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Enhancement of RNA from FFPE v27.2

Published by U.S. EPA Office of Research and Development (ORD) | U.S. Environmental Protection Agency | Metadata Last Checked: August 02, 2025 | Last Modified: 2019-06-28
This data set is composed of Tables, Figures, zip file containing the whole manuscript individual datasets. This dataset is associated with the following publication: Wehmas, L., C. Wood, B. Chorley, C. Yauk, G. Nelson, and S. Hester. Enhanced Quality Metrics for Assessing RNA Derived From Archival Formalin-Fixed Paraffin-Embedded Tissue Samples. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, 170(2): 357-373, (2019).

Resources

18 resources available

  • Enhancement of RNA from FFPE_v27.2_clean_20171115.docx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.WORDPROCESSINGML.DOCUMENT
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  • Enhancement of RNA from FFPE_v27.2_marked_20171115.docx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.WORDPROCESSINGML.DOCUMENT
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  • Table_1_DEG_overlap_20171024.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_2_IPA_overlap_20170731.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S10_Canonical_pathways_ranked_20171031_rev.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S11_Linear_regression_analysis_pathway_upstream_regulators_20171031.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S12_Upstream_regulator_rank_20171031.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S13_Casual_network_analysis_20171031.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S1_triplex_RT-qPCR_primers_20170829.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S2_Library_prep_fragmentation_times_20170731.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S3_RNA_and_RNA_quality_20171031_clean.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S4_Actb_amplicon_summary_20170731.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S5_sequencing_quality_metrics_20171031_clean.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S6_total_and_unique_raw_gene_ct_summary_20171031.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S7_differentially_expressed_genes_20171031.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S8_overlapping_deg_lists_vs_fr_20171031.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Table_S9_raw_normalized_biomarker_counts_20171031.xlsx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.SPREADSHEETML.SHEET
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  • Wehmas_to_Linda_Adams Fig&text&tables.zip

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Complete Metadata
accessLevel public
bureauCode 
                                            [
  "020:00"
]
contactPoint 
                                            {
  "fn": "Susan Hester",
  "hasEmail": "mailto:hester.susan@epa.gov"
}
description This data set is composed of Tables, Figures, zip file containing the whole manuscript individual datasets. This dataset is associated with the following publication: Wehmas, L., C. Wood, B. Chorley, C. Yauk, G. Nelson, and S. Hester. Enhanced Quality Metrics for Assessing RNA Derived From Archival Formalin-Fixed Paraffin-Embedded Tissue Samples. TOXICOLOGICAL SCIENCES. Society of Toxicology, RESTON, VA, 170(2): 357-373, (2019).
distribution 
                                            [
  {
    "title": "Enhancement of RNA from FFPE_v27.2_clean_20171115.docx",
    "mediaType": "application/vnd.openxmlformats-officedocument.wordprocessingml.document",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Enhancement%20of%20RNA%20from%20FFPE_v27.2_clean_20171115.docx"
  },
  {
    "title": "Enhancement of RNA from FFPE_v27.2_marked_20171115.docx",
    "mediaType": "application/vnd.openxmlformats-officedocument.wordprocessingml.document",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Enhancement%20of%20RNA%20from%20FFPE_v27.2_marked_20171115.docx"
  },
  {
    "title": "Table_1_DEG_overlap_20171024.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_1_DEG_overlap_20171024.xlsx"
  },
  {
    "title": "Table_2_IPA_overlap_20170731.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_2_IPA_overlap_20170731.xlsx"
  },
  {
    "title": "Table_S10_Canonical_pathways_ranked_20171031_rev.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S10_Canonical_pathways_ranked_20171031_rev.xlsx"
  },
  {
    "title": "Table_S11_Linear_regression_analysis_pathway_upstream_regulators_20171031.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S11_Linear_regression_analysis_pathway_upstream_regulators_20171031.xlsx"
  },
  {
    "title": "Table_S12_Upstream_regulator_rank_20171031.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S12_Upstream_regulator_rank_20171031.xlsx"
  },
  {
    "title": "Table_S13_Casual_network_analysis_20171031.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S13_Casual_network_analysis_20171031.xlsx"
  },
  {
    "title": "Table_S1_triplex_RT-qPCR_primers_20170829.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S1_triplex_RT-qPCR_primers_20170829.xlsx"
  },
  {
    "title": "Table_S2_Library_prep_fragmentation_times_20170731.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S2_Library_prep_fragmentation_times_20170731.xlsx"
  },
  {
    "title": "Table_S3_RNA_and_RNA_quality_20171031_clean.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S3_RNA_and_RNA_quality_20171031_clean.xlsx"
  },
  {
    "title": "Table_S4_Actb_amplicon_summary_20170731.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S4_Actb_amplicon_summary_20170731.xlsx"
  },
  {
    "title": "Table_S5_sequencing_quality_metrics_20171031_clean.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S5_sequencing_quality_metrics_20171031_clean.xlsx"
  },
  {
    "title": "Table_S6_total_and_unique_raw_gene_ct_summary_20171031.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S6_total_and_unique_raw_gene_ct_summary_20171031.xlsx"
  },
  {
    "title": "Table_S7_differentially_expressed_genes_20171031.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S7_differentially_expressed_genes_20171031.xlsx"
  },
  {
    "title": "Table_S8_overlapping_deg_lists_vs_fr_20171031.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S8_overlapping_deg_lists_vs_fr_20171031.xlsx"
  },
  {
    "title": "Table_S9_raw_normalized_biomarker_counts_20171031.xlsx",
    "mediaType": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Table_S9_raw_normalized_biomarker_counts_20171031.xlsx"
  },
  {
    "title": "Wehmas_to_Linda_Adams Fig&text&tables.zip",
    "mediaType": "application/x-zip-compressed",
    "downloadURL": "https://pasteur.epa.gov/uploads/10.23719/1506036/Wehmas_to_Linda_Adams%20Fig%26text%26tables.zip"
  }
]
identifier https://doi.org/10.23719/1506036
keyword 
                                            [
  "quality metrics"
]
license https://pasteur.epa.gov/license/sciencehub-license.html
modified 2019-06-28
programCode 
                                            [
  "020:095"
]
publisher 
                                            {
  "name": "U.S. EPA Office of Research and Development (ORD)",
  "subOrganizationOf": {
    "name": "U.S. Environmental Protection Agency",
    "subOrganizationOf": {
      "name": "U.S. Government"
    }
  }
}
references 
                                            [
  "https://doi.org/10.1093/toxsci/kfz113"
]
rights 
                                            null
title Enhancement of RNA from FFPE v27.2

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