If you made any changes in Pure these will be visible here soon.

Research Output 2006 2018

Filter
Article
2018

ContextuWall: multi-site collaboration using display walls

Klapperstueck, M., Czauderna, T., Goncu, C., Glowacki, J., Dwyer, T., Schreiber, F. & Marriott, K., Jun 2018, In : Journal of Visual Languages and Computing. 46, p. 35-42 8 p.

Research output: Contribution to journalArticleResearchpeer-review

Genome-scale metabolic modelling of responses to polymyxins in Pseudomonas aeruginosa

Zhu, Y., Czauderna, T., Zhao, J., Klapperstueck, M., Mahamad Maifiah, M. H., Han, M-L., Lu, J., Sommer, B., Velkov, T., Lithgow, T., Song, J., Schreiber, F. & Li, J., Apr 2018, In : GigaScience. 7, 4, 18 p., giy021.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
2016

Toward community standards and software for whole-cell modeling

Waltemath, D., Karr, J. R., Bergmann, F. T., Chelliah, V., Hucka, M., Krantz, M., Liebermeister, W., Mendes, P., Myers, C. J., Pir, P., Alaybeyoglu, B., Aranganathan, N. K., Baghalian, K., Bittig, A. T., Burke, P. E. P., Cantarelli, M., Chew, Y. H., Costa, R. S., Cursons, J., Czauderna, T. & 37 othersGoldberg, A. P., Gomez, H. F., Hahn, J., Hameri, T., Gardiol, D. F. H., Kazakiewicz, D., Kiselev, I., Knight-Schrijver, V., Knupfer, C., Konig, M., Lee, D., Lloret-Villas, A., Mandrik, N., Medley, J. K., Moreau, B., Naderi-Meshkin, H., Palaniappan, S. K., Priego-Espinosa, D., Scharm, M., Sharma, M., Smallbone, K., Stanford, N. J., Song, J-H., Theile, T., Tokic, M., Tomar, N., Toure, V., Uhlendorf, J., Varusai, T. M., Watanabe, L. H., Wendland, F., Wolfien, M., Yurkovich, J. T., Zhu, Y., Zardilis, A., Zhukova, A. & Schreiber, F., 1 Oct 2016, In : IEEE Transactions on Biomedical Engineering. 63, 10, p. 2007-2014 8 p., 7489010.

Research output: Contribution to journalArticleResearchpeer-review

2015

Metabolomics, standards, and metabolic modeling for synthetic biology in plants

Hill, C. B., Czauderna, T., Klapperstueck, M., Roessner, U. & Schreiber, F., 21 Oct 2015, In : Frontiers in Bioengineering and Biotechnology. 3, 12 p., 167.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2

Mi, H., Schreiber, F., Moodie, S., Czauderna, T., Demir, E., Haw, R., Luna, A., Le Novère, N., Sorokin, A. & Villéger, A., 2015, In : Journal of integrative bioinformatics. 12, 2, p. 340-381 42 p., 265.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2

Sorokin, A., Le Novère, N., Luna, A., Czauderna, T., Demir, E., Haw, R., Mi, H., Moodie, S., Schreiber, F. & Villéger, A., 2015, In : Journal of integrative bioinformatics. 12, 2, p. 281-340 59 p., 264.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
2014

Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)

Waltemath, D., Bergmann, F. T., Chaouiya, C., Czauderna, T., Gleeson, P., Goble, C., Golebiewski, M., Hucka, M., Juty, N., Krebs, O., Le Novere, N., Mi, H., Moraru, I. I., Myers, C. J., Nickerson, D., Olivier, B. G., Rodriguez, N., Schreiber, F., Smith, L., Zhang, F. & 1 othersBonnet, E., 2014, In : Standards in Genomic Sciences. 9, 3, p. 1285 - 1301 17 p.

Research output: Contribution to journalArticleOther

2013

Conversion of KEGG metabolic pathways to SBGN maps including automatic layout

Czauderna, T., Wybrow, M. J., Marriott, K. G. & Schreiber, F., 2013, In : BMC Bioinformatics. 14, p. 1 - 17 17 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Path2Models: Large-scale generation of computational models from biochemical pathway maps

Buchel, F., Rodriguez, N., Swainston, N., Wrzodek, C., Czauderna, T., Keller, R., Mittag, F., Schubert, M., Glont, M., Golebiewski, M., van Iersel, M. P., Keating, S., Rall, M., Wybrow, M. J., Hermjakob, H., Hucka, M., Kell, D. B., Muller, W., Mendes, P., Zell, A. & 6 othersChaouiya, C., Saez-Rodriguez, J., Schreiber, F., Laibe, C., Drager, A. & Le Novere, N., 2013, In : BMC Systems Biology. 7, p. 1 - 19 19 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access

Translation of SBGN maps: Process description to activity flow

Vogt, T., Czauderna, T. & Schreiber, F., 2013, In : BMC Systems Biology. 7, p. 1 - 19 19 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
2012

Creating interactive, web-based and data-enriched maps with the Systems Biology Graphical Notation

Junker, A., Rohn, H., Czauderna, T., Klukas, C., Hartmann, A. & Schreiber, F., 2012, In : Nature Protocols. 7, 3, p. 579 - 593 15 p.

Research output: Contribution to journalArticleResearchpeer-review

MetaCrop 2.0: Managing and exploring information about crop plant metabolism

Schreiber, F., Colmsee, C., Czauderna, T., Grafahrend-Belau, E., Hartmann, A., Junker, A., Junker, B., Klapperstueck, M., Scholz, U. & Weise, S., 2012, In : Nucleic Acids Research. 40, p. 1173 - 1177 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Optimas-DW: a comprehensive transcriptomics, metabolomics, ionomics, proteomics and phenomics data resource for maize

Colmsee, C., Mascher, M., Czauderna, T., Hartmann, A., Schluter, U., Zellerhoff, N., Schmitz, J., Brautigam, A., Pick, T. R., Alter, P., Gahrtz, M., Witt, S., Fernie, A. R., Bornke, F. A. J., Fahnenstich, H., Bucher, M., Dresselhaus, T., Weber, A. P. M., Schreiber, F., Scholz, U. & 1 othersSonnewald, U., 2012, In : BMC Plant Biology. 12, 29, p. 1 - 10 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Software support for SBGN maps: SBGN-ML and LibSBGN

van Iersel, M. P., Villeger, A., Czauderna, T., Boyd, S. E., Bergmann, F. T., Luna, A., Demir, E., Sorokin, A., Dogrusoz, U., Matsuoka, Y., Funahashi, A., Aladjem, M. I., Mi, H., Moodie, S., Kitano, H., Le Novere, N. & Schreiber, F., 2012, In : Bioinformatics. 28, 15, p. 2016 - 2021 6 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Vanted v2: A framework for systems biology applications

Rohn, H., Junker, A., Hartmann, A., Grafahrend-Belau, E., Treutler, H., Klapperstueck, M., Czauderna, T., Klukas, C. & Schreiber, F., 2012, In : BMC Systems Biology. 6, p. 1 - 13 13 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Wiring diagrams in biology: Towards the standardized representation of biological information

Junker, A., Sorokin, A., Czauderna, T., Schreiber, F. & Mazein, A., 2012, In : Trends in Biotechnology. 30, 11, p. 555 - 557 3 p.

Research output: Contribution to journalArticleResearchpeer-review

2011

HTPheno: An image analysis pipeline for high-throughput plant phenotyping

Hartmann, A., Czauderna, T., Hoffmann, R., Stein, N. & Schreiber, F., 2011, In : BMC Bioinformatics. 12, p. 1 - 9 9 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
2010

Editing, validating and translating of SBGN maps

Czauderna, T., Klukas, C. & Schreiber, F., 2010, In : Bioinformatics. 26, 18, p. 2340-2341 2 p.

Research output: Contribution to journalArticleResearchpeer-review

Intraspecific hybrids of Arabidopsis thaliana revealed no gross alterations in endopolyploidy, DNA methylation, histone modifications and transcript levels

Moghaddam, A. M. B., Fuchs, J., Czauderna, T., Houben, A. & Mette, M. F., Jan 2010, In : Theoretical and Applied Genetics. 120, 2, p. 215-226 12 p.

Research output: Contribution to journalArticleResearchpeer-review

Novel developments of the MetaCrop information system for facilitating systems biological approaches

Hippe, K., Colmsee, C., Czauderna, T., Grafahrend-Belau, E., Junker, B., Klukas, C., Scholz, U., Schreiber, F. & Weise, S., 2010, In : Journal of integrative bioinformatics. 7, 3, p. 1 - 9 9 p.

Research output: Contribution to journalArticleResearchpeer-review

2008

Different hormonal regulation of cellular differentiation and function in nucellar projection and endosperm transfer cells: A microdissection-based transcriptome study of young barley grains

Thiel, J., Weier, D., Sreenivasulu, N., Strickert, M., Weichert, N., Melzer, M., Czauderna, T., Wobus, U., Weber, H. & Weschke, W., 1 Nov 2008, In : Plant Physiology. 148, 3, p. 1436-1452 17 p.

Research output: Contribution to journalArticleResearchpeer-review