title: Systematic Omics Analysis Review (SOAR) tool to support risk assessment.
abstract: Environmental health risk assessors are challenged to understand and incorporate new data streams as the field of toxicology continues to adopt new molecular and systems biology technologies. Systematic screening reviews can help risk assessors and assessment teams determine which studies to consider for inclusion in a human health assessment. A tool for systematic reviews should be standardized and transparent in order to consistently determine which studies meet minimum quality criteria prior to performing in-depth analyses of the data. The Systematic Omics Analysis Review (SOAR) tool is focused on assisting risk assessment support teams in performing systematic reviews of transcriptomic studies. SOAR is a spreadsheet tool of 35 objective questions developed by domain experts, focused on transcriptomic microarray studies, and including four main topics: test system, test substance, experimental design, and microarray data. The tool will be used as a guide to identify studies that meet basic published quality criteria, such as those defined by the Minimum Information About a Microarray Experiment standard and the Toxicological Data Reliability Assessment Tool. Seven scientists were recruited to test the tool by using it to independently rate 15 published manuscripts that study chemical exposures with microarrays. Using their feedback, questions were weighted based on importance of the information and a suitability cutoff was set for each of the four topic sections. The final validation resulted in 100% agreement between the users on four separate manuscripts, showing that the SOAR tool may be used to facilitate the standardized and transparent screening of microarray literature for environmental human health risk assessment.
authors.affiliation: Oak Ridge Institute for Science and Education, Research Triangle Park, NC, United States of America.
authors.forename: Emma R
authors.initials: ER
authors.lastname: McConnell
authors.affiliation: Oak Ridge Institute for Science and Education, Research Triangle Park, NC, United States of America.
authors.forename: Shannon M
authors.initials: SM
authors.lastname: Bell
authors.affiliation: National Center for Environmental Assessment, Office of Research and Development, United States Environmental Protection Agency, Arlington, VA, United States of America.
authors.forename: Ila
authors.initials: I
authors.lastname: Cote
authors.affiliation: National Exposure Research Laboratory, Office of Research and Development, United States Environmental Protection Agency, Cincinnati, OH, United States of America.
authors.forename: Rong-Lin
authors.initials: RL
authors.lastname: Wang
authors.affiliation: United States Army Corps of Engineers, Department of the Army, Department of Defense, Vicksburg, MS, United States of America.
authors.forename: Edward J
authors.initials: EJ
authors.lastname: Perkins
authors.affiliation: Department of Chemistry & Biochemistry, Jackson State University, Jackson, MS, United States of America.
authors.forename: Natàlia
authors.initials: N
authors.lastname: Garcia-Reyero
authors.affiliation: SpecPro, Inc, Vicksburg, MS, United States of America.
authors.forename: Ping
authors.initials: P
authors.lastname: Gong
authors.affiliation: National Center for Environmental Assessment, Office of Research and Development, United States Environmental Protection Agency, Research Triangle Park, NC, United States of America.
authors.forename: Lyle D
authors.initials: LD
authors.lastname: Burgoon
mesh_terms: D000818:Animals; D054750:Ecotoxicology / Q000379:methods* / Q000592:standards; D020869:Gene Expression Profiling; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis; D012015:Reference Standards; D012196:Review Literature as Topic; D018570:Risk Assessment / Q000379:methods* / Q000592:standards; D011795:Surveys and Questionnaires; D043922:Toxicogenetics / Q000379:methods* / Q000592:standards