cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6334247.v1
title: Dataset for: Retained differentiation capacity of human skeletal muscle satellite cells from spinal cord-injured individuals

description: Despite the well-known role of satellite cells in skeletal muscle plasticity, the effect of spinal cord injury on their function in humans remains unknown. We determined whether spinal cord injury affects the intrinsic ability of satellite cells to differentiate and produce metabolically healthy myotubes. We obtained <i>vastus lateralis</i> biopsies from eight spinal cord-injured and six able-bodied individuals. Satellite cells were isolated, grown and differentiated <i>in vitro</i>. Gene expression was measured by quantitative PCR. Abundance of differentiation markers and regulatory proteins was determined by Western blotting. Protein synthesis and fatty acid oxidation were measured by radioactive tracer-based assays. Activated satellite cells (myoblasts) and differentiated myotubes derived from skeletal muscle of able-bodied and spinal cord-injured individuals expressed similar (p&gt;0.05) mRNA levels of myogenic regulatory factors. Myod1 expression was higher in myoblasts from spinal cord-injured individuals. Desmin and myogenin protein content was increased upon differentiation in both groups, while myotubes from spinal cord-injured individuals contained more type I and II myosin heavy chain. Phosphorylated and total protein levels of Akt-mTOR and FoxO signalling axes and protein synthesis rate in myotubes were similar (p&gt;0.05) between groups. Additionally, fatty acid oxidation of myotubes from spinal cord-injured individuals was unchanged (p&gt;0.05) compared to able-bodied controls. Our results indicate that the intrinsic differentiation capacity of satellite cells and metabolic characteristics of myotubes are preserved following spinal cord injury. This may inform potential interventions targeting satellite cell activation to alleviate skeletal muscle atrophy.
DOI: 10.25380/iastate.6333104
title: Land Use and Cropping Recommendations For Various Soil Types in Iowa, 1937-1938.

description: This dataset was transcribed and analyzed to support the article:Obrycki, J. F., and D. L. Karlen. 2018. “Optimizing Iowa Land Use: Past Perspectives for Current Questions.” <i>Journal of Soil and Water Conservation</i> 73 (6): 693–704. https://doi.org/10.2489/jswc.73.6.693<br>The dataset contains transcribed tables from the county pamphlets “How To Use Your Soil And Keep It Too” distributed by county agricultural planning committees in 1937/1938. There are 90 pamphlets available. One table was included in each pamphlet and was titled “Land Use and Cropping Recommendations For Various Soil Types.” The table included recommended crop rotations by soil type in the county. These tables were created by county agricultural planning committees. The values in the tables were committee recommendations for the types of crop rotations that would protect soils and provide suitable crop production. The dataset contains additional columns that evaluated the county agricultural planning committee recommendations. Two supporting datasets are provided to explain the column assignments using in the primary dataset.<br>
DOI: 10.6084/m9.figshare.6332288
title: Genomic clues of tubeworm success

description: Phylogenetic datasets for the manuscript "Genomic clues of tubeworm success".
DOI: 10.6084/m9.figshare.6332288.v1
title: Genomic clues of tubeworm success

description: Phylogenetic datasets for the manuscript "Genomic clues of tubeworm success".
DOI: 10.6084/m9.figshare.6332012
title: training.txt

description: This is a training data set for our statistical analysis. The 2-D mass spectra files obtained by DESI-MS imaging were converted to delimited text files (.csv format) and exported for statistical analysis according to regions of interest of varying pathology using the MSIReader software.We randomly divided the specimens into training set imaged at m/z 50–1200 (deposited here) and two sets of test specimens, one set imaged at m/z 150–1200, and the second one imaged at m/z 50–1200.<br>
DOI: 10.6084/m9.figshare.6332000
title: Farquharson_data_5.21.18.xls

description: In this dataset, we have data on 13 typically developing children. From 9- to 30-months- old, we captured their early speech production using consonant-vowel ratio. At 72-months-old, we measured their letter identification ability using the Letter ID subtest from the WRMT-R.
DOI: 10.6084/m9.figshare.6332000.v1
title: Farquharson_data_5.21.18.xls

description: In this dataset, we have data on 13 typically developing children. From 9- to 30-months- old, we captured their early speech production using consonant-vowel ratio. At 72-months-old, we measured their letter identification ability using the Letter ID subtest from the WRMT-R.
DOI: 10.6084/m9.figshare.6328958
title: charter school data for Arkansas

description: This is data for school districts in Arkansas
DOI: 10.6084/m9.figshare.6328958.v1
title: charter school data for Arkansas

description: This is data for school districts in Arkansas
DOI: 10.6084/m9.figshare.6328952
title: Research data: challenges and opportunities for Japanese researchers- Springer Nature survey data

description: Survey data underlying the Springer Nature infographic titled: ‘Research data: challenges and opportunities for Japanese researchers’.<br> Data were collected in April and May 2018, and respondents are Springer Nature contacts based in Japan who were actively carrying out research (academic, scientific or clinical).<br>You can view the accompanying infographic for this data here: https://doi.org/10.6084/m9.figshare.6609056.v1 <br>
DOI: 10.6084/m9.figshare.6328301
title: Is current risk assessment of non-genotoxic carcinogens protective?

description: Non-genotoxic carcinogens (NGTXCs) do not cause direct DNA damage but induce cancer via other mechanisms. In risk assessment of chemicals and pharmaceuticals, carcinogenic risks are determined using carcinogenicity studies in rodents. With the aim to reduce animal testing, REACH legislation states that carcinogenicity studies are only allowed when specific concerns are present; risk assessment of compounds that are potentially carcinogenic by a non-genotoxic mode of action is usually based on subchronic toxicity studies. Health-based guidance values (HBGVs) of NGTXCs may therefore be based on data from carcinogenicity or subchronic toxicity studies depending on the legal framework that applies. HBGVs are usually derived from No-Observed-Adverse-Effect-Levels (NOAELs). Here, we investigate whether current risk assessment of NGTXCs based on NOAELs is protective against cancer. To answer this question, we estimated Benchmark doses (BMDs) for carcinogenicity data of 44 known NGTXCs. These BMDs were compared to the NOAELs derived from the same carcinogenicity studies, as well as to the NOAELs derived from the associated subchronic studies. The results lead to two main conclusions. First, a NOAEL derived from a subchronic study is similar to a NOAEL based on cancer effects from a carcinogenicity study, supporting the current practice in REACH. Second, both the subchronic and cancer NOAELs are, on average, associated with a cancer risk of around 1% in rodents. This implies that for those chemicals that are potentially carcinogenic in humans, current risk assessment of NGTXCs may not be completely protective against cancer. Our results call for a broader discussion within the scientific community, followed by discussions among risk assessors, policy makers, and other stakeholders as to whether or not the potential cancer risk levels that appear to be associated with currently derived HBGVs of NGXTCs are acceptable.
DOI: 10.6084/m9.figshare.6328301.v2
title: Is current risk assessment of non-genotoxic carcinogens protective?

description: Non-genotoxic carcinogens (NGTXCs) do not cause direct DNA damage but induce cancer via other mechanisms. In risk assessment of chemicals and pharmaceuticals, carcinogenic risks are determined using carcinogenicity studies in rodents. With the aim to reduce animal testing, REACH legislation states that carcinogenicity studies are only allowed when specific concerns are present; risk assessment of compounds that are potentially carcinogenic by a non-genotoxic mode of action is usually based on subchronic toxicity studies. Health-based guidance values (HBGVs) of NGTXCs may therefore be based on data from carcinogenicity or subchronic toxicity studies depending on the legal framework that applies. HBGVs are usually derived from No-Observed-Adverse-Effect-Levels (NOAELs). Here, we investigate whether current risk assessment of NGTXCs based on NOAELs is protective against cancer. To answer this question, we estimated Benchmark doses (BMDs) for carcinogenicity data of 44 known NGTXCs. These BMDs were compared to the NOAELs derived from the same carcinogenicity studies, as well as to the NOAELs derived from the associated subchronic studies. The results lead to two main conclusions. First, a NOAEL derived from a subchronic study is similar to a NOAEL based on cancer effects from a carcinogenicity study, supporting the current practice in REACH. Second, both the subchronic and cancer NOAELs are, on average, associated with a cancer risk of around 1% in rodents. This implies that for those chemicals that are potentially carcinogenic in humans, current risk assessment of NGTXCs may not be completely protective against cancer. Our results call for a broader discussion within the scientific community, followed by discussions among risk assessors, policy makers, and other stakeholders as to whether or not the potential cancer risk levels that appear to be associated with currently derived HBGVs of NGXTCs are acceptable.
DOI: 10.6084/m9.figshare.6328301.v4
title: Is current risk assessment of non-genotoxic carcinogens protective?

description: Non-genotoxic carcinogens (NGTXCs) do not cause direct DNA damage but induce cancer via other mechanisms. In risk assessment of chemicals and pharmaceuticals, carcinogenic risks are determined using carcinogenicity studies in rodents. With the aim to reduce animal testing, REACH legislation states that carcinogenicity studies are only allowed when specific concerns are present; risk assessment of compounds that are potentially carcinogenic by a non-genotoxic mode of action is usually based on subchronic toxicity studies. Health-based guidance values (HBGVs) of NGTXCs may therefore be based on data from carcinogenicity or subchronic toxicity studies depending on the legal framework that applies. HBGVs are usually derived from No-Observed-Adverse-Effect-Levels (NOAELs). Here, we investigate whether current risk assessment of NGTXCs based on NOAELs is protective against cancer. To answer this question, we estimated Benchmark doses (BMDs) for carcinogenicity data of 44 known NGTXCs. These BMDs were compared to the NOAELs derived from the same carcinogenicity studies, as well as to the NOAELs derived from the associated subchronic studies. The results lead to two main conclusions. First, a NOAEL derived from a subchronic study is similar to a NOAEL based on cancer effects from a carcinogenicity study, supporting the current practice in REACH. Second, both the subchronic and cancer NOAELs are, on average, associated with a cancer risk of around 1% in rodents. This implies that for those chemicals that are potentially carcinogenic in humans, current risk assessment of NGTXCs may not be completely protective against cancer. Our results call for a broader discussion within the scientific community, followed by discussions among risk assessors, policy makers, and other stakeholders as to whether or not the potential cancer risk levels that appear to be associated with currently derived HBGVs of NGXTCs are acceptable.
DOI: 10.6084/m9.figshare.6328301.v3
title: Is current risk assessment of non-genotoxic carcinogens protective?

description: Non-genotoxic carcinogens (NGTXCs) do not cause direct DNA damage but induce cancer via other mechanisms. In risk assessment of chemicals and pharmaceuticals, carcinogenic risks are determined using carcinogenicity studies in rodents. With the aim to reduce animal testing, REACH legislation states that carcinogenicity studies are only allowed when specific concerns are present; risk assessment of compounds that are potentially carcinogenic by a non-genotoxic mode of action is usually based on subchronic toxicity studies. Health-based guidance values (HBGVs) of NGTXCs may therefore be based on data from carcinogenicity or subchronic toxicity studies depending on the legal framework that applies. HBGVs are usually derived from No-Observed-Adverse-Effect-Levels (NOAELs). Here, we investigate whether current risk assessment of NGTXCs based on NOAELs is protective against cancer. To answer this question, we estimated Benchmark doses (BMDs) for carcinogenicity data of 44 known NGTXCs. These BMDs were compared to the NOAELs derived from the same carcinogenicity studies, as well as to the NOAELs derived from the associated subchronic studies. The results lead to two main conclusions. First, a NOAEL derived from a subchronic study is similar to a NOAEL based on cancer effects from a carcinogenicity study, supporting the current practice in REACH. Second, both the subchronic and cancer NOAELs are, on average, associated with a cancer risk of around 1% in rodents. This implies that for those chemicals that are potentially carcinogenic in humans, current risk assessment of NGTXCs may not be completely protective against cancer. Our results call for a broader discussion within the scientific community, followed by discussions among risk assessors, policy makers, and other stakeholders as to whether or not the potential cancer risk levels that appear to be associated with currently derived HBGVs of NGXTCs are acceptable.
DOI: 10.6084/m9.figshare.6328295
title: Apertures Shaped as National Borders and Their Fraunhofer Diffraction Patterns

description: Have we ever considered how elegant a diffraction pattern may appear based on an aperture in the shape of one’s nation? <br>Apertures in the shape of national borders were developed on quartz substrates with a thickness of 170 μm by depositing chromium and using photolithography to etch the national borders, which scaled with the geographical area of each used nation. The nations were selected in order of total area, as provided by the United Nations Statistics Division, starting with the largest nation and including all nations with an area larger than 8 × 10<sup>10</sup> m<sup>2</sup>. Only mainland nations included in the International Organization for Standardization (ISO) document ISO 3166-1 are used.<br>All nations are ranked by geographical size and their FFT calculations and experimental data are presented in an array in the remainder of the document. Nations marked with the letters from A through F are presented in the main text. All Fraunhofer diffraction calculations and experimental data are presented from a perspective similar to the main text, 1.35 mm away from the aperture. All diffraction images measure 400 μm in both the vertical and horizontal directions. For images of the apertures, subgroups of nations are imaged at different magnifications for clarity. Nations #1 - #33, nations #34 - #77, and nations #78 - #113 all measure 340 μm, 170 μm, and 68 μm, respectively, in both the vertical and horizontal directions. <br><br>Lower resolution images are also available in JPEG format.<br>
DOI: 10.6084/m9.figshare.6328295.v2
title: Apertures Shaped as National Borders and Their Fraunhofer Diffraction Patterns

description: Have we ever considered how elegant a diffraction pattern may appear based on an aperture in the shape of one’s nation? <br>Apertures in the shape of national borders were developed on quartz substrates with a thickness of 170 μm by depositing chromium and using photolithography to etch the national borders, which scaled with the geographical area of each used nation. The nations were selected in order of total area, as provided by the United Nations Statistics Division, starting with the largest nation and including all nations with an area larger than 8 × 10<sup>10</sup> m<sup>2</sup>. Only mainland nations included in the International Organization for Standardization (ISO) document ISO 3166-1 are used.<br>All nations are ranked by geographical size and their FFT calculations and experimental data are presented in an array in the remainder of the document. Nations marked with the letters from A through F are presented in the main text. All Fraunhofer diffraction calculations and experimental data are presented from a perspective similar to the main text, 1.35 mm away from the aperture. All diffraction images measure 400 μm in both the vertical and horizontal directions. For images of the apertures, subgroups of nations are imaged at different magnifications for clarity. Nations #1 - #33, nations #34 - #77, and nations #78 - #113 all measure 340 μm, 170 μm, and 68 μm, respectively, in both the vertical and horizontal directions. <br><br>Lower resolution images are also available in JPEG format.<br>
DOI: 10.6084/m9.figshare.6328295.v3
title: Apertures Shaped as National Borders and Their Fraunhofer Diffraction Patterns

description: Have we ever considered how elegant a diffraction pattern may appear based on an aperture in the shape of one’s nation? <br>Apertures in the shape of national borders were developed on quartz substrates with a thickness of 170 μm by depositing chromium and using photolithography to etch the national borders, which scaled with the geographical area of each used nation. The nations were selected in order of total area, as provided by the United Nations Statistics Division, starting with the largest nation and including all nations with an area larger than 8 × 10<sup>10</sup> m<sup>2</sup>. Only mainland nations included in the International Organization for Standardization (ISO) document ISO 3166-1 are used.<br>All nations are ranked by geographical size and their FFT calculations and experimental data are presented in an array in the remainder of the document. Nations marked with the letters from A through F are presented in the main text. All Fraunhofer diffraction calculations and experimental data are presented from a perspective similar to the main text, 1.35 mm away from the aperture. All diffraction images measure 400 μm in both the vertical and horizontal directions. For images of the apertures, subgroups of nations are imaged at different magnifications for clarity. Nations #1 - #33, nations #34 - #77, and nations #78 - #113 all measure 340 μm, 170 μm, and 68 μm, respectively, in both the vertical and horizontal directions. <br><br>Lower resolution images are also available in JPEG format.<br>
DOI: 10.6084/m9.figshare.6328295.v4
title: Apertures Shaped as National Borders and Their Fraunhofer Diffraction Patterns

description: Have we ever considered how elegant a diffraction pattern may appear based on an aperture in the shape of one’s nation? <br>Apertures in the shape of national borders were developed on quartz substrates with a thickness of 170 μm by depositing chromium and using photolithography to etch the national borders, which scaled with the geographical area of each used nation. The nations were selected in order of total area, as provided by the United Nations Statistics Division, starting with the largest nation and including all nations with an area larger than 8 × 10<sup>10</sup> m<sup>2</sup>. Only mainland nations included in the International Organization for Standardization (ISO) document ISO 3166-1 are used.<br>All nations are ranked by geographical size and their FFT calculations and experimental data are presented in an array in the remainder of the document. Nations marked with the letters from A through F are presented in the main text. All Fraunhofer diffraction calculations and experimental data are presented from a perspective similar to the main text, 1.35 mm away from the aperture. All diffraction images measure 400 μm in both the vertical and horizontal directions. For images of the apertures, subgroups of nations are imaged at different magnifications for clarity. Nations #1 - #33, nations #34 - #77, and nations #78 - #113 all measure 340 μm, 170 μm, and 68 μm, respectively, in both the vertical and horizontal directions. <br><br>Lower resolution images are also available in JPEG format.<br>
DOI: 10.6084/m9.figshare.6328295.v5
title: Apertures Shaped as National Borders and Their Fraunhofer Diffraction Patterns

description: Have we ever considered how elegant a diffraction pattern may appear based on an aperture in the shape of one’s nation? <br>Apertures in the shape of national borders were developed on quartz substrates with a thickness of 170 μm by depositing chromium and using photolithography to etch the national borders, which scaled with the geographical area of each used nation. The nations were selected in order of total area, as provided by the United Nations Statistics Division, starting with the largest nation and including all nations with an area larger than 8 × 10<sup>10</sup> m<sup>2</sup>. Only mainland nations included in the International Organization for Standardization (ISO) document ISO 3166-1 are used.<br>All nations are ranked by geographical size and their FFT calculations and experimental data are presented in an array in the remainder of the document. Nations marked with the letters from A through F are presented in the main text. All Fraunhofer diffraction calculations and experimental data are presented from a perspective similar to the main text, 1.35 mm away from the aperture. All diffraction images measure 400 μm in both the vertical and horizontal directions. For images of the apertures, subgroups of nations are imaged at different magnifications for clarity. Nations #1 - #33, nations #34 - #77, and nations #78 - #113 all measure 340 μm, 170 μm, and 68 μm, respectively, in both the vertical and horizontal directions. <br><br>Lower resolution images are also available in JPEG format.<br>
DOI: 10.6084/m9.figshare.6328292.v1
title: Standard setting for mastoidectomy survey results

description: The file "Standard Setting Raw Data.csv" contains the results of a survey of attending otologic surgeons. The associated file "surveytext.pdf" contains the text of the survey, which was delivered online. The file "metric_names.csv" has a mapping from the abbreviations used in the column names in the raw data to the text used in the survey.<br><br>The column names in the raw data are encoded in the form `*metricname*_(u,s,c)` where "`_u`" refers to the question for the metric "without supervision" (u means "unsupervised"), "`_s`" refers to "with supervision" and "`_c`" refers to the free comment field. The meaning of the other fields should be clear from the survey text.
DOI: 10.6084/m9.figshare.6328292
title: Standard setting for mastoidectomy survey results

description: The file "Standard Setting Raw Data.csv" contains the results of a survey of attending otologic surgeons. The associated file "surveytext.pdf" contains the text of the survey, which was delivered online. The file "metric_names.csv" has a mapping from the abbreviations used in the column names in the raw data to the text used in the survey.<br><br>The column names in the raw data are encoded in the form `*metricname*_(u,s,c)` where "`_u`" refers to the question for the metric "without supervision" (u means "unsupervised"), "`_s`" refers to "with supervision" and "`_c`" refers to the free comment field. The meaning of the other fields should be clear from the survey text.<br>The raw data values are recorded as 1 through 5 but were interpreted as 0 through 4, so that the sum of the values in an actual evaluation would have 0 as the lowest attainable score.<br>
DOI: 10.23645/epacomptox.6328037.v1
title: ToxCast & Tox21 High-Throughput Assay Information: Assay Annotation User Guide

description: ToxCast high-throughput assay annotation user guide.
DOI: 10.23645/epacomptox.6328037.v2
title: ToxCast and Tox21 High-throughput Screening Assay Descriptions

description: ToxCast and Tox21 High-throughput Screening Assay Descriptions.