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000279428 041__ $$aEnglish
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000279428 1001_ $$0P:(DE-2719)9001224$$aKotowicz, Malwina$$b0$$eFirst author
000279428 245__ $$aGain efficiency with streamlined and automated data processing: Examples from high-throughput monoclonal antibody production.
000279428 260__ $$aSan Francisco, California, US$$bPLOS$$c2025
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000279428 520__ $$aData management and sample tracking in complex biological workflows are essential steps to ensure necessary documentation and guarantee 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 sample data is no longer favorable, as it is time- and resource-consuming, 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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000279428 650_7 $$2NLM Chemicals$$aAntibodies, Monoclonal
000279428 650_2 $$2MeSH$$aAntibodies, Monoclonal: biosynthesis
000279428 650_2 $$2MeSH$$aHumans
000279428 650_2 $$2MeSH$$aAnimals
000279428 650_2 $$2MeSH$$aInduced Pluripotent Stem Cells: cytology
000279428 650_2 $$2MeSH$$aInduced Pluripotent Stem Cells: metabolism
000279428 650_2 $$2MeSH$$aB-Lymphocytes: immunology
000279428 650_2 $$2MeSH$$aB-Lymphocytes: cytology
000279428 650_2 $$2MeSH$$aB-Lymphocytes: metabolism
000279428 650_2 $$2MeSH$$aReproducibility of Results
000279428 650_2 $$2MeSH$$aHigh-Throughput Screening Assays: methods
000279428 650_2 $$2MeSH$$aCell Differentiation
000279428 650_2 $$2MeSH$$aWorkflow
000279428 650_2 $$2MeSH$$aAutomation
000279428 7001_ $$0P:(DE-2719)9002857$$aShumanska, Magdalena$$b1
000279428 7001_ $$0P:(DE-2719)2812244$$aFengler, Sven$$b2
000279428 7001_ $$0P:(DE-2719)2810323$$aKurkowsky, Birgit$$b3$$udzne
000279428 7001_ $$0P:(DE-2719)9000668$$aMeyer-Berhorn, Anja$$b4$$udzne
000279428 7001_ $$0P:(DE-HGF)0$$aMoretti, Elisa$$b5
000279428 7001_ $$0P:(DE-2719)9000491$$aBlersch, Josephine$$b6
000279428 7001_ $$0P:(DE-2719)9001848$$aSchmidt, Gisela$$b7
000279428 7001_ $$0P:(DE-2719)2811468$$aKreye, Jakob$$b8
000279428 7001_ $$0P:(DE-2719)2812820$$avan Hoof, Scott$$b9
000279428 7001_ $$0P:(DE-2719)2812653$$aSánchez-Sendín, Elisa$$b10
000279428 7001_ $$0P:(DE-2719)2812526$$aReincke, S Momsen$$b11
000279428 7001_ $$0P:(DE-2719)2810335$$aKrüger, Lars$$b12
000279428 7001_ $$0P:(DE-2719)2810931$$aPrüß, Harald$$b13
000279428 7001_ $$0P:(DE-2719)2810245$$aDenner, Philip$$b14
000279428 7001_ $$0P:(DE-2719)2159508$$aFava, Eugenio$$b15
000279428 7001_ $$0P:(DE-2719)2812160$$aStappert, Dominik$$b16$$eLast author
000279428 773__ $$0PERI:(DE-600)2267670-3$$a10.1371/journal.pone.0326678$$gVol. 20, no. 7, p. e0326678 -$$n7$$pe0326678 -$$tPLOS ONE$$v20$$x1932-6203$$y2025
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