These data are associated with the figures and tables presented in the manuscript "Early microRNA responses in rodent liver mediated by furan exposure establish dose thresholds for later adverse outcomes". Each spreadsheet contains the data for each Figure and metadata describes each column and/or row of data. For access to the smallRNA-seq files, please follow link provided and supply the reviewer key code "mjsnewymzlollmz".

These data are summaries of pro-inflammatory cytokine and insulin resistance serum biomarkers; necrotic liver disease defined by serum keratin 18 (K18) biomarkers. Associations were determined between exposure biomarkers (thirty-five ortho-substituted PCB congeners) and disease biomarkers (miRs); and Ingenuity Pathway Analysis was performed. Note to protect individual molecular information, only summaries of the data are presented. This dataset is associated with the following publication: Cave, M., C. Pinkston, S. Rai, B. Wahlang, M. Pavuk, K. Head, G. Carswell, G. Nelson, C. Klinge, D. Bell, L. Birnbaum, and B. Chorley. Circulating MicroRNAs, Polychlorinated Biphenyls, and Environmental Liver Disease in the Anniston Community Health Survey. ENVIRONMENTAL HEALTH PERSPECTIVES. National Institute of Environmental Health Sciences (NIEHS), Research Triangle Park, NC, USA, 130(1): 017003, (2022).

This dataset is a project file generated by BMDExpress 2.2 SW (Sciome, Research Triangle Park, NC). It contains gene expression data for livers of rats exposed to 4 chemicals (crude MCHM, neat MCHM, DMPT, p-toluidine) and kidneys of rats exposed to PPH. The project file includes normalized expression data (GeneChip Rat 230 2.0 Array) using 7 different pre-processing methods (RMA, GCRMA, MAS5.0, MAS5.0_noA calls, PLIER, PLIER16, and PLIER16_noA calls); differentially expressed probe-sets detected by William's method (p<0.05, and minimum fold change of 1.5); probeset-level and pathway-level BMD and BMDL values from transcriptomic dose-response modeling. This dataset is associated with the following publication: Mezencev, R., and S. Auerbach. The sensitivity of transcriptomics BMD modeling to the methods used for microarray data normalization. PLOS ONE. Public Library of Science, San Francisco, CA, USA, 15(5): e0232955, (2020).

This dataset is a project file generated by BMDExpress 2.2 SW (Sciome, Research Triangle Park, NC). It contains gene expression data for livers of rats exposed to 4 chemicals (crude MCHM, neat MCHM, DMPT, p-toluidine) and kidneys of rats exposed to PPH. The project file includes normalized expression data (GeneChip Rat 230 2.0 Array) using 7 different pre-processing methods (RMA, GCRMA, MAS5.0, MAS5.0_noA calls, PLIER, PLIER16, and PLIER16_noA calls); differentially expressed probe-sets detected by William's method (p<0.05, and minimum fold change of 1.5); probeset-level and pathway-level BMD and BMDL values from transcriptomic dose-response modeling. This dataset is associated with the following publication: Mezencev, R., and S. Auerbach. The sensitivity of transcriptomics BMD modeling to the methods used for microarray data normalization. PLOS ONE. Public Library of Science, San Francisco, CA, USA, 15(5): e0232955, (2020).

See Metadata and Notes associated with each data files for a description of each dataset. This dataset is associated with the following publication: Chorley, B., G. Carswell, G. Nelson, V. Bhat, and C. Wood. Early MicroRNA Indicators of PPARα Pathway Activation in the Liver. Toxicology Reports. Elsevier B.V., Amsterdam, NETHERLANDS, 7: 805-815, (2020).

Microarray experiments used in the study. This dataset is associated with the following publication: Corton, J., K. Korunes, J. Abedini, H. El-Masri, J. Brown, K. Friedman, Y. Liu, C. Martini, S. He, and J. Rooney. Thresholds Derived from Common Measures in Rat Studies are Predictive of Liver Tumorigenic Chemicals. TOXICOLOGIC PATHOLOGY. Society of Toxicology, RESTON, VA, 48(7): 857-874, (2020).

Microarray experiments used in the study. This dataset is associated with the following publication: Corton, J., K. Korunes, J. Abedini, H. El-Masri, J. Brown, K. Friedman, Y. Liu, C. Martini, S. He, and J. Rooney. Thresholds Derived from Common Measures in Rat Studies are Predictive of Liver Tumorigenic Chemicals. TOXICOLOGIC PATHOLOGY. Society of Toxicology, RESTON, VA, 48(7): 857-874, (2020).

The links provided include the DrugMatrix-Affymetrix study, the TG-GATES study, and the TempO-Seq S1500+ study. This dataset is associated with the following publication: Lewis, R., T. Hill III, and C. Corton. A set of six Gene expression biomarkers and their thresholds identify rat liver tumorigens in short-term assays. TOXICOLOGY. Elsevier Science Ltd, New York, NY, USA, 443: 152547, (2020).

The links provided include the DrugMatrix-Affymetrix study, the TG-GATES study, and the TempO-Seq S1500+ study. This dataset is associated with the following publication: Lewis, R., T. Hill III, and C. Corton. A set of six Gene expression biomarkers and their thresholds identify rat liver tumorigens in short-term assays. TOXICOLOGY. Elsevier Science Ltd, New York, NY, USA, 443: 152547, (2020).

PubMed was searched for the terms microRNA and biomarker in addition to blood (blue), urine (orange), saliva (grey), or cerebrospinal fluid (yellow). The graph in the paper displays the number of total annual publications over the past 16 years and the actual numbers used generate this graph are in incuded in the attached spreadsheet. A near annual doubling of publications occurred from the years 2009 until 2015, whereas only a mere 4% increase in annual publications from 2015 until 2018 was noted. While a number of factors can contribute to these publication trends, this indicates an overall cooling of research interest in biofluid-based microRNA biomarker development. This dataset is associated with the following publication: Chorley, B., E. Atabakhsh, G. Doran, J. Gautier, H. Ellinger-Ziegelbauer, D. Jackson, T. Sharapova, P. Yuen, R. Church, P. Couttet, R. Froetschl, J. McDuffie, V. Martine, P. Pande, L. Peel, C. Rafferty, F. Simutis, and A. Harrill. Methodological considerations for measuring biofluid-based microRNA biomarkers. CRITICAL REVIEWS IN TOXICOLOGY. Taylor & Francis Group, London, UK, 51(3): 264-282, (2021).