Droplet digital PCR: A comprehensive tool for genetic analysis and prediction of bispecific antibody assembly during cell line development
In this study, the diverse applications of droplet digital PCR (ddPCR) as a molecular biological tool for cell line development are demonstrated. Specifically, it is shown that ddPCR can be used to enable precise, sensitive and reproducible absolute quantification of genomically integrated transgene copies during cell line development and cell bank characterization. Additionally, an amplitude multiplexing approach is applied to simultaneously run multiple assays on different genetic targets in a single reaction and advance clonal screening by measuring gene expression profiles to predict the assembly and homogeneity of dif...
Source: New Biotechnology - October 5, 2023 Category: Biotechnology Authors: Daniel Heinzelmann Benjamin Lindner Benjamin Renner Simon Fischer Patrick Schulz Moritz Schmidt Source Type: research
Droplet digital PCR: A comprehensive tool for genetic analysis and prediction of bispecific antibody assembly during cell line development
In this study, the diverse applications of droplet digital PCR (ddPCR) as a molecular biological tool for cell line development are demonstrated. Specifically, it is shown that ddPCR can be used to enable precise, sensitive and reproducible absolute quantification of genomically integrated transgene copies during cell line development and cell bank characterization. Additionally, an amplitude multiplexing approach is applied to simultaneously run multiple assays on different genetic targets in a single reaction and advance clonal screening by measuring gene expression profiles to predict the assembly and homogeneity of dif...
Source: New Biotechnology - October 5, 2023 Category: Biotechnology Authors: Daniel Heinzelmann Benjamin Lindner Benjamin Renner Simon Fischer Patrick Schulz Moritz Schmidt Source Type: research
Droplet digital PCR: A comprehensive tool for genetic analysis and prediction of bispecific antibody assembly during cell line development
In this study, the diverse applications of droplet digital PCR (ddPCR) as a molecular biological tool for cell line development are demonstrated. Specifically, it is shown that ddPCR can be used to enable precise, sensitive and reproducible absolute quantification of genomically integrated transgene copies during cell line development and cell bank characterization. Additionally, an amplitude multiplexing approach is applied to simultaneously run multiple assays on different genetic targets in a single reaction and advance clonal screening by measuring gene expression profiles to predict the assembly and homogeneity of dif...
Source: New Biotechnology - October 5, 2023 Category: Biotechnology Authors: Daniel Heinzelmann Benjamin Lindner Benjamin Renner Simon Fischer Patrick Schulz Moritz Schmidt Source Type: research
Droplet Digital PCR: A Comprehensive Tool for Genetic Analysis and Prediction of Bispecific Antibody Assembly during Cell Line Development
In this study, the diverse applications of droplet digital PCR (ddPCR) as a molecular biological tool for cell line development are demonstrated. Specifically, it is shown that ddPCR can be used to enable precise, sensitive and reproducible absolute quantification of genomically integrated transgene copies during cell line development and cell bank characterization. Additionally, an amplitude multiplexing approach is applied to simultaneously run multiple assays on different genetic targets in a single reaction and advance clonal screening by measuring gene expression profiles to predict the assembly and homogeneity of dif...
Source: New Biotechnology - October 5, 2023 Category: Biotechnology Authors: Daniel Heinzelmann Benjamin Lindner Benjamin Renner Simon Fischer Patrick Schulz Moritz Schmidt Source Type: research
Biostimulation Effect of Different Amendments on Cr(VI) Recovering Microbial Community
N Biotechnol. 2023 Oct 2:S1871-6784(23)00050-X. doi: 10.1016/j.nbt.2023.09.007. Online ahead of print.ABSTRACTThe present study used Cr(VI)-polluted microcosms amended with lactate or yeast extract, and nonamended microcosms as control, to investigate how a native bacterial community varied in response to the treatment and during the pollutant removal. Results suggested that providing electron donors resulted in a proliferation of a few bacterial species, with the consequent decrease in observed species richness and evenness, and was a driving force for the bacterial compositional shift. Lactate promoted, in the first inst...
Source: New Biotechnology - October 4, 2023 Category: Biotechnology Authors: Marina Tumolo Domenico De Paola Vito Felice Uricchio Valeria Ancona Source Type: research
Shedding Light on the Black Box of a Neural Network Used to Detect Prostate Cancer in Whole Slide Images by Occlusion-Based Explainability
N Biotechnol. 2023 Oct 2:S1871-6784(23)00051-1. doi: 10.1016/j.nbt.2023.09.008. Online ahead of print.ABSTRACTDiagnostic histopathology faces increasing demands due to aging populations and expanding healthcare programs. Semi-automated diagnostic systems employing deep learning methods are one approach to alleviate this pressure. The learning models for histopathology are inherently complex and opaque from the user's perspective. Hence different methods have been developed to interpret their behavior. However, relatively limited attention has been devoted to the connection between interpretation methods and the knowledge o...
Source: New Biotechnology - October 4, 2023 Category: Biotechnology Authors: Matej Gallo Vojt ěch Krajňanský Rudolf Nenutil Petr Holub BrazdilTom áš Brázdil Source Type: research
Biostimulation Effect of Different Amendments on Cr(VI) Recovering Microbial Community
N Biotechnol. 2023 Oct 2:S1871-6784(23)00050-X. doi: 10.1016/j.nbt.2023.09.007. Online ahead of print.ABSTRACTThe present study used Cr(VI)-polluted microcosms amended with lactate or yeast extract, and nonamended microcosms as control, to investigate how a native bacterial community varied in response to the treatment and during the pollutant removal. Results suggested that providing electron donors resulted in a proliferation of a few bacterial species, with the consequent decrease in observed species richness and evenness, and was a driving force for the bacterial compositional shift. Lactate promoted, in the first inst...
Source: New Biotechnology - October 4, 2023 Category: Biotechnology Authors: Marina Tumolo Domenico De Paola Vito Felice Uricchio Valeria Ancona Source Type: research
Shedding Light on the Black Box of a Neural Network Used to Detect Prostate Cancer in Whole Slide Images by Occlusion-Based Explainability
N Biotechnol. 2023 Oct 2:S1871-6784(23)00051-1. doi: 10.1016/j.nbt.2023.09.008. Online ahead of print.ABSTRACTDiagnostic histopathology faces increasing demands due to aging populations and expanding healthcare programs. Semi-automated diagnostic systems employing deep learning methods are one approach to alleviate this pressure. The learning models for histopathology are inherently complex and opaque from the user's perspective. Hence different methods have been developed to interpret their behavior. However, relatively limited attention has been devoted to the connection between interpretation methods and the knowledge o...
Source: New Biotechnology - October 4, 2023 Category: Biotechnology Authors: Matej Gallo Vojt ěch Krajňanský Rudolf Nenutil Petr Holub BrazdilTom áš Brázdil Source Type: research
Provenance of specimen and data - A prerequisite for AI development in computational pathology
N Biotechnol. 2023 Sep 25;78:22-28. doi: 10.1016/j.nbt.2023.09.006. Online ahead of print.ABSTRACTAI development in biotechnology relies on high-quality data to train and validate algorithms. The FAIR principles (Findable, Accessible, Interoperable, and Reusable) and regulatory frameworks such as the In Vitro Diagnostic Regulation (IVDR) and the Medical Device Regulation (MDR) specify requirements on specimen and data provenance to ensure the quality and traceability of data used in AI development. In this paper, a framework is presented for recording and publishing provenance information to meet these requirements. The fr...
Source: New Biotechnology - September 27, 2023 Category: Biotechnology Authors: Markus Plass Rudolf Wittner Petr Holub Francesca Frexia Cecilia Mascia Matej Gallo Heimo M üller J örg Geiger Source Type: research
Provenance of specimen and data - A prerequisite for AI development in computational pathology
N Biotechnol. 2023 Sep 25;78:22-28. doi: 10.1016/j.nbt.2023.09.006. Online ahead of print.ABSTRACTAI development in biotechnology relies on high-quality data to train and validate algorithms. The FAIR principles (Findable, Accessible, Interoperable, and Reusable) and regulatory frameworks such as the In Vitro Diagnostic Regulation (IVDR) and the Medical Device Regulation (MDR) specify requirements on specimen and data provenance to ensure the quality and traceability of data used in AI development. In this paper, a framework is presented for recording and publishing provenance information to meet these requirements. The fr...
Source: New Biotechnology - September 27, 2023 Category: Biotechnology Authors: Markus Plass Rudolf Wittner Petr Holub Francesca Frexia Cecilia Mascia Matej Gallo Heimo M üller J örg Geiger Source Type: research
Provenance of specimen and data - A prerequisite for AI development in computational pathology
N Biotechnol. 2023 Sep 25;78:22-28. doi: 10.1016/j.nbt.2023.09.006. Online ahead of print.ABSTRACTAI development in biotechnology relies on high-quality data to train and validate algorithms. The FAIR principles (Findable, Accessible, Interoperable, and Reusable) and regulatory frameworks such as the In Vitro Diagnostic Regulation (IVDR) and the Medical Device Regulation (MDR) specify requirements on specimen and data provenance to ensure the quality and traceability of data used in AI development. In this paper, a framework is presented for recording and publishing provenance information to meet these requirements. The fr...
Source: New Biotechnology - September 27, 2023 Category: Biotechnology Authors: Markus Plass Rudolf Wittner Petr Holub Francesca Frexia Cecilia Mascia Matej Gallo Heimo M üller J örg Geiger Source Type: research
Provenance of specimen and data - A prerequisite for AI development in computational pathology
N Biotechnol. 2023 Sep 25;78:22-28. doi: 10.1016/j.nbt.2023.09.006. Online ahead of print.ABSTRACTAI development in biotechnology relies on high-quality data to train and validate algorithms. The FAIR principles (Findable, Accessible, Interoperable, and Reusable) and regulatory frameworks such as the In Vitro Diagnostic Regulation (IVDR) and the Medical Device Regulation (MDR) specify requirements on specimen and data provenance to ensure the quality and traceability of data used in AI development. In this paper, a framework is presented for recording and publishing provenance information to meet these requirements. The fr...
Source: New Biotechnology - September 27, 2023 Category: Biotechnology Authors: Markus Plass Rudolf Wittner Petr Holub Francesca Frexia Cecilia Mascia Matej Gallo Heimo M üller J örg Geiger Source Type: research
Provenance of specimen and data - A prerequisite for AI development in computational pathology
N Biotechnol. 2023 Sep 25;78:22-28. doi: 10.1016/j.nbt.2023.09.006. Online ahead of print.ABSTRACTAI development in biotechnology relies on high-quality data to train and validate algorithms. The FAIR principles (Findable, Accessible, Interoperable, and Reusable) and regulatory frameworks such as the In Vitro Diagnostic Regulation (IVDR) and the Medical Device Regulation (MDR) specify requirements on specimen and data provenance to ensure the quality and traceability of data used in AI development. In this paper, a framework is presented for recording and publishing provenance information to meet these requirements. The fr...
Source: New Biotechnology - September 27, 2023 Category: Biotechnology Authors: Markus Plass Rudolf Wittner Petr Holub Francesca Frexia Cecilia Mascia Matej Gallo Heimo M üller J örg Geiger Source Type: research
Provenance of Specimen and Data - a Prerequisite for AI development in Computational Pathology
N Biotechnol. 2023 Sep 25:S1871-6784(23)00049-3. doi: 10.1016/j.nbt.2023.09.006. Online ahead of print.ABSTRACTAI development in biotechnology relies on high-quality data to train and validate algorithms. The FAIR principles (Findable, Accessible, Interoperable, and Reusable) [1] and regulatory frameworks such as the In Vitro Diagnostic Regulation (IVDR) and the Medical Device Regulation (MDR) specify requirements on specimen and data provenance to ensure the quality and traceability of data used in AI development. In this paper, a framework is presented for recording and publishing provenance information to meet these req...
Source: New Biotechnology - September 27, 2023 Category: Biotechnology Authors: Markus Plass Rudolf Wittner Petr Holub Francesca Frexia Cecilia Mascia Matej Gallo Heimo M üller J örg Geiger Source Type: research
Interlaboratory evaluation of quality control methods for circulating cell-free DNA extraction
In this study we evaluated the application of nucleic acid "spike-in" control materials to aid quality control (QC) and standardisation of cfDNA isolation for use in in vitro diagnostic assays. We describe an approach for the design and characterisation of in-process QC materials, illustrating it with a spike-in material containing an exogenous Arabidopsis sequence and DNA fragments approximating to ccfDNA and genomic DNA lengths. Protocols for inclusion of the spike-in material in plasma ccfDNA extraction and quantification of its recovery by digital PCR (dPCR) were assessed for their suitability for process QC in an inte...
Source: New Biotechnology - September 20, 2023 Category: Biotechnology Authors: Alison Devonshire Gerwyn Jones Ana Fernandez Gonzalez Olga Kofanova Johanna Trouet Pamela Pinzani Stefania Gelmini Serena Bonin Carole Foy Source Type: research
