scholarly journals Tox21BodyMap: a webtool to map chemical effects on the human body

2020 ◽  
Vol 48 (W1) ◽  
pp. W472-W476
Author(s):  
Alexandre Borrel ◽  
Scott S Auerbach ◽  
Keith A Houck ◽  
Nicole C Kleinstreuer

Abstract To support rapid chemical toxicity assessment and mechanistic hypothesis generation, here we present an intuitive webtool allowing a user to identify target organs in the human body where a substance is estimated to be more likely to produce effects. This tool, called Tox21BodyMap, incorporates results of 9,270 chemicals tested in the United States federal Tox21 research consortium in 971 high-throughput screening (HTS) assays whose targets were mapped onto human organs using organ-specific gene expression data. Via Tox21BodyMap's interactive tools, users can visualize chemical target specificity by organ system, and implement different filtering criteria by changing gene expression thresholds and activity concentration parameters. Dynamic network representations, data tables, and plots with comprehensive activity summaries across all Tox21 HTS assay targets provide an overall picture of chemical bioactivity. Tox21BodyMap webserver is available at https://sandbox.ntp.niehs.nih.gov/bodymap/.

2018 ◽  
Vol 433 (2) ◽  
pp. 448-460 ◽  
Author(s):  
Birgit Lengerer ◽  
Julia Wunderer ◽  
Robert Pjeta ◽  
Giada Carta ◽  
Damian Kao ◽  
...  

Plant Direct ◽  
2020 ◽  
Vol 4 (7) ◽  
Author(s):  
Ashley E. Cannon ◽  
Chengshi Yan ◽  
David J. Burks ◽  
Xiaolan Rao ◽  
Rajeev K. Azad ◽  
...  

2021 ◽  
Author(s):  
Pattaralawan Sittiju ◽  
Parunya Chaiyawat ◽  
Dumnoensun Pruksakorn ◽  
Jeerawan Klangjorhor ◽  
Weerinrada Wongrin ◽  
...  

Abstract Background Current techniques to identify circulating-tumor cells (CTCs) in osteosarcoma (OS), which are an indication of a poor prognosis in cases of intermediate levels of metastasis, are complicated and time-consuming. This study investigated the efficacy of quantitative reverse transcription PCR (qRT-PCR), a molecular technique that is available in most laboratories, for detection of CTCs in buffy coat samples of OS patients and healthy donors. Methods Previously published reports on data-reviewing and retrieval of data by calculation of differential gene expression from the Gene Expression Omnibus (GEO) database repository were reviewed identify candidate genes. Following analysis of the expression of the candidate genes identified a diagnostic model for detection of specific gene expression was derived using binary logistic regression with a multivariable fractional polynomial (MFP) algorithm. Results A model incorporating VIM, ezrin, COL1A2, and PLS3 exhibited an outstanding discriminative ability as determined by the receiver operating characteristic curve (AUC = 0.9896, 95%CI 0.9695, 1.000). At the probability cut-off value 0.2943, the sensitivity and the specificity of the model for detection of OS were 100% (95%CI 94.8, 100.0) and 96.49% (95%CI 87.9, 99.6), respectively. Conclusion The qRT-PCR can identify the existence of OS circulating cells by detection of potential candidate genes (VIM, Ezrin, COL1A2 and PLS3). Thus, these genes are worthy to be considered diagnostic biomarkers and alternative micro-metastasis predictors for OS.


Author(s):  
A. K. Tyagi ◽  
J. P. Khurana ◽  
A. K. Sharma ◽  
A. Mohanty ◽  
A. Dhingra ◽  
...  

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