cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9804560
title: Supplementary Material for: Histologic Response and Toxicity following Interval-Compressed Four-Drug Therapy Given Preoperatively in Children and Young Adults with Osteosarcoma: A Retrospective Study

description: <b><i>Objectives:</i></b> The histologic response to chemotherapy is an important prognostic factor in osteosarcoma. Thus, we attempted to develop an effective neoadjuvant regimen to achieve an improvement in histologic response. <b><i>Methods:</i></b> Twenty-nine patients with a high-grade osteosarcoma received 2 courses of neoadjuvant chemotherapy non-randomly with either the MAP regimen (methotrexate 12 g/m<sup>2</sup>, cisplatin 120 mg/m<sup>2</sup>, and doxorubicin 75 mg/m<sup>2</sup>) or MAPI regimen (MAP plus ifosfamide 9 g/m<sup>2</sup>). We applied interval compression to MAPI by shortening the preoperative period to be aligned with that of MAP. Adjuvant chemotherapy was tailored according to the necrosis rate of resected tumor specimens. Necrosis rate, toxicity, and survival outcome were compared retrospectively between the 2 groups. <b><i>Results:</i></b> The median interval between the beginning of neoadjuvant chemotherapy and surgery was 97.0 days in the MAPI group (17 patients) and 90.5 days in the MAP group (12 patients; <i>p</i> = 0.19). The good histologic response (&gt;90% of necrosis) was observed in 71% of MAPI and in 42% of MAP (<i>p</i> = 0.12). Major toxicities of grade 3 or worse were not different between the 2 groups. The probability of 5-year progression-free survival and overall survival of the MAPI group were 74 and 83%, and those in the MAP group were 50 and 75%, showing no difference. <b><i>Conclusions:</i></b> Interval-compressed MAPI therapy given in a similar duration of the preoperative phase to that of conventional MAP therapy showed a marginal trend toward a better histologic response without a significant increase in major toxicities. Regarding the proportion of good histologic response, 71% is one of the highest values ever reported in the literature. The results warrant further testing in a prospective way in a larger cohort.
DOI: 10.6084/m9.figshare.9804566.v1
title: MEC-R and MEC-S

description: A mecillinam resistant and susceptible E. coli isolate from the same patient
DOI: 10.6084/m9.figshare.9804530
title: MVB LORS palaeocurrent data. A Multidisciplinary Approach to Sediment Provenance Analysis of the Late Silurian–Devonian Lower Old Red Sandstone succession, Northern Midland Valley Basin, Scotland

description: MVB LORS palaeocurrent data
DOI: 10.6084/m9.figshare.9804533
title: Petrographical Point Count Sample Locations. A Multidisciplinary Approach to Sediment Provenance Analysis of the Late Silurian–Devonian Lower Old Red Sandstone succession, Northern Midland Valley Basin, Scotland

description: Petrographical Point Count Sample Locations.
DOI: 10.6084/m9.figshare.9804560.v1
title: Supplementary Material for: Histologic Response and Toxicity following Interval-Compressed Four-Drug Therapy Given Preoperatively in Children and Young Adults with Osteosarcoma: A Retrospective Study

description: <b><i>Objectives:</i></b> The histologic response to chemotherapy is an important prognostic factor in osteosarcoma. Thus, we attempted to develop an effective neoadjuvant regimen to achieve an improvement in histologic response. <b><i>Methods:</i></b> Twenty-nine patients with a high-grade osteosarcoma received 2 courses of neoadjuvant chemotherapy non-randomly with either the MAP regimen (methotrexate 12 g/m<sup>2</sup>, cisplatin 120 mg/m<sup>2</sup>, and doxorubicin 75 mg/m<sup>2</sup>) or MAPI regimen (MAP plus ifosfamide 9 g/m<sup>2</sup>). We applied interval compression to MAPI by shortening the preoperative period to be aligned with that of MAP. Adjuvant chemotherapy was tailored according to the necrosis rate of resected tumor specimens. Necrosis rate, toxicity, and survival outcome were compared retrospectively between the 2 groups. <b><i>Results:</i></b> The median interval between the beginning of neoadjuvant chemotherapy and surgery was 97.0 days in the MAPI group (17 patients) and 90.5 days in the MAP group (12 patients; <i>p</i> = 0.19). The good histologic response (&gt;90% of necrosis) was observed in 71% of MAPI and in 42% of MAP (<i>p</i> = 0.12). Major toxicities of grade 3 or worse were not different between the 2 groups. The probability of 5-year progression-free survival and overall survival of the MAPI group were 74 and 83%, and those in the MAP group were 50 and 75%, showing no difference. <b><i>Conclusions:</i></b> Interval-compressed MAPI therapy given in a similar duration of the preoperative phase to that of conventional MAP therapy showed a marginal trend toward a better histologic response without a significant increase in major toxicities. Regarding the proportion of good histologic response, 71% is one of the highest values ever reported in the literature. The results warrant further testing in a prospective way in a larger cohort.
DOI: 10.6084/m9.figshare.9804509
title: Metadata record for: Updating the global occurrence of Culicoides imicola, a vector for emerging viral diseases

description: This dataset contains key characteristics about the data described in the Data Descriptor Updating the global occurrence of Culicoides imicola, a vector for emerging viral diseases. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.9804533.v1
title: Petrographical Point Count Sample Locations. A Multidisciplinary Approach to Sediment Provenance Analysis of the Late Silurian–Devonian Lower Old Red Sandstone succession, Northern Midland Valley Basin, Scotland

description: Petrographical Point Count Sample Locations.
DOI: 10.6084/m9.figshare.9804512
title: Differentially expressed genes from two groups of Tribolium castaneum selected for short or long duration of death feigning behaviour

description: The dataset presented here consists of a spreadsheet in Excel .xlsx format, containing information on differentially expressed genes (DEGs) from two groups of the red flour beetle, <i>Tribolium castaneum</i>; one selected for a short duration (S) and the other a long duration (L) of death feigning antipredator behaviour.<br>An RNA-seq analysis was performed on the S and L strains of <i>T. castaneum </i>to elucidate the relationship between gene expression and differences in death feigning behaviour. cDNA sequencing was performed using the Illumina HiSeq 2500 platform. Approximately 90% of the clean reads obtained were mapped to the Tcas5.2 reference genome, and further analysis revealed 518 DEGs between the L and S strains. Information on the DEGs identified is presented here in the file <b>death-feigning-degs.xlsx</b>. The information provided is as follows:<br><b>LOC name</b> - Gene symbol for the gene identified<b>Region </b>- Genomic region of the gene identified<b>Gene ID</b> - ID of the gene identified<b>Description</b> - Gene description<b>FPKM for L</b> - Fragments Per Kilobase per Million mapped reads value for the L strain<b>FPKM for S</b> - Fragments Per Kilobase per Million mapped reads value for the S strain<b>log2(Fold change+1)</b><br><b>p-value</b><b>FDR</b> - False Discovery Rate<br>These results are further discussed and presented in the figures of the accompanying paper.
DOI: 10.6084/m9.figshare.9804530.v1
title: MVB LORS palaeocurrent data. A Multidisciplinary Approach to Sediment Provenance Analysis of the Late Silurian–Devonian Lower Old Red Sandstone succession, Northern Midland Valley Basin, Scotland

description: MVB LORS palaeocurrent data
DOI: 10.6084/m9.figshare.9804470
title: ASCAT segmentation data for array data

description: This is a tab-separated values file containing the ASCAT-derived segmentation data for the array data. This was used as an input to the script provided by Marquard et al 2015 to calculate the HRD score and HRD score components.
DOI: 10.6084/m9.figshare.9804512.v1
title: Differentially expressed genes from two groups of Tribolium castaneum selected for short or long duration of death feigning behaviour

description: The dataset presented here consists of a spreadsheet in Excel .xlsx format, containing information on differentially expressed genes (DEGs) from two groups of the red flour beetle, <i>Tribolium castaneum</i>; one selected for a short duration (S) and the other a long duration (L) of death feigning antipredator behaviour.<br>An RNA-seq analysis was performed on the S and L strains of <i>T. castaneum </i>to elucidate the relationship between gene expression and differences in death feigning behaviour. cDNA sequencing was performed using the Illumina HiSeq 2500 platform. Approximately 90% of the clean reads obtained were mapped to the Tcas5.2 reference genome, and further analysis revealed 518 DEGs between the L and S strains. Information on the DEGs identified is presented here in the file <b>death-feigning-degs.xlsx</b>. The information provided is as follows:<br><b>LOC name</b> - Gene symbol for the gene identified<b>Region </b>- Genomic region of the gene identified<b>Gene ID</b> - ID of the gene identified<b>Description</b> - Gene description<b>FPKM for L</b> - Fragments Per Kilobase per Million mapped reads value for the L strain<b>FPKM for S</b> - Fragments Per Kilobase per Million mapped reads value for the S strain<b>log2(Fold change+1)</b><br><b>p-value</b><b>FDR</b> - False Discovery Rate<br>These results are further discussed and presented in the figures of the accompanying paper.
DOI: 10.6084/m9.figshare.9804347
title: Supplementary Material for: Active Phagocytosis and Diachronic Processing of Calcium Oxalate Monohydrate Crystals in an in vitro Macrophage Model

description: <b><i>Background:</i></b> We previously discovered that renal macrophages (Mφs) phagocytose renal calcium oxalate monohydrate (COM) crystals. This study investigated the processing of engulfed crystals using in vitro models. <b><i>Methods:</i></b> J774.1 mouse Mφs were exposed to COM crystals and observed for 24 h using polarized light microscopy with/without cytochalasin B (CB), an inhibitor of phagocytosis, to confirm active crystal phagocytosis. LysoTracker and immunohistochemical staining using transmission electron microscopy for lysosomal-associated membrane protein 1 were used to confirm engulfed COM crystal uptake into lysosomes. Diachronic tracking of specific Mφs was performed to capture the entire course of engulfed COM crystal processing using polarized light microscopy. Follow-up studies of fluorescent COM (f-COM) crystals using imaging cytometry were performed in the presence and absence of nigericin to dissipate the pH gradient in acidic organelles. <b><i>Results:</i></b> Phagocytosis rates increased with COM density and were significantly lower in cells treated with CB (<i>p</i> &lt; 0.01). We observed that engulfed crystals colocalized within lysosomes of the Mφs; moreover, diachronic observation indicated that the engulfed COM crystals were subdivided during Mφ division and eliminated by the 7th day of culture. Additionally, imaging cytometry showed that the fluorescence level of f-COM crystals in the nigericin (–) group after 48 h was significantly lower than that in the nigericin (+) group. <b><i>Conclusions:</i></b> This study confirmed active phagocytosis and lysosomal processing of engulfed COM crystals by Mφs. This discovery is expected to contribute to the development of future drugs that enhance the COM crystal phagocytic ability of Mφs.
DOI: 10.6084/m9.figshare.9804509.v2
title: Metadata record for: Updating the global occurrence of Culicoides imicola, a vector for emerging viral diseases

description: This dataset contains key characteristics about the data described in the Data Descriptor Updating the global occurrence of Culicoides imicola, a vector for emerging viral diseases. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.9804509.v1
title: Metadata record for: Updating the global occurrence of Culicoides imicola, a vector for emerging viral diseases

description: This dataset contains key characteristics about the data described in the Data Descriptor Updating the global occurrence of Culicoides imicola, a vector for emerging viral diseases. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.9803930.v2
title: Dataset of 2019TC005516RR

description: Supporting data for manuscript entitled in "Cretaceous episodic extension in the South China Block, East Asia: Evidence from the Yuechengling Massif of central South China"
DOI: 10.6084/m9.figshare.9803930.v1
title: Cretaceous episodic extension in the South China Block, East Asia: Evidence from the Yuechengling Massif of central South China

description: Supporting data for manuscript entitled in "Cretaceous episodic extension in the South China Block, East Asia: Evidence from the Yuechengling Massif of central South China"
DOI: 10.6084/m9.figshare.9801239
title: Supplementary: all individual label fields

description: Supplementary data, not required to view model in 3D (in the Poject window of Avizo) or 2D (in the Segmentation window of Avizo). 24 individual label fields. For a condensed version of all 24 labels in a single file, please refer to 'All label fields'.
DOI: 10.6084/m9.figshare.9801530
title: Label surfaces

description: Individual label surfaces for 3D model viewing in Avizo Project window.
DOI: 10.6084/m9.figshare.9801530.v1
title: Label surfaces

description: Individual label surfaces for 3D model viewing in Avizo Project window.
DOI: 10.6084/m9.figshare.9800927
title: Spraying 6-BA could alleviate the harmful impacts of waterlogging on dry matter accumulation and grain yield of wheat

description: <b>Figure 1. </b>Rainfall in 10-days of each month during the whole wheat season at Jingzhou weather station from 1983 to 2012. (Values of each month is the means from 1983 to 2012) <b>Figure 2. </b>Monthly average temperature and total rainfall during wheat growing seasons at experimental station from 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 3.</b> The effect of different treatments on the aboveground biomass production at maturity of 2011 to 2012 (A) and 2012 to 2013 (B) cycles.<b></b> <b>Figure 4. </b>The effect of different treatments on photosynthetic rate of flag leaf after booting stage of 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 5.</b> The effect of different treatments on MDA content in flag leaf (A, C) and the third leaf (B,D) at 25 DAA (2011-2012 and 2012-2013). <b>Figure 6. </b>The effect of different treatments on the root activities at 0-20 cm soil layers after booting stage.<b>Table 1.</b> Wheat major growth stages in the two growing seasons. Dates are mean values of treatments.<b>Table 2.</b> Effect of different treatments on grain yield, kernel number per spike and 1000 kernel weight.
DOI: 10.6084/m9.figshare.9801239.v2
title: Supplementary: all individual label fields

description: Supplementary data, not required to view model in 3D (in the Poject window of Avizo) or 2D (in the Segmentation window of Avizo). 24 individual label fields. For a condensed version of all 24 labels in a single file, please refer to 'All label fields'.
DOI: 10.6084/m9.figshare.9800927.v1
title: Spraying 6-BA could alleviate the harmful impacts of waterlogging on dry matter accumulation and grain yield of wheat

description: <b>Figure 1. </b>Rainfall in 10-days of each month during the whole wheat season at Jingzhou weather station from 1983 to 2012. (Values of each month is the means from 1983 to 2012) <b>Figure 2. </b>Monthly average temperature and total rainfall during wheat growing seasons at experimental station from 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 3.</b> The effect of different treatments on the aboveground biomass production at maturity of 2011 to 2012 (A) and 2012 to 2013 (B) cycles.<b></b> <b>Figure 4. </b>The effect of different treatments on photosynthetic rate of flag leaf after booting stage of 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 5.</b> The effect of different treatments on MDA content in flag leaf (A, C) and the third leaf (B,D) at 25 DAA (2011-2012 and 2012-2013). <b>Figure 6. </b>The effect of different treatments on the root activities at 0-20 cm soil layers after booting stage.<b>Table 1.</b> Wheat major growth stages in the two growing seasons. Dates are mean values of treatments.<b>Table 2.</b> Effect of different treatments on grain yield, kernel number per spike and 1000 kernel weight.
DOI: 10.6084/m9.figshare.9800591
title: Spraying 6-BA could alleviate the harmful impacts of waterlogging on dry matter accumulation and grain yield of wheat

description: <b>Figure 1. </b>Rainfall in 10-days of each month during the whole wheat season at Jingzhou weather station from 1983 to 2012. (Values of each month is the means from 1983 to 2012) <b>Figure 2. </b>Monthly average temperature and total rainfall during wheat growing seasons at experimental station from 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 3.</b> The effect of different treatments on the aboveground biomass production at maturity of 2011 to 2012 (A) and 2012 to 2013 (B) cycles.<b></b> <b>Figure 4. </b>The effect of different treatments on photosynthetic rate of flag leaf after booting stage of 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 5.</b> The effect of different treatments on MDA content in flag leaf (A, C) and the third leaf (B,D) at 25 DAA (2011-2012 and 2012-2013). <b>Figure 6. </b>The effect of different treatments on the root activities at 0-20 cm soil layers after booting stage.<b>Table 1.</b> Wheat major growth stages in the two growing seasons. Dates are mean values of treatments.<b>Table 2.</b> Effect of different treatments on grain yield, kernel number per spike and 1000 kernel weight.
DOI: 10.6084/m9.figshare.9800636
title: Complete phylogenies and alignment files

description: Complete phylogenies, alignment files and trimmed files referring to "Multi-layered horizontal operon transfers from bacteria reconstruct a thiamine salvage pathway in yeasts"
DOI: 10.6084/m9.figshare.9801239.v1
title: Supplementary: all 24 individual label fields

description: Supplementary data, not required to view model in 3D (in the Poject window of Avizo) or 2D (in the Segmentation window of Avizo). 24 individual label fields. For a condensed version of all 24 labels in a single file, please refer to 'All label fields'.
DOI: 10.6084/m9.figshare.9800378
title: sXCT dataset

description: sXCT dataset of the fossil.
DOI: 10.6084/m9.figshare.9800378.v1
title: sXCT dataset

description: sXCT dataset of the fossil.
DOI: 10.6084/m9.figshare.9800591.v1
title: Spraying 6-BA could alleviate the harmful impacts of waterlogging on dry matter accumulation and grain yield of wheat

description: <b>Figure 1. </b>Rainfall in 10-days of each month during the whole wheat season at Jingzhou weather station from 1983 to 2012. (Values of each month is the means from 1983 to 2012) <b>Figure 2. </b>Monthly average temperature and total rainfall during wheat growing seasons at experimental station from 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 3.</b> The effect of different treatments on the aboveground biomass production at maturity of 2011 to 2012 (A) and 2012 to 2013 (B) cycles.<b></b> <b>Figure 4. </b>The effect of different treatments on photosynthetic rate of flag leaf after booting stage of 2011 to 2012 (A) and 2012 to 2013 (B) cycles. <b>Figure 5.</b> The effect of different treatments on MDA content in flag leaf (A, C) and the third leaf (B,D) at 25 DAA (2011-2012 and 2012-2013). <b>Figure 6. </b>The effect of different treatments on the root activities at 0-20 cm soil layers after booting stage.<b>Table 1.</b> Wheat major growth stages in the two growing seasons. Dates are mean values of treatments.<b>Table 2.</b> Effect of different treatments on grain yield, kernel number per spike and 1000 kernel weight.
DOI: 10.6084/m9.figshare.9800321
title: LPG Paper Merged Data Set - Wave 1 and Wave 2 (for Cross section Analysis)

description: This is the merged data set of the two waves of ACCESS survey from 2014-15 and 2018 for cross-sectional data analysis.
DOI: 10.6084/m9.figshare.9800318
title: LPG Paper Appended Data Set - Wave 1 and Wave 2 (for Panel Analysis)

description: This is the appended data set of the two waves of ACCESS survey from 2014-15 and 2018 for panel data analysis.
DOI: 10.6084/m9.figshare.9800291
title: All label fields

description: All labels. View in Avizo in segmentation window.
DOI: 10.6084/m9.figshare.9800321.v1
title: LPG Paper Merged Data Set - Wave 1 and Wave 2 (for Cross section Analysis)

description: This is the merged data set of the two waves of ACCESS survey from 2014-15 and 2018 for cross-sectional data analysis.
DOI: 10.6084/m9.figshare.9800636.v1
title: Phylogenies_Files

description: Complete phylogenies, alignment files and trimmed files refering to "Multi-layered horizontal operon transfers from bacteria reconstruct a thiamine salvage pathway in yeasts"
DOI: 10.6084/m9.figshare.9800129
title: Supplementary Material for: Autologous Cell Therapy for Aged Human Skin: A Randomized, Placebo-Controlled, Phase-I Study

description: <b><i>Introduction:</i></b> Skin ageing involves senescent fibroblast accumulation, disturbance in extracellular matrix (ECM) homeostasis, and decreased collagen synthesis. <b><i>Objective:</i></b> to assess a cell therapy product for aged skin (RCS-01; verum) consisting of ~25 × 10<sup>6</sup> cultured, autologous cells derived from anagen hair follicle non-bulbar dermal sheath (NBDS). <b><i>Methods:</i></b> For each subject in the verum group, 4 areas of buttock skin were injected intradermally 1 or 3 times at monthly intervals with RCS-01, cryomedium, or needle penetration without injection; in the placebo group RCS-01 was replaced by cryomedium. The primary endpoint was assessment of local adverse event profiles. As secondary endpoints, expression of genes related to ECM homeostasis was assessed in biopsies from randomly selected volunteers in the RCS-01 group taken 4 weeks after the last injection. ­<b><i>Results:</i></b> Injections were well tolerated with no severe adverse events reported 1 year after the first injection. When compared with placebo-treated skin, a single treatment with RCS-01 resulted in a significant upregulation of TGFβ1, CTGF, COL1A1, COL1A2, COL3A1, and lumican mRNA expression. <b><i>Limitations:</i></b> The cohort size was insufficient for dose ­ranging evaluation and subgroup analyses of efficacy. <b><i>Conclusions:</i></b> RCS-01 therapy is well tolerated and associated with a gene expression response consistent with an improvement of ECM homeostasis.