@inproceedings{BienefeldSpoetterReinschetal., author = {Bienefeld, Kaspar and Sp{\"o}tter, Andreas and Reinsch, Norbert and Mayer, Manfred and Gupta, Pooja}, title = {A new approach for honeybee breeding - genomic selection}, series = {44th Apimondia International Apicultural congress, 2015. Daejeon, South Korea}, booktitle = {44th Apimondia International Apicultural congress, 2015. Daejeon, South Korea}, language = {en} } @phdthesis{Gupta, author = {Gupta, Pooja}, title = {Integrating high-density marker information into the genetic evaluation of the honey bee}, language = {en} } @misc{GuptaRoeblitzKrauseetal., author = {Gupta, Pooja and R{\"o}blitz, Susanna and Krause, Carola and Knaus, Petra and Sch{\"u}tte, Christof}, title = {Mathematical modeling of the Smad and Non-Smad BMP signaling pathways in context of cell density}, series = {Computational Models in biology and medicine, 2013, Dresden, Germany}, journal = {Computational Models in biology and medicine, 2013, Dresden, Germany}, language = {en} } @inproceedings{GuptaKrauseRikeitetal., author = {Gupta, Pooja and Krause, Carola and Rikeit, Paul and R{\"o}blitz, Susanna and Knaus, Petra and Sch{\"u}tte, Christof}, title = {Modeling of the BMP mediated co-regulation of the Smad and Non-Smad pathways in the context of cell density}, series = {10th International BMP conference, 2014, Berlin, Germany}, booktitle = {10th International BMP conference, 2014, Berlin, Germany}, language = {en} } @article{BienefeldZautkeGupta, author = {Bienefeld, Kaspar and Zautke, Fred and Gupta, Pooja}, title = {A novel method for undisturbed long-term observation of the honey bee (Apis mellifera) behaviour - illustrated by the hygienic behaviour towards Varroa infestation}, series = {Journal of Apicultural Research}, volume = {54(5)}, journal = {Journal of Apicultural Research}, pages = {541 -- 547}, language = {en} } @phdthesis{Gupta, author = {Gupta, Pooja}, title = {Integrating high-density marker information into the genetic evaluation of the honey bee}, language = {en} } @article{GuptaGramatkeEinspanieretal.2017, author = {Gupta, Pooja and Gramatke, Annika and Einspanier, Ralf and Sch{\"u}tte, Christof and von Kleist, Max and Sharbati, Jutta}, title = {In silico cytotoxicity assessment on cultured rat intestinal cells deduced from cellular impedance measurements}, series = {Toxicology in Vitro}, volume = {41}, journal = {Toxicology in Vitro}, issn = {1438-0064}, pages = {179 -- 188}, year = {2017}, abstract = {Early and reliable identification of chemical toxicity is of utmost importance. At the same time, reduction of animal testing is paramount. Therefore, methods that improve the interpretability and usability of in vitro assays are essential. xCELLigence's real-time cell analyzer (RTCA) provides a novel, fast and cost effective in vitro method to probe compound toxicity. We developed a simple mathematical framework for the qualitative and quantitative assessment of toxicity for RTCA measurements. Compound toxicity, in terms of its 50\% inhibitory concentration IC50 on cell growth, and parameters related to cell turnover were estimated on cultured IEC-6 cells exposed to 10 chemicals at varying concentrations. Our method estimated IC50 values of 113.05, 7.16, 28.69 and 725.15 μM for the apparently toxic compounds 2-acetylamino-fluorene, aflatoxin B1, benzo-[a]-pyrene and chloramphenicol in the tested cell line, in agreement with literature knowledge. IC50 values of all apparent in vivo non-toxic compounds were estimated to be non-toxic by our method. Corresponding estimates from RTCA's in-built model gave false positive (toxicity) predictions in 5/10 cases. Taken together, our proposed method reduces false positive predictions and reliably identifies chemical toxicity based on impedance measurements. The source code for the developed method including instructions is available at https://git.zib.de/bzfgupta/toxfit/tree/master.}, language = {en} } @article{SpoetterGuptaMayeretal., author = {Sp{\"o}tter, Andreas and Gupta, Pooja and Mayer, Manfred and Reinsch, Norbert and Bienefeld, Kaspar}, title = {Genome-wide association study of a Varroa-specific defense behavior in honeybees (Apis mellifera)}, series = {Journal of Heredity}, volume = {107}, journal = {Journal of Heredity}, number = {3}, pages = {220 -- 227}, language = {en} } @article{KoschekDurmazKrylovaetal., author = {Koschek, and Durmaz, Vedat and Krylova, and Wieczorek, and Gupta, Pooja and Richter, and Bujotzek, Alexander and Fischer, and Haag, Rainer and Freund, and Weber, Marcus and Rademann,}, title = {Peptide polymer ligands for a tandem WW-domain, a soft multivalent protein-protein interaction: lessons on the thermodynamic fitness of flexible ligands}, series = {Beilstein J. Org. Chem.}, volume = {11}, journal = {Beilstein J. Org. Chem.}, pages = {837 -- 847}, language = {en} } @article{SpoetterGuptaNuernbergetal., author = {Sp{\"o}tter, Andreas and Gupta, Pooja and N{\"u}rnberg, and Reinsch, Norbert and Bienefeld, Kaspar}, title = {Development of a 44K SNP assay focussing on the analysis of a varroa-specific defence behaviour in honey bees (Apis mellifera carnica)}, volume = {12}, number = {2}, doi = {10.1111/j.1755-0998.2011.03106.x}, pages = {323 -- 332}, abstract = {Honey bees are exposed to a number of damaging pathogens and parasites. The most destructive among them, affecting mainly the brood, is Varroa destructor. A promising approach to prevent its spread is to breed for Varroa-tolerant honey bees. A trait that has been shown to provide significant resistance against the Varroa mite is hygienic behaviour, a behavioural response of honey bee workers to brood diseases in general. This study reports the development of a 44K SNP assay, specifically designed for the analysis of hygienic behaviour of individual worker bees (Apis mellifera carnica) directed against V. destructor. Initially, 70 000 SNPs chosen from a large set of SNPs published by the Honey Bee Genome Project were validated for their suitability in the analysis of the Varroa resistance trait 'uncapping of Varroa-infested brood'. This was achieved by genotyping of pooled DNA samples of trait bearers and two trait-negative controls using next-generation sequencing. Approximately 36 000 of these validated SNPs and another 8000 SNPs not validated in this study were selected for the construction of a SNP assay. This assay will be employed in following experiments to analyse individualized DNA samples in order to identify quantitative trait loci (QTL) involved in the control of the investigated trait and to evaluate and possibly confirm QTL found in other studies. However, this assay is not just suitable to study Varroa tolerance, it is as well applicable to analyse any other trait in honey bees. In addition, because of its high density, this assay provides access into genomic selection with respect to several traits considered in honey bee breeding. It will become publicly available via AROS Applied Biotechnology AS, Aarhus, Denmark, before the end of the year 2011.}, language = {en} }