Evidence map›Paper›PMID 34560855›Full record

ArticleBMC biology2021

Large-scale data analysis for robotic yeast one-hybrid platforms and multi-disciplinary studies using GateMultiplex.

Ni-Chiao Tsai, Tzu-Shu Hsu, Shang-Che Kuo, Chung-Ting Kao, Tzu-Huan Hung, Da-Gin Lin, Chung-Shu Yeh, Chia-Chen Chu, Jeng-Shane Lin, Hsin-Hung Lin and 4 more

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Article in BMC biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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1 · What the graph read from it

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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

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3 · Its place in the literature

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4 · The record

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5 · Who and what money

Authors and funding

14 authors.

Ni-Chiao Tsai *Department of Life Science and Institute of Plant Biology, College of Life Science, National Taiwan University, Taipei, 10617, Taiwan.
Tzu-Shu Hsu *Department of Pharmacy, National Yang Ming Chiao Tung University, Taipei, 11221, Taiwan.
Shang-Che KuoDepartment of Pharmacy, National Yang Ming Chiao Tung University, Taipei, 11221, Taiwan.
Chung-Ting KaoDepartment of Life Science and Institute of Plant Biology, College of Life Science, National Taiwan University, Taipei, 10617, Taiwan.
Tzu-Huan HungBiotechnology Division, Taiwan Agricultural Research Institute, Taichung, 41362, Taiwan.
Da-Gin LinBiotechnology Division, Taiwan Agricultural Research Institute, Taichung, 41362, Taiwan.
Chung-Shu YehGenomics Research Center, Academia Sinica, Taipei, 11529, Taiwan.
Chia-Chen ChuDepartment of Life Science and Institute of Plant Biology, College of Life Science, National Taiwan University, Taipei, 10617, Taiwan.
Jeng-Shane LinDepartment of Life Sciences, National Chung Hsing University, Taichung, 40227, Taiwan.
Hsin-Hung LinDepartment of Horticulture and Biotechnology, Chinese Culture University, Taipei, 11114, Taiwan.
Chia-Ying KoDepartment of Life Sciences and Institute of Fisheries Science, National Taiwan University, Taipei, 10617, Taiwan.
Tien-Hsien ChangGenomics Research Center, Academia Sinica, Taipei, 11529, Taiwan. chang108@gate.sinica.edu.tw.
Jung-Chen SuDepartment of Pharmacy, National Yang Ming Chiao Tung University, Taipei, 11221, Taiwan. jcsu@nycu.edu.tw.
Ying-Chung Jimmy LinDepartment of Life Science and Institute of Plant Biology, College of Life Science, National Taiwan University, Taipei, 10617, Taiwan. ycjimmylin@ntu.edu.tw.ORCID 0000-0001-7120-4690

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundYeast one-hybrid (Y1H) is a common technique for identifying DNA-protein interactions, and robotic platforms have been developed for high-throughput analyses to unravel the gene regulatory networks in many organisms. Use of these high-throughput techniques has led to the generation of increasingly large datasets, and several software packages have been developed to analyze such data. We previously established the currently most efficient Y1H system, meiosis-directed Y1H; however, the available software tools were not designed for processing the additional parameters suggested by meiosis-directed Y1H to avoid false positives and required programming skills for operation.

resultsWe developed a new tool named GateMultiplex with high computing performance using C++. GateMultiplex incorporated a graphical user interface (GUI), which allows the operation without any programming skills. Flexible parameter options were designed for multiple experimental purposes to enable the application of GateMultiplex even beyond Y1H platforms. We further demonstrated the data analysis from other three fields using GateMultiplex, the identification of lead compounds in preclinical cancer drug discovery, the crop line selection in precision agriculture, and the ocean pollution detection from deep-sea fishery.

conclusionsThe user-friendly GUI, fast C++ computing speed, flexible parameter setting, and applicability of GateMultiplex facilitate the feasibility of large-scale data analysis in life science fields.

Indexed as

Saccharomyces cerevisiaeData AnalysisGene Regulatory NetworksRoboticsSoftwareC++Deep-sea fisheryPrecision agriculturePreclinical drug discoveryYeast one-hybrid

Identifiers

PMID34560855
PMCPMC8461970

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