Rechtliche Fragestellungen
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- Ostendorff, P., & Linke, D. (2019). Best-Practices im Umgang mit rechtlichen Fragestellungen zum Forschungsdatenmanagement (FDM). Bibliotheksdienst, 53(10–11), Article 10–11. https://doi.org/10.1515/bd-2019-0098
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- Brettschneider, P., Axtmann, A., Böker, E., & von Suchodoletz, D. (2021). Offene Lizenzen für Forschungsdaten - Rechtliche Bewertung und Praxistauglichkeit verbreiteter Lizenzmodelle. O-Bib. Das Offene Bibliotheksjournal, 8(3), Article 3. https://doi.org/10.5282/o-bib/5749
- Kubis, M., Naczinsky, M., Selzer, A., Sperlich, T., Steiner, S., & Waldmann, U. (2019). Der digitale nachlass - Eine Untersuchung aus rechtlicher und technischer Sicht (F.-I. für Sichere Informationstechnologie, U. Bremen/IGMR, & U. Regensburg, Hrsg.). https://doi.org/10.24406/sit-n-572149
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- Guibault, L., & Wiebe, A. (2013). Safe to be open. Study on the protection of research data and recommendations für access and usage. Universitätsverlag Göttingen.
- Lauber‐Rönsberg, A., Krahn, P., & Baumann, P. (2018). Gutachten zu den rechtlichen Rahmenbedingungen des Forschungsdatenmanagements. https://tu-dresden.de/gsw/jura/igewem/jfbimd13/ressourcen/dateien/publikationen/DataJus_Zusammenfassung_Gutachten_12-07-18.pdf?lang=de
- Hannover, L. U., & Informationsbibliothek, T. (2018). FAQs Zu Rechtlichen Aspekten Im Umgang Mit Forschungsdaten. https://doi.org/10.5281/zenodo.1173546
- Johannes, P. C., Potthoff, J., Roßnagel, A., Neumair, B., Madiesh, M., & Hackel, S. (2013). Beweissicheres elektronisches Laborbuch (Nomos, Hrsg.).
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- Nationalbibliothek, D. (Hrsg.). (2018). Lizenzangaben und Rechtedokumentationen im Dialog - Datenflüsse nachhaltig gestalten.
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- Ebel, T., & Meyermann, A. (2015). Hinweise zur Anonymisierung von quantitativen Daten. forschungsdaten bildung informiert, 3, Article 3. https://www.forschungsdaten-bildung.de/get_files.php?action=get_file&file=fdb-informiert-nr-3.pdf
- Kreutzer, T., & Lahmann, H. (2019). Rechtsfragen bei Open Science. Hamburg University Press. https://doi.org/10.15460/HUP.195
- Kleinkopf, F., Jacke, J., & Gärtner, M. (2021). Urheberrechtliche Grenzen der Nachnutzung wissenschaftlicher Korpora bei computergestützten Verfahren und digitalen Ressourcen.
Forschungssoftware
- Koch, T., Gläser, D., Seeland, A., Roy, S., Schulze, K., Weishaupt, K., Boehringer, D., Hermann, S., & Flemisch, B. (2023). A sustainable infrastructure concept for improved accessibility, reusability, and archival of research software.
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- Druskat, S., Bertuch, O., Juckeland, G., Knodel, O., & Schlauch, T. (2022). Software publications with rich metadata: state of the art, automated workflows and HERMES concept.
- Druskat, S., Bertuch, O., Juckeland, G., Knodel, O., & Schlauch, T. (2022). Software publications with rich metadata: state of the art, automated workflows and HERMES concept.
- Hirsch, M., Iglezakis, D., Leymann, F., & Zimmermann, M. (2022). The ReSUS Project - Infrastructure for Sharing Research Software. In E-Science-Tage 2021: Share Your Research Data (S. 267–276). heiBOOKS. https://doi.org/10.11588/HEIBOOKS.979.C13737
- Martinez, P. A., Barker, M., Struck, A., Castro, L. J., Erdmann, C., Garijo, D., Gesing, S., Loewe, A., & Moldón, J. (2022). A Survey on Adoption Guidelines for the FAIR4RS Principles. Zenodo. https://doi.org/10.5281/zenodo.6374598
- Martinez, P. A., Struck, A., Castro, L. J., Garijo, D., Loewe, A., Gesing, S., Barker, M., Chue Hong, N., Erdmann, C., Martinez-Ortiz, C., & Sansone, S.-A. (2022). A Survey on Adoption Guidelines for the FAIR4RS Principles: Dataset. Zenodo. https://doi.org/10.5281/zenodo.6375540
- Martinez-Ortiz, C., Katz, D. S., Lamprecht, A.-L., Barker, M., Loewe, A., Fouilloux, A., Wyngaard, J., Garijo, D., Moldon, J., Castro, L. J., Wheeler, D., Albers, J. R. D., & Lee, A. (2022). FAIR4RS: Adoption support. Zenodo. https://doi.org/10.5281/zenodo.6258366
- Anzt, H., Bach, F., Druskat, S., Löffler, F., Loewe, A., Renard, B. Y., Seemann, G., Struck, A., Achhammer, E., Aggarwal, P., Appel, F., Bader, M., Brusch, L., Busse, C., Chourdakis, G., Dabrowski, P. W., Ebert, P., Flemisch, B., Friedl, S., … Weeber, R. (2021). An environment for sustainable research software in Germany and beyond: current state, open challenges, and call for action. F1000Research, 9, 295. https://doi.org/10.12688/f1000research.23224.2
- Arvanitou, E.-M., Ampatzoglou, A., Chatzigeorgiou, A., & Carver, J. C. (2021). Software engineering practices for scientific software development: A systematic mapping study. Journal of Systems and Software, 172, 110848. https://doi.org/10.1016/j.jss.2020.110848
- Chue Hong, N. P., Katz, D. S., Barker, M., Lamprecht, A.-L., Martinez, C., Psomopoulos, F. E., Harrow, J., Castro, L. J., Gruenpeter, M., Martinez, P. A., & Honeyman, T. (2021). FAIR Principles for Research Software (FAIR4RS Principles). https://doi.org/10.15497/RDA00068
- Chue Hong, N. P., Katz, D. S., Barker, M., Lamprecht, A.-L., Martinez, C., Psomopoulos, F. E., Harrow, J., Castro, L. J., Gruenpeter, M., Martinez, P. A., & Honeyman, T. (2021). FAIR Principles for Research Software (FAIR4RS Principles). https://doi.org/10.15497/RDA00068
- Chue Hong, N. P., Katz, D. S., Barker, M., Lamprecht, A.-L., Martinez, C., Psomopoulos, F. E., Harrow, J., Castro, L. J., Gruenpeter, M., Martinez, P. A., & Honeyman, T. (2021). FAIR Principles for Research Software (FAIR4RS Principles). https://doi.org/10.15497/RDA00068
- Cimiano, P., Pietsch, C., & Wiljes, C. (2021). Studies in Analytical Reproducibility: the Conquaire Project (S. 8057464 bytes). https://doi.org/10.4119/UNIBI/2942780
- Gruenpeter, M., Katz, D. S., Lamprecht, A.-L., Honeyman, T., Garijo, D., Struck, A., Niehues, A., Martinez, P. A., Castro, L. J., Rabemanantsoa, T., Chue Hong, N. P., Martinez-Ortiz, C., Sesink, L., Liffers, M., Fouilloux, A. C., Erdmann, C., Peroni, S., Martinez Lavanchy, P., Todorov, I., & Sinha, M. (2021). Defining Research Software: a controversial discussion. Zenodo. https://doi.org/10.5281/ZENODO.5504016
- Gruenpeter, M., Katz, D. S., Lamprecht, A.-L., Honeyman, T., Garijo, D., Struck, A., Niehues, A., Martinez, P. A., Castro, L. J., Rabemanantsoa, T., Chue Hong, N. P., Martinez-Ortiz, C., Sesink, L., Liffers, M., Fouilloux, A. C., Erdmann, C., Peroni, S., Martinez Lavanchy, P., Todorov, I., & Sinha, M. (2021). Defining Research Software: a controversial discussion. Zenodo. https://doi.org/10.5281/ZENODO.5504016
- Katz, D. S., Gruenpeter, M., & Honeyman, T. (2021). Taking a fresh look at FAIR for research software. Patterns, 2(3), Article 3. https://doi.org/10.1016/j.patter.2021.100222
- Koch, T., Gläser, D., Weishaupt, K., Ackermann, S., Beck, M., Becker, B., Burbulla, S., Class, H., Coltman, E., Emmert, S., Fetzer, T., Grüninger, C., Heck, K., Hommel, J., Kurz, T., Lipp, M., Mohammadi, F., Scherrer, S., Schneider, M., … Flemisch, B. (2021). DuMux 3 – an open-source simulator for solving flow and transport problems in porous media with a focus on model coupling. Computers & Mathematics with Applications, 81, 423--443. https://doi.org/10.1016/j.camwa.2020.02.012
- Lee, G., Bacon, S., Bush, I., Fortunato, L., Gavaghan, D., Lestang, T., Morton, C., Robinson, M., Rocca-Serra, P., Sansone, S.-A., & Webb, H. (2021). Barely sufficient practices in scientific computing. Patterns, 2(2), Article 2. https://doi.org/10.1016/j.patter.2021.100206
- Lee, G., Bacon, S., Bush, I., Fortunato, L., Gavaghan, D., Lestang, T., Morton, C., Robinson, M., Rocca-Serra, P., Sansone, S.-A., & Webb, H. (2021). Barely sufficient practices in scientific computing. Patterns, 2(2), Article 2. https://doi.org/10.1016/j.patter.2021.100206
- van Aalst, M., Ebenhoeh, O., & Matuszynska, A. (2021). Constructing and analysing dynamic models with modelbase v1.2.3: a software update. BMC BIOINFORMATICS, 22(1), Article 1. https://doi.org/10.1186/s12859-021-04122-7
- Alliez, P., Cosmo, R. D., Guedj, B., Girault, A., Hacid, M.-S., Legrand, A., & Rougier, N. (2020). Attributing and Referencing (Research) Software: Best Practices and Outlook From Inria. Computing in Science Engineering, 22(1), Article 1. https://doi.org/10.1109/MCSE.2019.2949413
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- Anzt, H., Bach, F., Druskat, S., Löffler, F., Loewe, A., Renard, B. Y., Seemann, G., Struck, A., Achhammer, E., Aggarwal, P., Appel, F., Bader, M., Brusch, L., Busse, C., Chourdakis, G., Dabrowski, P. W., Ebert, P., Flemisch, B., Friedl, S., … Weeber, R. (2020). An environment for sustainable research software in Germany and beyond: current state, open challenges, and call for action. F1000Research, 9, 295. https://doi.org/10.12688/f1000research.23224.1
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- Cosmo, R. D., Gruenpeter, M., Marmol, B., Monteil, A., Romary, L., & Sadowska, J. (2020). Curated Archiving of Research Software Artifacts: Lessons Learned from the French Open Archive (HAL). International Journal of Digital Curation, 15(1), Article 1. https://doi.org/10.2218/ijdc.v15i1.698
- Cosmo, R. D., Gruenpeter, M., Marmol, B., Monteil, A., Romary, L., & Sadowska, J. (2020). Curated Archiving of Research Software Artifacts: Lessons Learned from the French Open Archive (HAL). International Journal of Digital Curation, 15(1), Article 1. https://doi.org/10.2218/ijdc.v15i1.698
- Flemisch, B., Hermann, S., Holm, C., Mehl, M., Reina, G., Uekermann, B., Boehringer, D., Ertl, T., Grad, J.-N., Iglezakis, D., Jaust, A., Koch, T., Seeland, A., Weeber, R., Weik, F., & Weishaupt, K. (2020). Umgang mit Forschungssoftware an der Universität Stuttgart. Universität Stuttgart. https://doi.org/10.18419/OPUS-11178
- Flemisch, B., Hermann, S., Holm, C., Mehl, M., Reina, G., Uekermann, B., Boehringer, D., Ertl, T., Grad, J.-N., Iglezakis, D., Jaust, A., Koch, T., Seeland, A., Weeber, R., Weik, F., & Weishaupt, K. (2020). Umgang mit Forschungssoftware an der Universität Stuttgart. Universität Stuttgart. https://doi.org/10.18419/OPUS-11178
- Flemisch, B., Hermann, S., Holm, C., Mehl, M., Reina, G., Uekermann, B., Boehringer, D., Ertl, T., Grad, J.-N., Iglezakis, D., Jaust, A., Koch, T., Seeland, A., Weeber, R., Weik, F., & Weishaupt, K. (2020). Umgang mit Forschungssoftware an der Universität Stuttgart. Universität Stuttgart. https://doi.org/10.18419/OPUS-11178
- Hasselbring, W., Carr, L., Hettrick, S., Packer, H., & Tiropanis, T. (2020). Open Source Research Software. Computer, 53(8), Article 8. https://doi.org/10.1109/MC.2020.2998235
- Hermann, S., Schneider, M., Flemisch, B., Frey, S., Iglezakis, D., Ruf, M., Schembera, B., Seeland, A., & Steeb, H. (2020). Datenmanagement im SFB 1313. Bausteine Forschungsdatenmanagement, 1. https://doi.org/10.17192/BFDM.2020.1.8085
- Magaña, P., Del-Rosal-Salido, J., Cobos, M., Lira-Loarca, A., & Ortega-Sánchez, M. (2020). Approaching Software Engineering for Marine Sciences: A Single Development Process for Multiple End-User Applications. Journal of Marine Science and Engineering, 8(5), Article 5. https://doi.org/10.3390/jmse8050350
- Pianosi, F., Sarrazin, F., & Wagener, T. (2020). How successfully is open-source research software adopted? Results and implications of surveying the users of a sensitivity analysis toolbox. Environmental Modelling & Software, 124, 104579. https://doi.org/10.1016/j.envsoft.2019.104579
- Ruiz-Rube, I., Person, T., Dodero, J. M., Mota, J. M., & Sánchez-Jara, J. M. (2020). Applying static code analysis for domain-specific languages. Software and Systems Modeling, 19(1), Article 1. https://doi.org/10.1007/s10270-019-00729-w
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- Trisovic, A., Durbin, P., Schlatter, T., Durand, G., Barbosa, S., Brooke, D., & Crosas, M. (2020). Advancing computational reproducibility in the Dataverse data repository platform. http://arxiv.org/abs/2005.02985
- Akhmerov, A., Cruz, M., Drost, N., Hof, C., Knapen, T., Kuzak, M., Martinez-Ortiz, C., der Velden, Y. T., & van Werkhoven, B. (2019). Raising the Profile of Research Software: Recommendations for Funding Agencies and Research Institutions (NWO, Hrsg.).
- Ballhausen, M. (2019). Free and Open Source Software Licenses Explained. IEEE Computer, 52(6), Article 6. http://dblp.uni-trier.de/db/journals/computer/computer52.html#Ballhausen19
- Druskat, S., Spaaks, J. H., Chue Hong, N., Haines, R., & Baker, J. (2019). Citation File Format (CFF) - Specifications. Zenodo. https://doi.org/10.5281/zenodo.3515946
- Erdmann, C., Simons, N., Otsuji, R., Labou, S., Johnson, R., Castelao, G., Boas, B. V., Lamprecht, A.-L., Ortiz, C. M., Garcia, L., Kuzak, M., Martinez, P. A., Stokes, L., Honeyman, T., Wise, S., Quan, J., Peterson, S., Neeser, A., Karvovskaya, L., … Dennis, T. (2019). Top 10 FAIR Data & Software Things. https://doi.org/10.5281/zenodo.2555498
- Fehr, J., Himpe, C., Rave, S., & Saak, J. (2019). Sustainable Research Software Hand-Over. CoRR, abs/1909.09469. http://dblp.uni-trier.de/db/journals/corr/corr1909.html#abs-1909-09469
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- Gomez-Diaz, T., & Recio, T. (2019). On the evaluation of research software: the CDUR procedure. F1000Research, 8, 1353. https://doi.org/10.12688/f1000research.19994.2
- Gärtner, M. (2019). RePlay-DH Client v1.3.0. https://doi.org/10.18419/darus-475
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- Hermann, S., Iglezakis, D., & Seeland, A. (2019). Requirements for Finding Research Data and Software. PAMM, 19(1), Article 1. https://doi.org/10.1002/pamm.201900480
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- Jurkowska, R. Z., & Jeltsch, A. (o. J.). DNA Methyltransferases - Role and Function Preface. In Jeltsch, A and Jurkowska, RZ (Hrsg.), DNA METHYLTRANSFERASES - ROLE AND FUNCTION (Bd. 945, S. V–VI). SPRINGER INT PUBLISHING AG.
- Lieder, S., Jahn, M., Koepff, J., Mueller, S., & Takors, R. (o. J.). Environmental stress speeds up DNA replication in Pseudomonas putida in chemostat cultivations. BIOTECHNOLOGY JOURNAL, 11(1, SI), Article 1, SI. https://doi.org/10.1002/biot.201500059
- Loeffler, M., Simen, J. D., Jaeger, G., Schaeferhoff, K., Freund, A., & Takors, R. (o. J.). Engineering E-coli for large-scale production - Strategies considering ATP expenses and transcriptional responses. METABOLIC ENGINEERING, 38, 73–85. https://doi.org/10.1016/j.ymben.2016.06.008
- Pfizenmaier, J., Junghans, L., Teleki, A., & Takors, R. (o. J.). Hyperosmotic stimulus study discloses benefits in ATP supply and reveals miRNA/mRNA targets to improve recombinant protein production of CHO cells. BIOTECHNOLOGY JOURNAL, 11(8), Article 8. https://doi.org/10.1002/biot.201500606
- Sanchez-Kopper, A., Becker, M., Pfizenmaier, J., Kessler, C., Karau, A., & Takors, R. (o. J.). Tracking dipeptides at work-uptake and intracellular fate in CHO culture. AMB EXPRESS, 6. https://doi.org/10.1186/s13568-016-0221-0
- Takors, R., & de Lorenzo, V. (o. J.). Editorial overview: Microbial systems biology: systems biology prepares the ground for successful synthetic biology. CURRENT OPINION IN MICROBIOLOGY, 33, VIII–X. https://doi.org/10.1016/j.mib.2016.08.003
- Takors, R. (o. J.). Editorial: How can we ensure the successful transfer from lab- to large-scale production? ENGINEERING IN LIFE SCIENCES, 16(7), Article 7. https://doi.org/10.1002/elsc.201670073
- Wutz, J., Lapin, A., Siebler, F., Schaefer, J. E., Wucherpfennig, T., Berger, M., & Takors, R. (o. J.). Predictability of k(L)a in stirred tank reactors under multiple operating conditions using an Euler-Lagrange approach. ENGINEERING IN LIFE SCIENCES, 16(7), Article 7. https://doi.org/10.1002/elsc.201500135
- Caracciolo, E., Kemnitzer, M., Rumpel, M., Guandalini, A., Pirzio, F., Kienle, F., Graf, T., Ahmed, M. A., der Au, J. A., & Agnesi, A. (o. J.). Single-grating-mirror intracavity stretcher design for chirped pulse regenerative amplification. OPTICS LETTERS, 40(7), Article 7. https://doi.org/10.1364/OL.40.001532
- Freitag, C., Wiedenmann, M., Negel, J.-P., Loescher, A., Onuseit, V., Weber, R., Ahmed, M. A., & Graf, T. (o. J.). High-quality processing of CFRP with a 1.1-kW picosecond laser. APPLIED PHYSICS A-MATERIALS SCIENCE & PROCESSING, 119(4), Article 4. https://doi.org/10.1007/s00339-015-9159-3
- Heider, A., Weber, R., Herrmann, D., Herzog, P., & Graf, T. (o. J.). Power modulation to stabilize laser welding of copper. JOURNAL OF LASER APPLICATIONS, 27(2), Article 2. https://doi.org/10.2351/1.4906127
- Henkel, M., Zwick, M., Beuker, J., Willenbacher, J., Baumann, S., Oswald, F., Neumann, A., Siemann-Herzberg, M., Syldatk, C., & Hausmann, R. (o. J.). Teaching bioprocess engineering to undergraduates: Multidisciplinary hands-on training in a one-week practical course. BIOCHEMISTRY AND MOLECULAR BIOLOGY EDUCATION, 43(3), Article 3. https://doi.org/10.1002/bmb.20860
- Lieder, S., Nikel, P. I., de Lorenzo, V., & Takors, R. (o. J.). Genome reduction boosts heterologous gene expression in Pseudomonas putida. MICROBIAL CELL FACTORIES, 14. https://doi.org/10.1186/s12934-015-0207-7
- Mateo, C. M. N., Brauch, U., Schwarzbaeck, T., Kahle, H., Jetter, M., Ahmed, M. A., Michler, P., & Graf, T. (o. J.). Enhanced efficiency of AlGaInP disk laser by in-well pumping. OPTICS EXPRESS, 23(3), Article 3. https://doi.org/10.1364/OE.23.002472
- Matuszczyk, J.-C., Teleki, A., Pfizenmaier, J., & Takors, R. (o. J.). Compartment-specific metabolomics for CHO reveals that ATP pools in mitochondria are much lower than in cytosol. BIOTECHNOLOGY JOURNAL, 10(10, SI), Article 10, SI. https://doi.org/10.1002/biot.201500060
- Mucha, P., Berger, P., Weber, R., Speker, N., Sommer, B., & Graf, T. (o. J.). Calibrated heat flow model for the determination of different heat-affected zones in single-pass laser-cut CFRP using a cw CO2 laser. APPLIED PHYSICS A-MATERIALS SCIENCE & PROCESSING, 118(4), Article 4. https://doi.org/10.1007/s00339-014-8932-z
- Pfizenmaier, J., Matuszczyk, J.-C., & Takors, R. (o. J.). Changes in intracellular ATP-content of CHO cells as response to hyperosmolality. BIOTECHNOLOGY PROGRESS, 31(5), Article 5. https://doi.org/10.1002/btpr.2143
- Rimbon, J., Sanchez-Kopper, A., Wahl, A., & Takors, R. (o. J.). Monitoring intracellular protein degradation in antibody-producing Chinese hamster ovary cells. ENGINEERING IN LIFE SCIENCES, 15(5, SI), Article 5, SI. https://doi.org/10.1002/elsc.201400103
- Teleki, A., Sanchez-Kopper, A., & Takors, R. (o. J.). Alkaline conditions in hydrophilic interaction liquid chromatography for intracellular metabolite quantification using tandem mass spectrometry. ANALYTICAL BIOCHEMISTRY, 475, 4–13. https://doi.org/10.1016/j.ab.2015.01.002
- Vallon, T., Simon, O., Rendgen-Heugle, B., Frana, S., Mueckschel, B., Broicher, A., Siemann-Herzberg, M., Pfannenstiel, J., Hauer, B., Huber, A., Breuer, M., & Takors, R. (o. J.). Applying systems biology tools to study n-butanol degradation in Pseudomonas putida KT2440. ENGINEERING IN LIFE SCIENCES, 15(8), Article 8. https://doi.org/10.1002/elsc.201400051
- Buchholz, J., Graf, M., Freund, A., Busche, T., Kalinowski, J., Blombach, B., & Takors, R. (o. J.). CO2/HCO3 (-) perturbations of simulated large scale gradients in a scale-down device cause fast transcriptional responses in Corynebacterium glutamicum. APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 98(20), Article 20. https://doi.org/10.1007/s00253-014-6014-y
- Buchholz, J., Graf, M., Blombach, B., & Takors, R. (o. J.). Improving the carbon balance of fermentations by total carbon analyses. BIOCHEMICAL ENGINEERING JOURNAL, 90, 162–169. https://doi.org/10.1016/j.bej.2014.06.007
- Gelves, R., Dietrich, A., & Takors, R. (o. J.). Modeling of gas-liquid mass transfer in a stirred tank bioreactor agitated by a Rushton turbine or a new pitched blade impeller. BIOPROCESS AND BIOSYSTEMS ENGINEERING, 37(3), Article 3. https://doi.org/10.1007/s00449-013-1001-8
- Lieder, S., Jahn, M., Seifert, J., von Bergen, M., Mueller, S., & Takors, R. (o. J.). Subpopulation-proteomics reveal growth rate, but not cell cycling, as a major impact on protein composition in Pseudomonas putida KT2440. AMB EXPRESS, 4. https://doi.org/10.1186/s13568-014-0071-6
- Lindner, R., Moosmann, A., Dietrich, A., Boettinger, H., Kontermann, R., & Siemann-Herzberg, M. (o. J.). Process development of periplasmatically produced single chain fragment variable against epidermal growth factor receptor in Escherichia coli. JOURNAL OF BIOTECHNOLOGY, 192(A), Article A. https://doi.org/10.1016/j.jbiotec.2014.10.003
- Schuhmacher, T., Loeffler, M., Hurler, T., & Takors, R. (o. J.). Phosphate limited fed-batch processes: Impact on carbon usage and energy metabolism in Escherichia coli. JOURNAL OF BIOTECHNOLOGY, 190, 96–104. https://doi.org/10.1016/j.jbiotec.2014.04.025
- Sudarsan, S., Dethlefsen, S., Blank, L. M., Siemann-Herzberg, M., & Schmid, A. (o. J.). The Functional Structure of Central Carbon Metabolism in Pseudomonas putida KT2440. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 80(17), Article 17. https://doi.org/10.1128/AEM.01643-14
- Weber, R., Graf, T., Berger, P., Onuseit, V., Wiedenmann, M., Freitag, C., & Feuer, A. (o. J.). Heat accumulation during pulsed laser materials processing (vol 22, pg 11312, 2014). OPTICS EXPRESS, 22(23), Article 23. https://doi.org/10.1364/OE.22.028232
- Blombach, B., Buchholz, J., Busche, T., Kalinowski, J., & Takors, R. (o. J.). Impact of different CO2/HCO3- levels on metabolism and regulation in Corynebacterium glutamicum. JOURNAL OF BIOTECHNOLOGY, 168(4), Article 4. https://doi.org/10.1016/j.jbiotec.2013.10.005
- Buchholz, J., Schwentner, A., Brunnenkan, B., Gabris, C., Grimm, S., Gerstmeir, R., Takors, R., Eikmanns, B. J., & Blombach, B. (o. J.). Platform Engineering of Corynebacterium glutamicum with Reduced Pyruvate Dehydrogenase Complex Activity for Improved Production of L-Lysine, L-Valine, and 2-Ketoisovalerate. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 79(18), Article 18. https://doi.org/10.1128/AEM.01741-13
- Soellner, S., Rahnert, M., Siemann-Herzberg, M., Takors, R., & Altenbuchner, J. (o. J.). Evolution of pyruvate kinase-deficient Escherichia coli mutants enables glycerol-based cell growth and succinate production. JOURNAL OF APPLIED MICROBIOLOGY, 115(6), Article 6. https://doi.org/10.1111/jam.12333
- Vallon, T., Glemser, M., Malca, S. H., Scheps, D., Schmid, J., Siemann-Herzberg, M., Hauer, B., & Takors, R. (o. J.). Production of 1-Octanol from n-Octane by Pseudomonas putida KT2440. CHEMIE INGENIEUR TECHNIK, 85(6), Article 6. https://doi.org/10.1002/cite.201200178
- Takors, R. (o. J.). Scale-up of microbial processes: Impacts, tools and open questions. JOURNAL OF BIOTECHNOLOGY, 160(1–2), Article 1–2. https://doi.org/10.1016/j.jbiotec.2011.12.010
- Bongaerts, J., Esser, S., Lorbach, V., Al-Momani, L., Mueller, M. A., Franke, D., Grondal, C., Kurutsch, A., Bujnicki, R., Takors, R., Raeven, L., Wubbolts, M., Bovenberg, R., Nieger, M., Schuermann, M., Trachtmann, N., Kozak, S., Sprenger, G. A., & Mueller, M. (o. J.). Diversity-Oriented Production of Metabolites Derived from Chorismate and Their Use in Organic Synthesis. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, 50(34), Article 34. https://doi.org/10.1002/anie.201103261
- Vielhauer, O., Zakhartsev, M., Horn, T., Takors, R., & Reuss, M. (o. J.). Simplified absolute metabolite quantification by gas chromatography-isotope dilution mass spectrometry on the basis of commercially available source material. JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES, 879(32), Article 32. https://doi.org/10.1016/j.jchromb.2011.10.036
- Wenzel, M., Mueller, A., Siemann-Herzberg, M., & Altenbuchner, J. (o. J.). Self-Inducible Bacillus subtilis Expression System for Reliable and Inexpensive Protein Production by High-Cell-Density Fermentation. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 77(18), Article 18. https://doi.org/10.1128/AEM.05219-11
- Canelas, A. B., Harrison, N., Fazio, A., Zhang, J., Pitkanen, J.-P., van den Brink, J., Bakker, B. M., Bogner, L., Bouwman, J., Castrillo, J. I., Cankorur, A., Chumnanpuen, P., Daran-Lapujade, P., Dikicioglu, D., van Eunen, K., Ewald, J. C., Heijnen, J. J., Kirdar, B., Mattila, I., … Nielsen, J. (o. J.). Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. NATURE COMMUNICATIONS, 1. https://doi.org/10.1038/ncomms1150
- Hardiman, T., Meinhold, H., Hofmann, J., Ewald, J. C., Siemann-Herzberg, M., & Reuss, M. (o. J.). Prediction of kinetic parameters from DNA-binding site sequences for modeling global transcription dynamics in Escherichia coli. METABOLIC ENGINEERING, 12(3), Article 3. https://doi.org/10.1016/j.ymben.2009.10.006
- Schuhmacher, T., Lemuth, K., Hardiman, T., Vacun, G., Reuss, M., & Siemann-Herzberg, M. (o. J.). Quantifying cytosolic messenger RNA concentrations in Escherichia coli using real-time polymerase chain reaction for a systems biology approach. ANALYTICAL BIOCHEMISTRY, 398(2), Article 2. https://doi.org/10.1016/j.ab.2009.11.025
- Magnus, J. B., Oldiges, M., & Takors, R. (o. J.). The Identification of Enzyme Targets for the Optimization of a Valine Producing Corynebacterium glutamicum Strain Using a Kinetic Model. BIOTECHNOLOGY PROGRESS, 25(3), Article 3. https://doi.org/10.1002/btpr.184
Best Practices
- Garbuglia, F., Saenen, B., Gaillard, V., & Engelhardt, C. (2021). D7.5 Good Practices in FAIR Competence Education. Zenodo. https://doi.org/10.5281/zenodo.5785253
- Kümmet, S., Lücke, S., Schulz, J., Spenger, M., & Weber, T. (2019). DataCite Best Practice Guide. Zenodo. https://doi.org/10.5281/zenodo.3559799
- Ostendorff, P., & Linke, D. (2019). Best-Practices im Umgang mit rechtlichen Fragestellungen zum Forschungsdatenmanagement (FDM). Bibliotheksdienst, 53(10–11), Article 10–11. https://doi.org/10.1515/bd-2019-0098
- Austin, C. C., Bloom, T., Dallmeier-Tiessen, S., Khodiyar, V. K., Murphy, F., Nurnberger, A., Raymond, L., Stockhause, M., Tedds, J., Vardigan, M., & Whyte, A. (2017). Key components of data publishing: using current best practices to develop a reference model for data publishing. International Journal on Digital Libraries, 18(2), Article 2. https://doi.org/10.1007/s00799-016-0178-2
- Fehr, J., and Jan Heiland, Himpe, C., & Saak, J. (2016). Best practices for replicability, reproducibility and reusability of computer-based experiments exemplified by model reduction software. AIMS Mathematics, 1(3), Article 3. https://doi.org/10.3934/math.2016.3.261
Beschreibung von Forschungsdaten
- Schembera, B., & Iglezakis, D. (o. J.). The Genesis of EngMeta - A Metadata Model for Research Data in Computational Engineering. In Metadata and Semantic Research. 12th International Conference, MTSR 2018, Limassol, Cyprus, 23-26 October 2018, Proceedings. Springer.
- Behr, A. S., Völkenrath, M., & Kockmann, N. (2023). Ontology Extension with NLP-based Concept Extraction for Domain Experts in Catalytic Sciences. https://doi.org/10.21203/rs.3.rs-2457909/v1
- Buys, M. (2023). DataCite Looking Ahead – Global Data Citation Corpus for All Data Citations. Zenodo. https://doi.org/10.5281/ZENODO.7634709
- Buys, M. (2023). DataCite Looking Ahead – Global Data Citation Corpus for All Data Citations. Zenodo. https://doi.org/10.5281/ZENODO.7634709
- Lauterbach, S., Dienhart, H., Range, J., Malzacher, S., Spöring, J.-D., Rother, D., Pinto, M. F., Martins, P., Lagerman, C. E., Bommarius, A. S., Høst, A. V., Woodley, J. M., Ngubane, S., Kudanga, T., Bergmann, F. T., Rohwer, J. M., Iglezakis, D., Weidemann, A., Wittig, U., … Pleiss, J. (2023). EnzymeML: seamless data flow and modeling of enzymatic data. Nature Methods. https://doi.org/10.1038/s41592-022-01763-1
- Lauterbach, S., Dienhart, H., Range, J., Malzacher, S., Spöring, J.-D., Rother, D., Pinto, M. F., Martins, P., Lagerman, C. E., Bommarius, A. S., Høst, A. V., Woodley, J. M., Ngubane, S., Kudanga, T., Bergmann, F. T., Rohwer, J. M., Iglezakis, D., Weidemann, A., Wittig, U., … Pleiss, J. (2023). EnzymeML: seamless data flow and modeling of enzymatic data. Nature Methods. https://doi.org/10.1038/s41592-022-01763-1
- Arndt, S., Farnbacher, B., Fuhrmans, M., Hachinger, S., Hickmann, J., Hoppe, N., Horsch, M. T., Iglezakis, D., Karmacharya, A., Lanza, G., Leimer, S., Munke, J., Terzijska, D., Theissen-Lipp, J., Wiljes, C., & Windeck, J. (2022). Metadata4Ing: An ontology for describing the generation of research data within a scientific activity. (Zenodo, Hrsg.). Zenodo. https://doi.org/10.5281/zenodo.5957104
- Doorn, P., Steinhoff, W., Verburg, M., Grootveld, M., & Dillo, I. (2022). F-UJI and FAIR Enough tool comparison dataset (European Research Data Landscape study). Zenodo. https://doi.org/10.5281/ZENODO.7371409
- Druskat, S., Bertuch, O., Juckeland, G., Knodel, O., & Schlauch, T. (2022). Software publications with rich metadata: state of the art, automated workflows and HERMES concept.
- Druskat, S., Bertuch, O., Juckeland, G., Knodel, O., & Schlauch, T. (2022). Software publications with rich metadata: state of the art, automated workflows and HERMES concept.
- Hirsch, M., Iglezakis, D., Leymann, F., & Zimmermann, M. (2022). The ReSUS Project - Infrastructure for Sharing Research Software. In E-Science-Tage 2021: Share Your Research Data (S. 267–276). heiBOOKS. https://doi.org/10.11588/HEIBOOKS.979.C13737
- Anzt, H., Bach, F., Druskat, S., Löffler, F., Loewe, A., Renard, B. Y., Seemann, G., Struck, A., Achhammer, E., Aggarwal, P., Appel, F., Bader, M., Brusch, L., Busse, C., Chourdakis, G., Dabrowski, P. W., Ebert, P., Flemisch, B., Friedl, S., … Weeber, R. (2021). An environment for sustainable research software in Germany and beyond: current state, open challenges, and call for action. F1000Research, 9, 295. https://doi.org/10.12688/f1000research.23224.2
- de Vries, J., Tykhonov, V., Scharnhorst, A., Indarto, E., & Admiraal, F. (2021). Flexible metadata schemes for research data repositories - The Common Framework in Dataverse and the CMDI use case. In M. Monachini & M. Eskevich (Hrsg.), Proceedings of the CLARIN Annual Conference 2021 (S. 109–118).
- Horsch, M. T., Morgado, J. F., Goldbeck, G., Iglezakis, D., Konchakova, N. A., & Schembera, B. (2021). Domain-specific metadata standardization in materials modelling. Domain Ontologies for Research Data Management in Industry Commons of Materials and Manufacturing. https://openreview.net/forum?id=uYgdGd7_wgH
- Iglezakis, D., Fuhrmans, M., Arndt, S., Demandt, É., Hachinger, S., Hausen, D., Lanza, G., Lipp, J., Stotzka, R., & Terzijska, D. (2021). Interoperabilität von Metadaten innerhalb der NFDI: Konsortienübergreifender Metadaten-Workshop am 2./3. Juli 2020. Bausteine Forschungsdatenmanagement, 2, Article 2. https://doi.org/10.17192/bfdm.2021.2.8313
- Iglezakis, D., Fuhrmans, M., Arndt, S., Demandt, É., Hachinger, S., Hausen, D., Lanza, G., Lipp, J., Stotzka, R., & Terzijska, D. (2021). Interoperabilität von Metadaten innerhalb der NFDI: Konsortienübergreifender Metadaten-Workshop am 2./3. Juli 2020. Bausteine Forschungsdatenmanagement, 2, Article 2. https://doi.org/10.17192/bfdm.2021.2.8313
- Schembera, B. (2021). Like a rainbow in the dark: metadata annotation for HPC applications in the age of dark data. The Journal of Supercomputing. https://doi.org/10.1007/s11227-020-03602-6
- Wu, M., Juty, N., Research Metadata Schemas WG, R., Collins, J., Duerr, R., Ridsdale, C., Shepherd, A., Verhey, C., & Jael Castro, L. (2021). Guidelines for publishing structured metadata on the web (R. D. Alliance, Hrsg.). https://www.rd-alliance.org/system/files/documents/Guidelines%20for%20publishing%20structured%20data_V3.0_20210615.pdf
- Biernacka, K. (2020). LEGO® Metadaten für die Reproduzierbarkeit. Zenodo. https://doi.org/10.5281/ZENODO.3733164
- Hermann, S., Schneider, M., Flemisch, B., Frey, S., Iglezakis, D., Ruf, M., Schembera, B., Seeland, A., & Steeb, H. (2020). Datenmanagement im SFB 1313. Bausteine Forschungsdatenmanagement, 1, Article 1. https://doi.org/10.17192/bfdm.2020.1.8085
- Hermann, S., Schneider, M., Flemisch, B., Frey, S., Iglezakis, D., Ruf, M., Schembera, B., Seeland, A., & Steeb, H. (2020). Datenmanagement im SFB 1313. Bausteine Forschungsdatenmanagement, 1, Article 1. https://doi.org/10.17192/bfdm.2020.1.8085
- Hub, T. C. I. (Hrsg.). (2020). A survey of Top-Level Ontologies.
- Hugo, W., Le Franc, Y., Coen, G., Parland-von Essen, J., & Bonino, L. (2020). D2.5 FAIR Semantics Recommendations Second Iteration. https://doi.org/10.5281/ZENODO.4314321
- Kesper, A., Wenz, V., & Taentzer, G. (2020). Detecting Quality Problems in Research Data: A Model-Driven Approach. http://arxiv.org/abs/2007.11298
- Schembera, B., & Iglezakis, D. (2020). EngMeta - Metadata for Computational Engineering. International Journal of Metadata, Semantics and Ontologies, 14(1), Article 1. https://doi.org/10.1504/IJMSO.2020.107792
- Selent, B., Kraus, H., Hansen, N., Schembera, B., Seeland, A., & Iglezakis, D. (2020). Management of Research Data in Computational Fluid Dynamics and Thermodynamics. In V. Heuveline, F. Gebhart, & N. Mohammadianbisheh (Hrsg.), E-Science-Tage 2019: Data to Knowledge (S. 128–139). HeiBOOKS. https://doi.org/10.11588/heibooks.598
- Grunzke, R., Hartmann, V., Jejkal, T., Kollai, H., Prabhune, A., Herold, H., Deicke, A., Dressler, C., Dolhoff, J., Stanek, J., Hoffmann, A., Müller-Pfefferkorn, R., Schrade, T., Meinel, G., Herres-Pawlis, S., & Nagel, W. E. (2019). The MASi repository service — Comprehensive, metadata-driven and multi-community research data management. Future Generation Computer Systems, 94, 879–894. https://doi.org/10.1016/j.future.2017.12.023
- Horsch, M. T., Niethammer, C., Boccardo, G., Carbone, P., Chiacchiera, S., Chiricotto, M., Elliott, J. D., Lobaskin, V., Neumann, P., Schiffels, P., Seaton, M. A., Todorov, I. T., Vrabec, J., & Cavalcanti, W. L. (2019). Semantic Interoperability and Characterization of Data Provenance in Computational Molecular Engineering. Journal of Chemical & Engineering Data, 65(3), Article 3. https://doi.org/10.1021/acs.jced.9b00739
- Iglezakis, D., & Schembera, B. (2019). EngMeta - a Metadata Scheme for the Engineering Sciences. DaRUS. https://doi.org/10.18419/darus-500
- Iglezakis, D. (2019). Relevance of Different Metadata Fields for the Description of Research Data from the Engineering Sciences (DaRUS, Hrsg.). https://doi.org/10.18419/darus-501
- Kümmet, S., Lücke, S., Schulz, J., Spenger, M., & Weber, T. (2019). DataCite Best Practice Guide. Zenodo. https://doi.org/10.5281/zenodo.3559799
- Schembera, B., & Iglezakis, D. (2019). The Genesis of EngMeta - A Metadata Model for Research Data in Computational Engineering. In E. Garoufallou, F. Sartori, R. Siatri, & M. Zervas (Hrsg.), Metadata and Semantic Research (Nr. 846; Nummer 846, S. 127–132). Springer International Publishing. https://doi.org/10.1007/978-3-030-14401-2_12
- Schembera, B., & Iglezakis, D. (2019). The Genesis of EngMeta - A Metadata Model for Research Data in Computational Engineering. In E. Garoufallou, F. Sartori, R. Siatri, & M. Zervas (Hrsg.), Metadata and Semantic Research (Nr. 846; Nummer 846, S. 127–132). Springer International Publishing. https://doi.org/10.1007/978-3-030-14401-2_12
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