infection.

Published in:

Frontiers in Plant Science, 2014, v. 5, p. 1, doi. 10.3389/fpls.2014.00588

By:

Naseem, Muhammad;
Srivastava, Mugdha;
Dandekar, Thomas

Publication type:

Article

Host-adapted metabolism and its regulation in bacterial pathogens.

Published in:

2015

By:

Dandekar, Thomas;
Eisenreich, Wolfgang

Publication type:

Editorial

Salmonella-how a metabolic generalist adopts an intracellular lifestyle during infection.

Published in:

Frontiers in Cellular & Infection Microbiology, 2015, p. 1, doi. 10.3389/fcimb.2014.00191

By:

Dandekar, Thomas;
Fieselmann, Astrid;
Fischer, Eva;
Popp, Jasmin;
Hensel, Michael;
Noster, Janina

Publication type:

Article

Fine mapping of the antigen-antibody interaction of scFv215, a recombinant antibody inhibiting RNA polymerase II from Drosophila melanogaster.

Published in:

Journal of Molecular Recognition, 1999, v. 12, n. 2, p. 103, doi. 10.1002/(SICI)1099-1352(199903/04)12:2<103::AID-JMR447>3.0.CO;2-B

By:

Liu, Zhihong;
Song, Danying;
Kramer, Achim;
Martin, Andrew C. R.;
Dandekar, Thomas;
Schneider-Mergener, Jens;
Bautz, Ekkehard K. F.;
Dübel, Stefan

Publication type:

Article

A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks.

Published in:

Nature Biotechnology, 2000, v. 18, n. 3, p. 326, doi. 10.1038/73786

By:

Schuster, Stefan;
Fell, David A.;
Dandekar, Thomas

Publication type:

Article

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

Published in:

Molecular Oncology, 2018, v. 12, n. 8, p. 1264, doi. 10.1002/1878-0261.12323

By:

Göttlich, Claudia;
Kunz, Meik;
Zapp, Cornelia;
Nietzer, Sarah L.;
Walles, Heike;
Dandekar, Thomas;
Dandekar, Gudrun

Publication type:

Article

Establishment of a human 3D lung cancer model based on a biological tissue matrix combined with a Boolean in silico model.

Published in:

Molecular Oncology, 2014, v. 8, n. 2, p. 351, doi. 10.1016/j.molonc.2013.11.009

By:

Stratmann, Anna T.;
Fecher, David;
Wangorsch, Gaby;
Göttlich, Claudia;
Walles, Thorsten;
Walles, Heike;
Dandekar, Thomas;
Dandekar, Gudrun;
Nietzer, Sarah L.

Publication type:

Article

Host insulin stimulates Echinococcus multilocularis insulin signalling pathways and larval development.

Published in:

BMC Biology, 2014, v. 12, n. 1, p. 2, doi. 10.1186/1741-7007-12-5

By:

Hemer, Sarah;
Konrad, Christian;
Spiliotis, Markus;
Koziol, Uriel;
Schaack, Dominik;
Förster, Sabine;
Gelmedin, Verena;
Stadelmann, Britta;
Dandekar, Thomas;
Hemphill, Andrew;
Brehm, Klaus

Publication type:

Article

ITS-2 and 18S rRNA gene phylogeny of Aplysinidae (Verongida, Demospongiae).

Published in:

2005

By:

Schmitt, Susanne;
Hentschel, Ute;
Zea, Sven;
Dandekar, Thomas;
Wolf, Matthias

Publication type:

Erratum

ITS-2 and 18S rRNA Gene Phylogeny of Aplysinidae (Verongida, Demospongiae).

Published in:

Journal of Molecular Evolution, 2005, v. 60, n. 3, p. 327, doi. 10.1007/s00239-004-0162-0

By:

Schmitt, Susanne;
Hentschel, Ute;
Zea, Sven;
Dandekar, Thomas;
Wolf, Matthias

Publication type:

Article

Quantitative single-molecule localization microscopy combined with rule-based modeling reveals ligand-induced TNF-R1 reorganization toward higher-order oligomers.

Published in:

Histochemistry & Cell Biology, 2014, v. 142, n. 1, p. 91, doi. 10.1007/s00418-014-1195-0

By:

Fricke, Franziska;
Malkusch, Sebastian;
Wangorsch, Gaby;
Greiner, Johannes;
Kaltschmidt, Barbara;
Kaltschmidt, Christian;
Widera, Darius;
Dandekar, Thomas;
Heilemann, Mike

Publication type:

Article

Influence of breast cancer risk factors on proliferation and DNA damage in human breast glandular tissues: role of intracellular estrogen levels, oxidative stress and estrogen biotransformation.

Published in:

Archives of Toxicology, 2022, v. 96, n. 2, p. 673, doi. 10.1007/s00204-021-03198-7

By:

Wunder, Juliane;
Pemp, Daniela;
Cecil, Alexander;
Mahdiani, Maryam;
Hauptstein, René;
Schmalbach, Katja;
Geppert, Leo N.;
Ickstadt, Katja;
Esch, Harald L.;
Dandekar, Thomas;
Lehmann, Leane

Publication type:

Article

Optimization of synthetic molecular reporters for a mesenchymal glioblastoma transcriptional program by integer programing.

Published in:

Bioinformatics, 2022, v. 38, n. 17, p. 4162, doi. 10.1093/bioinformatics/btac488

By:

Breitenbach, Tim;
Schmitt, Matthias Jürgen;
Dandekar, Thomas

Publication type:

Article

A systems-biology model of the tumor necrosis factor (TNF) interactions with TNF receptor 1 and 2.

Published in:

Bioinformatics, 2021, v. 37, n. 5, p. 669, doi. 10.1093/bioinformatics/btaa844

By:

Prada, Juan Pablo;
Wangorsch, Gaby;
Kucka, Kirstin;
Lang, Isabell;
Dandekar, Thomas;
Wajant, Harald

Publication type:

Article

Minimal Collagen-Binding Epitope of Glycoprotein VI in Human and Mouse Platelets.

Published in:

Biomedicines, 2023, v. 11, n. 2, p. 423, doi. 10.3390/biomedicines11020423

By:

Han, Chao;
Ren, Pengxuan;
Mamtimin, Medina;
Kruk, Linus;
Sarukhanyan, Edita;
Li, Chenyu;
Anders, Hans-Joachim;
Dandekar, Thomas;
Krueger, Irena;
Elvers, Margitta;
Goebel, Silvia;
Adler, Kristin;
Münch, Götz;
Gudermann, Thomas;
Braun, Attila;
Mammadova-Bach, Elmina

Publication type:

Article

Progeria and Aging—Omics Based Comparative Analysis.

Published in:

Biomedicines, 2022, v. 10, n. 10, p. N.PAG, doi. 10.3390/biomedicines10102440

By:

Caliskan, Aylin;
Crouch, Samantha A. W.;
Giddins, Sara;
Dandekar, Thomas;
Dangwal, Seema

Publication type:

Article

Kinetin Ameliorates Cisplatin-Induced Hepatotoxicity and Lymphotoxicity via Attenuating Oxidative Damage, Cell Apoptosis and Inflammation in Rats.

Published in:

Biomedicines, 2022, v. 10, n. 7, p. N.PAG, doi. 10.3390/biomedicines10071620

By:

Fathy, Moustafa;
Darwish, Mostafa A.;
Abdelhamid, Al-Shaimaa M.;
Alrashedy, Gehad M.;
Othman, Othman Ali;
Naseem, Muhammad;
Dandekar, Thomas;
Othman, Eman M.

Publication type:

Article

Experimental and Mathematical Model of Platelet Hemostasis Kinetics.

Published in:

Cells (2073-4409), 2025, v. 14, n. 9, p. 677, doi. 10.3390/cells14090677

By:

Gerda, Bogdan;
Volkova, Anastasiya;
Dobrylko, Irina;
Andreyeva, Aleksandra Yu.;
Dandekar, Thomas;
Panteleev, Mikhail A.;
Gambaryan, Stepan;
Mindukshev, Igor

Publication type:

Article

An optimized genetically encoded dual reporter for simultaneous ratio imaging of Ca2+ and H+ reveals new insights into ion signaling in plants.

Published in:

New Phytologist, 2021, v. 230, n. 6, p. 2292, doi. 10.1111/nph.17202

By:

Li, Kunkun;
Prada, Juan;
Damineli, Daniel S. C.;
Liese, Anja;
Romeis, Tina;
Dandekar, Thomas;
Feijó, José A.;
Hedrich, Rainer;
Konrad, Kai Robert

Publication type:

Article

Comprehensive Flux Modeling of Chlamydia trachomatis Proteome and qRT-PCR Data Indicate Biphasic Metabolic Differences Between Elementary Bodies and Reticulate Bodies During Infection.

Published in:

Frontiers in Microbiology, 2019, p. 1, doi. 10.3389/fmicb.2019.02350

By:

Yang, Manli;
Rajeeve, Karthika;
Rudel, Thomas;
Dandekar, Thomas

Publication type:

Article

Isolation and molecular characterization of a surface-bound proteinase of Entamoeba...

Published in:

Molecular Microbiology, 1998, v. 27, n. 2, p. 269, doi. 10.1046/j.1365-2958.1998.00662.x

By:

Jacobe, Thomas;
Bruchhaus, Iris;
Dandekar, Thomas;
Tannich, Egbert;
Leippe, Matthias

Publication type:

Article

Detecting species-site dependencies in large multiple sequence alignments.

Published in:

Nucleic Acids Research, 2009, v. 37, n. 18, p. 5959, doi. 10.1093/nar/gkp634

By:

Schwarz, Roland;
Seibel, Philipp N.;
Rahmann, Sven;
Schoen, Christoph;
Huenerberg, Mirja;
Müller-Reible, Clemens;
Dandekar, Thomas;
Karchin, Rachel;
Schultz, Jörg;
Müller, Tobias

Publication type:

Article

The ITS2 Database II: homology modelling RNA structure for molecular systematics.

Published in:

Nucleic Acids Research, 2008, v. 36, p. D377

By:

Selig, Christian;
Wolf, Matthias;
Müller, Tobias;
Dandekar, Thomas;
Schultz, Jörg

Publication type:

Article

The internal transcribed spacer 2 database—a web server for (not only) low level phylogenetic analyses.

Published in:

Nucleic Acids Research, 2006, v. 34, n. 11, p. w704, doi. 10.1093/nar/gkl129

By:

Schultz, Jörg;
Müller, Tobias;
Achtziger, Marco;
Seibel, Philipp N.;
Dandekar, Thomas;
Wolf, Matthias

Publication type:

Article

L1Base: from functional annotation to prediction of active LINE-1 elements.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 1, p. d498

By:

Penzkofer, Tobias;
Dandekar, Thomas;
Zemojtel, Tomasz

Publication type:

Article

Riboswitch finder—a tool for identification of riboswitch RNAs.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w154, doi. 10.1093/nar/gkh352

By:

Bengert, Peter;
Dandekar, Thomas

Publication type:

Article

A software tool-box for analysis of regulatory RNA elements.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 13, p. 3441, doi. 10.1093/nar/gkg568

By:

Bengert, Peter;
Dandekar, Thomas

Publication type:

Article

ACKR3 regulates platelet activation and ischemia-reperfusion tissue injury.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-29341-1

By:

Rohlfing, Anne-Katrin;
Kolb, Kyra;
Sigle, Manuel;
Ziegler, Melanie;
Bild, Alexander;
Münzer, Patrick;
Sudmann, Jessica;
Dicenta, Valerie;
Harm, Tobias;
Manke, Mailin-Christin;
Geue, Sascha;
Kremser, Marcel;
Chatterjee, Madhumita;
Liang, Chunguang;
von Eysmondt, Hendrik;
Dandekar, Thomas;
Heinzmann, David;
Günter, Manina;
von Ungern-Sternberg, Saskia;
Büttcher, Manuela

Publication type:

Article

Rapid proliferation due to better metabolic adaptation results in full virulence of a filament-deficient Candida albicans strain.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-24095-8

By:

Dunker, Christine;
Polke, Melanie;
Schulze-Richter, Bianca;
Schubert, Katja;
Rudolphi, Sven;
Gressler, A. Elisabeth;
Pawlik, Tony;
Prada Salcedo, Juan P.;
Niemiec, M. Joanna;
Slesiona-Künzel, Silvia;
Swidergall, Marc;
Martin, Ronny;
Dandekar, Thomas;
Jacobsen, Ilse D.

Publication type:

Article

C60 Fullerene as an Effective Nanoplatform of Alkaloid Berberine Delivery into Leukemic Cells.

Published in:

Pharmaceutics, 2019, v. 11, n. 11, p. 586, doi. 10.3390/pharmaceutics11110586

By:

Grebinyk, Anna;
Prylutska, Svitlana;
Buchelnikov, Anatoliy;
Tverdokhleb, Nina;
Grebinyk, Sergii;
Evstigneev, Maxim;
Matyshevska, Olga;
Cherepanov, Vsevolod;
Prylutskyy, Yuriy;
Yashchuk, Valeriy;
Naumovets, Anton;
Ritter, Uwe;
Dandekar, Thomas;
Frohme, Marcus

Publication type:

Article

Correction to: Complexation with C60 Fullerene Increases Doxorubicin Efficiency against Leukemic Cells In Vitro.

Published in:

Nanoscale Research Letters, 2019, v. 14, n. 1, p. 1, doi. 10.1186/s11671-019-2917-y

By:

Grebinyk, Anna;
Prylutska, Svitlana;
Grebinyk, Sergii;
Prylutskyy, Yuriy;
Ritter, Uwe;
Matyshevska, Olga;
Dandekar, Thomas;
Frohme, Marcus

Publication type:

Article

Complexation with C60 Fullerene Increases Doxorubicin Efficiency against Leukemic Cells In Vitro.

Published in:

Nanoscale Research Letters, 2019, v. 14, n. 1, p. 1, doi. 10.1186/s11671-019-2894-1

By:

Grebinyk, Anna;
Prylutska, Svitlana;
Grebinyk, Sergii;
Prylutskyy, Yuriy;
Ritter, Uwe;
Matyshevska, Olga;
Dandekar, Thomas;
Frohme, Marcus

Publication type:

Article

Mutational analysis of Schizosaccharomyces pombe U4 snRNA by plasmid exchange.

Published in:

Yeast, 1992, v. 8, n. 8, p. 647, doi. 10.1002/yea.320080808

By:

Dandekar, Thomas;
Tollervey, David

Publication type:

Article

RIP death domain structural interactions implicated in TNF-mediated proliferation and survival.

Published in:

Proteins, 2006, v. 63, n. 3, p. 413, doi. 10.1002/prot.20895

By:

Thakar, Juilee;
Schleinkofer, Karin;
Borner, Christoph;
Dandekar, Thomas

Publication type:

Article

The post‐stroke young adult brain has limited capacity to re‐express the gene expression patterns seen during early postnatal brain development.

Published in:

Brain Pathology, 2024, v. 34, n. 5, p. 1, doi. 10.1111/bpa.13232

By:

Ruscu, Mihai;
Capitanescu, Bogdan;
Rupek, Paul;
Dandekar, Thomas;
Radu, Eugen;
Hermann, Dirk M.;
Popa‐Wagner, Aurel

Publication type:

Article

Analysis of and function predictions for previously conserved hypothetical or putative proteins in Blochmannia floridanus.

Published in:

BMC Microbiology, 2006, v. 6, p. 1, doi. 10.1186/1471-2180-6-1

By:

Gaudermann, Peter;
Vogl, Ina;
Zientz, Evelyn;
Silva, Francisco J;
Moya, Andres;
Gross, Roy;
Dandekar, Thomas

Publication type:

Article

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

Published in:

PLoS Computational Biology, 2017, v. 13, n. 2, p. 1, doi. 10.1371/journal.pcbi.1005371

By:

Ewald, Jan;
Bartl, Martin;
Dandekar, Thomas;
Kaleta, Christoph

Publication type:

Article

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

Published in:

PLoS Computational Biology, 2017, v. 13, n. 1, p. 1, doi. 10.1371/journal.pcbi.1005317

By:

Kaltdorf, Kristin Verena;
Schulze, Katja;
Helmprobst, Frederik;
Kollmannsberger, Philip;
Dandekar, Thomas;
Stigloher, Christian

Publication type:

Article

CA/C1 peptidases of the malaria parasites Plasmodium falciparum and P. berghei and their mammalian hosts – a bioinformatical analysis.

Published in:

Biological Chemistry, 2009, v. 390, n. 11, p. 1185, doi. 10.1515/BC.2009.124

By:

Xiao, Ke;
Jehle, Franz;
Peters, Christoph;
Reinheckel, Thomas;
Schirmer, R. Heiner;
Dandekar, Thomas

Publication type:

Article

Supplementary material to the paper "B-Raf and C-Raf signaling investigated in a simplified model of the mitogenic kinase cascade".

Published in:

Biological Chemistry, 2005, v. 386, n. 11, p. Sup36, doi. 10.1515/BC.2005.133SUP

By:

Robubi, Armin;
Mueller, Tobias;
Fueller, Jochen;
Hekman, Mirko;
Rapp, Ulf R.;
Dandekar, Thomas

Publication type:

Article

B-Raf and C-Raf signaling investigated in a simplified model of the mitogenic kinase cascade.

Published in:

Biological Chemistry, 2005, v. 386, n. 11, p. 1165, doi. 10.1515/BC.2005.133

By:

Robubi, Armin;
Mueller, Tobias;
Fueller, Jochen;
Hekman, Mirko;
Rapp, Ulf R.;
Dandekar, Thomas

Publication type:

Article

Modelling interaction sites in protein domains with interaction profile hidden Markov models.

Published in:

Bioinformatics, 2006, v. 22, n. 23, p. 2851, doi. 10.1093/bioinformatics/btl486

By:

Friedrich, Torben;
Pils, Birgit;
Dandekar, Thomas;
Schultz, Jörg;
Müller, Tobias

Publication type:

Article

ProfDist: a tool for the construction of large phylogenetic trees based on profile distances.

Published in:

Bioinformatics, 2005, v. 21, n. 9, p. 2108, doi. 10.1093/bioinformatics/bti289

By:

Joachim Friedrich;
Thomas Dandekar;
Matthias Wolf;
Tobias Mller

Publication type:

Article

Systematic genomic screening and analysis of mRNA in untranslated regions and mRNA precursors: combining experimental and computational approaches.

Published in:

Bioinformatics, 1998, v. 14, n. 3, p. 271, doi. 10.1093/bioinformatics/14.3.271

By:

Dandekar, Thomas;
Beyer, Katrin;
Bork, Peer;
Kenealy, Mary-Rose;
Pantopoulos, Kostas;
Hentze, Mathias;
Sonntag-Buck, Vera;
Flouriot, Gilles;
Gannon, Frank;
Schreiber, Sonja

Publication type:

Article

Delaying memory decline: different options and emerging solutions.

Published in:

Translational Psychiatry, 2020, v. 10, n. 1, p. 1, doi. 10.1038/s41398-020-0697-x

By:

Schneider, Felicitas;
Horowitz, Alan;
Lesch, Klaus-Peter;
Dandekar, Thomas

Publication type:

Article

Software JimenaE allows efficient dynamic simulations of Boolean networks, centrality and system state analysis.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-022-27098-7

By:

Kaltdorf, Martin;
Breitenbach, Tim;
Karl, Stefan;
Fuchs, Maximilian;
Kessie, David Komla;
Psota, Eric;
Prelog, Martina;
Sarukhanyan, Edita;
Ebert, Regina;
Jakob, Franz;
Dandekar, Gudrun;
Naseem, Muhammad;
Liang, Chunguang;
Dandekar, Thomas

Publication type:

Article

Author Correction: Estimation of R0 for the spread of SARS-CoV-2 in Germany from excess mortality.

Published in:

2022

By:

Prada, Juan Pablo;
Maag, Luca Estelle;
Siegmund, Laura;
Bencurova, Elena;
Liang, Chunguang;
Koutsilieri, Eleni;
Dandekar, Thomas;
Scheller, Carsten

Publication type:

Correction Notice

Motif and conserved module analysis in DNA (promoters, enhancers) and RNA (lncRNA, mRNA) using AlModules.

Published in:

Scientific Reports, 2022, v. 12, n. 1, p. 1, doi. 10.1038/s41598-022-21732-0

By:

Aydinli, Muharrem;
Liang, Chunguang;
Dandekar, Thomas

Publication type:

Article