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000266775 0247_ $$2doi$$a10.1101/2023.12.14.571214
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000266775 037__ $$aDZNE-2024-00038
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000266775 1001_ $$0P:(DE-2719)9001224$$aKotowicz, Malwina$$b0$$eFirst author
000266775 245__ $$aGain efficiency with streamlined and automated data processing: Examples from high-throughput monoclonal antibody production
000266775 260__ $$aCold Spring Harbor$$bCold Spring Harbor Laboratory, NY$$c2023
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000266775 520__ $$aData management and sample tracking in complex biological workflows are essential steps to ensure necessary documentation and guarantee the reusability of data and metadata. Currently, these steps pose challenges related to correct annotation and labeling, error detection, and safeguarding the quality of documentation. With growing acquisition of biological data and the expanding automatization of laboratory workflows, manual processing of samples is no longer favorable, as it is time- and resource-consuming, is prone to biases and errors, and lacks scalability and standardization. Thus, managing heterogeneous biological data calls for efficient and tailored systems, especially in laboratories run by biologists with limited computational expertise. Here, we showcase how to meet these challenges with a modular pipeline for data processing, facilitating the complex production of monoclonal antibodies from single B-cells. We present best practices for development of data processing pipelines concerned with extensive acquisition of biological data that undergoes continuous manipulation and analysis. Moreover, we assess the versatility of proposed design principles through a proof-of-concept data processing pipeline for automated induced pluripotent stem cell culture and differentiation. We show that our approach streamlines data management operations, speeds up experimental cycles and leads to enhanced reproducibility. Finally, adhering to the presented guidelines will promote compliance with FAIR principles upon publishing.
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000266775 7001_ $$0P:(DE-2719)2812244$$aFengler, Sven$$b1
000266775 7001_ $$0P:(DE-2719)2810323$$aKurkowsky, Birgit$$b2
000266775 7001_ $$0P:(DE-2719)9000668$$aMeyer-Berhorn, Anja$$b3
000266775 7001_ $$0P:(DE-HGF)0$$aMoretti, Elisa$$b4
000266775 7001_ $$0P:(DE-2719)9000491$$aBlersch, Josephine$$b5
000266775 7001_ $$0P:(DE-2719)9002857$$aShumanska, Magdalena$$b6
000266775 7001_ $$0P:(DE-2719)9001848$$aSchmidt, Gisela$$b7
000266775 7001_ $$0P:(DE-2719)2811468$$aKreye, Jakob$$b8
000266775 7001_ $$0P:(DE-2719)2812820$$aHoof, Scott$$b9
000266775 7001_ $$0P:(DE-2719)2812653$$aSánchez-Sendín, Elisa$$b10
000266775 7001_ $$0P:(DE-2719)2812526$$aReincke, Momsen$$b11
000266775 7001_ $$0P:(DE-2719)2810335$$aKrüger, Lars$$b12
000266775 7001_ $$0P:(DE-2719)2810931$$aPrüss, Harald$$b13
000266775 7001_ $$0P:(DE-2719)2810245$$aDenner, Philip$$b14
000266775 7001_ $$0P:(DE-2719)2159508$$aFava, Eugenio$$b15$$eLast author
000266775 7001_ $$0P:(DE-2719)2812160$$aStappert, Dominik$$b16$$eLast author
000266775 773__ $$0PERI:(DE-600)2766415-6$$a10.1101/2023.12.14.571214$$tbioRxiv beta$$y2023
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