cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11878182.v3
title: DataInBrief: data used to generate Principal Component Analyses (PCA) Plots

description: Data used to generate PCA plots of 1) DNA in water (summer) and sediment based on normalized taxonomic read counts; and 2) DNA and RNA present in summer water and sediment based on normalized counts of all functionally annotated genes from the metagenomic assembly. <br>
DOI: 10.6084/m9.figshare.11878173.v1
title: Data used to generate Figure 2

description: ICPMS data used to generate Figure 2.<br>
DOI: 10.6084/m9.figshare.11878182.v4
title: 2. DataInBrief: data used to generate Principal Component Analyses (PCA) Plots

description: Data used to generate PCA plots of 1) DNA in water (summer) and sediment based on normalized taxonomic read counts; and 2) DNA and RNA present in summer water and sediment based on normalized counts of all functionally annotated genes from the metagenomic assembly. <br>
DOI: 10.6084/m9.figshare.11878173.v2
title: Data used to generate Table 1

description: ICPMS data used to generate Figure 2.<br>
DOI: 10.6084/m9.figshare.11878182.v5
title: 3. DataInBrief: data used to generate Principal Component Analyses (PCA) Plots

description: Data used to generate PCA plots of 1) DNA in water (summer) and sediment based on normalized taxonomic read counts; and 2) DNA and RNA present in summer water and sediment based on normalized counts of all functionally annotated genes from the metagenomic assembly. <br>
DOI: 10.6084/m9.figshare.11878173.v3
title: 1. Data used to generate Table 1

description: ICPMS data used to generate Figure 2.<br>
DOI: 10.6084/m9.figshare.11878182.v6
title: 4. DataInBrief: data used to generate Principal Component Analyses (PCA) Plots

description: Data used to generate PCA plots of 1) DNA in water (summer) and sediment based on normalized taxonomic read counts; and 2) DNA and RNA present in summer water and sediment based on normalized counts of all functionally annotated genes from the metagenomic assembly. <br>
DOI: 10.6084/m9.figshare.11878155.v3
title: DataInBreif: data used for NMDS plots

description: Data used to make NMDS at all taxonomic levels (i.e., Archaea, Bacteria, Eukaryota)<br>
DOI: 10.6084/m9.figshare.11878173.v4
title: 1. ICPMS data for Ely Brook water and sediment

description: ICPMS data.<br>
DOI: 10.6084/m9.figshare.11878182.v7
title: 3. DataInBrief: data used to generate Principal Component Analyses (PCA) Plots

description: Data used to generate PCA plots of 1) DNA in water (summer) and sediment based on normalized taxonomic read counts; and 2) DNA and RNA present in summer water and sediment based on normalized counts of all functionally annotated genes from the metagenomic assembly. <br>
DOI: 10.6084/m9.figshare.11878131
title: PLoS One: Taxonomic data used to generate Figure 2

description: Raw counts used to generate percentages of annotated taxa for Figure 3.<br>
DOI: 10.6084/m9.figshare.11878173.v6
title: PLoS One: Raw ICPMS data for Ely Brook water and sediment

description: ICPMS data.<br>
DOI: 10.6084/m9.figshare.11878173.v5
title: Raw ICPMS data for Ely Brook water and sediment

description: ICPMS data.<br>
DOI: 10.6084/m9.figshare.11878155.v4
title: 1. DataInBrief: data used for NMDS plots

description: Data used to make NMDS at all taxonomic levels (i.e., Archaea, Bacteria, Eukaryota)<br>
DOI: 10.6084/m9.figshare.11878113
title: PLoS One: Data used to make Figures 5 and 6

description: AntiSMASH data used to generate Figs 5–6 and Prokka-annotated data used to generate 6.<br>
DOI: 10.6084/m9.figshare.11878155.v5
title: 2. DataInBrief: data used for NMDS plots

description: Data used to make NMDS at all taxonomic levels (i.e., Archaea, Bacteria, Eukaryota)<br>
DOI: 10.6084/m9.figshare.11878131.v1
title: Taxonomic data used to generate Figure 3

description: Raw counts used to generate percentages of annotated taxa for Figure 3.<br>
DOI: 10.6084/m9.figshare.11878113.v1
title: Untitled Item

description: AntiSMASH and Prokka-annotated data used to generate Figure 6.<br>
DOI: 10.6084/m9.figshare.11878131.v3
title: PLoS One: Taxonomic data used to generate Figure 2

description: Raw counts used to generate percentages of annotated taxa for Figure 3.<br>
DOI: 10.6084/m9.figshare.11878155.v6
title: 3. DataInBrief: data used for NMDS plots

description: Data used to make NMDS at all taxonomic levels (i.e., Archaea, Bacteria, Eukaryota)<br>
DOI: 10.6084/m9.figshare.11878113.v2
title: Data used to make Figure 6

description: AntiSMASH and Prokka-annotated data used to generate Figure 6.<br>
DOI: 10.6084/m9.figshare.11878155.v7
title: 2. DataInBrief: data used for NMDS plots

description: Data used to make NMDS at all taxonomic levels (i.e., Archaea, Bacteria, Eukaryota)<br>
DOI: 10.6084/m9.figshare.11878131.v2
title: Taxonomic data used to generate Figure 2

description: Raw counts used to generate percentages of annotated taxa for Figure 3.<br>
DOI: 10.6084/m9.figshare.11878113.v3
title: Data used to make Figure 6

description: AntiSMASH and Prokka-annotated data used to generate Figure 6.<br>
DOI: 10.6084/m9.figshare.11878113.v5
title: PLoS One: Data used to make Figures 5 and 6

description: AntiSMASH data used to generate Figs 5–6 and Prokka-annotated data used to generate 6.<br>
DOI: 10.6084/m9.figshare.11878113.v4
title: Data used to make Figures 5 and 6

description: AntiSMASH data used to generate Figs 5–6 and Prokka-annotated data used to generate 6.<br>
DOI: 10.6084/m9.figshare.11878050
title: Supplementary material.pdf

description: Supplementary Material
DOI: 10.6084/m9.figshare.11878050.v1
title: Supplementary material.pdf

description: Supplementary Material
DOI: 10.6084/m9.figshare.11877975
title: GSM2492109_FAIRE_5min_POOL_filt_counts_clip.bw

description: zebrafish1 FAIRE-seq <br>
DOI: 10.6084/m9.figshare.11877975.v1
title: GSM2492109_FAIRE_5min_POOL_filt_counts_clip.bw

description: zebrafish1 FAIRE-seq <br>
DOI: 10.6084/m9.figshare.11877948
title: PLoS One: Alpha Diversity_by season

description: Alpha diversity (Shannon diversity) of bacteria, archaea, and fungi from sediments from different seasons (i.e., summer versus winter).
DOI: 10.6084/m9.figshare.11877966
title: PLoS One: Alpha diversity_ by sample type

description: Alpha diversity (Shannon diversity) of bacteria, archaea, and fungi from summer from different sample types (i.e., water and sediment).
DOI: 10.6084/m9.figshare.11877966.v1
title: Alpha diversity_ by sample type

description: Alpha diversity (Shannon diversity) of bacteria, archaea, and fungi from summer from different sample types (i.e., water and sediment).
DOI: 10.6084/m9.figshare.11877948.v1
title: Alpha Diversity_sediment_fungi_indices

description: Alpha diversity (Shannon diversity) of fungi from sediments from different seasons.
DOI: 10.6084/m9.figshare.11877948.v2
title: Alpha Diversity_sediment_fungi_indices

description: Alpha diversity (Shannon diversity) of bacteria, archaea, and fungi from sediments from different seasons.
DOI: 10.6084/m9.figshare.11877855
title: KEGG data_Diff_annotated_ORFs

description: Differentially expressed open reading frames<br>
DOI: 10.6084/m9.figshare.11877948.v3
title: Alpha Diversity_by season

description: Alpha diversity (Shannon diversity) of bacteria, archaea, and fungi from sediments from different seasons (i.e., summer versus winter).
DOI: 10.6084/m9.figshare.11877855.v2
title: KEGG data_Diff_annotated_ORFs

description: Differentially expressed open reading frames<br>
DOI: 10.6084/m9.figshare.11877855.v1
title: KEGG data_Diff_annotated_ORFs

description: Differentially expressed open reading frames<br>
DOI: 10.6084/m9.figshare.11877786
title: Transcriptome assemblies for Erysimum species

description: Here we present the floral transcriptomes of 18 populations from seven species of the genus <i>Erysimum</i> (Brassicaceae): <i>Erysimum bastetanum</i> (populations: Ebt01, Ebt12, Ebt13, Ebt22), <i>E. mediohispanicum</i> (populations: Em21, Em39, Em71), <i>E. nevadense</i> (populations: En05,En10, En12), <i>E. popovii</i> (Ep16, Ep20, Ep27), <i>E. baeticum</i> (populations: Ebb07, Ebb10, Ebb12), <i>E. fitzii</i> (population Ef01), and <i>E. lagascae</i> (population Ela07).<br>
DOI: 10.6084/m9.figshare.11877789
title: Thinking style, conspiracy and schizotypy

description: Data examining links between conspiracy and thinking
DOI: 10.6084/m9.figshare.11877783
title: Traits_of_spiders.csv

description: Morphological and ecological traits of spider species in the semideciduous Atlantic Forest of Argentina.
DOI: 10.6084/m9.figshare.11877786.v1
title: Erysimum assemblies

description: Here we present the floral transcriptomes of 18 populations from seven species of the genus <i>Erysimum</i> (Brassicaceae). Transcriptomes were <i>de novo</i> assembled. @page { margin: 2cm } p { margin-bottom: 0.25cm; direction: ltr; color: #00000a; line-height: 120%; text-align: left; orphans: 2; widows: 2 } p.western { font-family: "Liberation Serif", serif; font-size: 12pt } p.cjk { font-family: "Noto Sans CJK SC Regular"; font-size: 12pt; so-language: zh-CN } p.ctl { font-family: "FreeSans"; so-language: hi-IN } a:link { color: #0563c1 }
DOI: 10.6084/m9.figshare.11877786.v3
title: Transcriptome assemblies for Erysimum species

description: Here we present the floral transcriptomes of 18 populations from seven species of the genus <i>Erysimum</i> (Brassicaceae): <i>Erysimum bastetanum</i> (populations: Ebt01, Ebt12, Ebt13, Ebt22), <i>E. mediohispanicum</i> (populations: Em21, Em39, Em71), <i>E. nevadense</i> (populations: En05,En10, En12), <i>E. popovii</i> (Ep16, Ep20, Ep27), <i>E. baeticum</i> (populations: Ebb07, Ebb10, Ebb12), <i>E. fitzii</i> (population Ef01), and <i>E. lagascae</i> (population Ela07).<br>
DOI: 10.6084/m9.figshare.11877786.v2
title: Erysimum transcriptome assemblies

description: Here we present the floral transcriptomes of 18 populations from seven species of the genus <i>Erysimum</i> (Brassicaceae). Transcriptomes were <i>de novo</i> assembled.
DOI: 10.6084/m9.figshare.11877777
title: Ecological_data_of_spiders_communities_present_in_native_forest_and_pine_plantations.

description: we present two data set about 259 species of spiders from the semideciduous Atlantic Forest of Argentina. The trait data set compiled information of morphological and ecological traits such as body size, femur length, ocular distance, foraging strategy, prey range, circadian activity and stratum preference.
DOI: 10.6084/m9.figshare.11877783.v1
title: Traits_of_spiders.csv

description: Morphological and ecological traits of spider species in the semideciduous Atlantic Forest of Argentina.
DOI: 10.6084/m9.figshare.11877783.v2
title: Traits_of_spiders.csv

description: Morphological and ecological traits of spider species in the semideciduous Atlantic Forest of Argentina.
DOI: 10.6084/m9.figshare.11877777.v1
title: Ecological_data_of_spiders_communities_present_in_native_forest_and_pine_plantations.

description: we present two data set about 259 species of spiders from the semideciduous Atlantic Forest of Argentina. The trait data set compiled information of morphological and ecological traits such as body size, femur length, ocular distance, foraging strategy, prey range, circadian activity and stratum preference.
DOI: 10.6084/m9.figshare.11877777.v2
title: Ecological_data_of_spiders_communities_present_in_native_forest_and_pine_plantations.

description: we present two data set about 259 species of spiders from the semideciduous Atlantic Forest of Argentina. The trait data set compiled information of morphological and ecological traits such as body size, femur length, ocular distance, foraging strategy, prey range, circadian activity and stratum preference.
DOI: 10.6084/m9.figshare.11877510
title: Supplementary Material for: Molecular Profile of Gastrointestinal Stromal Tumors in Sixty-Eight Patients from a Single Swiss Institution

description: <b><i>Introduction:</i></b> Gastrointestinal stromal tumor (GIST) is the most common mesenchymal neoplasm of the gastrointestinal tract. It has distinct molecular features and primarily affects the <i>KIT</i> and <i>PDGFRA</i> genes. <b><i>Objective:</i></b> We wanted to assess the molecular profile of 68 GIST patients who were sequenced consecutively between 2014 and 2019 at our institute of pathology. <b><i>Methods:</i></b> Our cohort comprised 60 primary and 8 metastatic GIST patients; 43 and 57% of the cases, respectively, were analyzed by Sanger sequencing or next-generation sequencing (NGS). <b><i>Results:</i></b> Of the 60 primary GIST patients, 47 (78%) showed a <i>KIT</i> mutation; 2 cases showed a double <i>KIT</i> mutation, and 1 of these was a therapy-naive GIST. Nine (15%) patients harbored a <i>PDGFRA</i> mutation, 2 (3%) had a <i>BRAF</i> mutation, 1 (2%) had a <i>PIK3CA</i> mutation, and 1 (2%) did not show any mutation. One <i>BRAF</i> and the <i>PIK3CA</i> mutation have not been described in GIST before. All metastatic GIST harbored exclusively <i>KIT</i> mutations. <b><i>Conclusion:</i></b> A retrospective analysis of GIST sequenced at our institute revealed incidences of <i>KIT</i> and <i>PDGFRA</i> mutations comparable to those in other cohorts from Europe. Interestingly, we found 2 previously undescribed mutations in the <i>BRAF</i> and <i>PIK3CA</i> genes as well as 1 treatment-naive case with a double <i>KIT</i> mutation in exon 11.
DOI: 10.6084/m9.figshare.11877510.v1
title: Supplementary Material for: Molecular Profile of Gastrointestinal Stromal Tumors in Sixty-Eight Patients from a Single Swiss Institution

description: <b><i>Introduction:</i></b> Gastrointestinal stromal tumor (GIST) is the most common mesenchymal neoplasm of the gastrointestinal tract. It has distinct molecular features and primarily affects the <i>KIT</i> and <i>PDGFRA</i> genes. <b><i>Objective:</i></b> We wanted to assess the molecular profile of 68 GIST patients who were sequenced consecutively between 2014 and 2019 at our institute of pathology. <b><i>Methods:</i></b> Our cohort comprised 60 primary and 8 metastatic GIST patients; 43 and 57% of the cases, respectively, were analyzed by Sanger sequencing or next-generation sequencing (NGS). <b><i>Results:</i></b> Of the 60 primary GIST patients, 47 (78%) showed a <i>KIT</i> mutation; 2 cases showed a double <i>KIT</i> mutation, and 1 of these was a therapy-naive GIST. Nine (15%) patients harbored a <i>PDGFRA</i> mutation, 2 (3%) had a <i>BRAF</i> mutation, 1 (2%) had a <i>PIK3CA</i> mutation, and 1 (2%) did not show any mutation. One <i>BRAF</i> and the <i>PIK3CA</i> mutation have not been described in GIST before. All metastatic GIST harbored exclusively <i>KIT</i> mutations. <b><i>Conclusion:</i></b> A retrospective analysis of GIST sequenced at our institute revealed incidences of <i>KIT</i> and <i>PDGFRA</i> mutations comparable to those in other cohorts from Europe. Interestingly, we found 2 previously undescribed mutations in the <i>BRAF</i> and <i>PIK3CA</i> genes as well as 1 treatment-naive case with a double <i>KIT</i> mutation in exon 11.
DOI: 10.6084/m9.figshare.11877456
title: Information of AQMSs adopted in the paper "Tropospheric ozone: a growing global threat and how to control it?"

description: This dataset contains the information of 2,935 air quality monitoring stations over the world, i.e. 783 in China, 10 in Japan, 3 in Korea, 639 in US, 1473 in Europe, 6 in Australia and 11 in Chile. Specifically, the site name, site code, city/state/country the sites locate, geographical coordinates, category of the sites and data sources, as well as the O3 trends and p values at the sites in specific study periods, are documented.
DOI: 10.6084/m9.figshare.11877411
title: Datasets and metadata supporting the published article: BCL9/STAT3 regulation of transcriptional enhancer networks promote DCIS progression

description: <b>Summary:</b>The datasets described here were gathered while investigating the molecular processes by which some human ductal carcinoma in situ (DCIS) lesions advance to the more aggressive form while others remain indolent.<br><b>Data access:</b>All RNA sequencing data have been deposited in the <i>Gene Expression Omnibus</i> with accession https://identifiers.org/geo:GSE143790 All Chip-Exo data have been deposited in the <i>Gene Expression Omnibus</i> with accession https://identifiers.org/geo:GSE143313 RPPA data is included together with this data record, in the file <b>Supplementary Figure 3-RPPA.xlsx</b>. The Raw RPPA and ANOVA tabs are the results, while the other tabs are IPA analysis performed by the authors. Permission to use figures and data generated using QIAGEN Ingenuity Pathway Analysis (IPA) is given in the file <b>QIAGEN Ingenuity Product Support Permission letter for Dr. Behbod.pdf</b>.The specific data underlying each figure and supplementary figure in the manuscript are provided as part of this data record, and are as follows:<b>Figure 1-BCL9-STAT3 interaction.xlsx</b><b>Figure 2-ChIP Exo.xlsx</b><b>Figure 3-ChIP.xlsx</b><b>Figure 4-MMP16 and avb3 MIND xenografts.xlsx</b><b>Figure 5-MMP16 avb3 TMA analysis.xlsx</b><b>Figure 6-Carnosic data.xlsx</b><b>Supplementary Figure 3-RPPA.xlsx</b><b>Supplementary Figure 4-STAT3 Reporter.xlsx</b><b>Supplementary Figure 5-ChIP Exo Motifs.xlsx</b><b>Supplementary Figure 6-integrin data.xlsx</b><b>Supplementary Figure 7-MMP data.xlsx</b><br><b>Study approval and patient consent: </b>Patients gave written informed consent for participation in the University of Kansas Medical Center Institutional Review Board–approved study allowing collection of additional biopsies and or surgical tissue for research. Animal experiments were conducted following protocols approved by the University of Kansas School of Medicine Animal Care and Use and Human Subjects Committee. <b><br></b><b>Study aims and methodology: </b>The aim of the related study was to determine the molecular processes underlying progression to invasion in DCIS using PDX DCIS MIND animal models. Using a novel intraductal model they identify downregulation of specific STAT3 targets to promote progression and use a purified component from rosemary extract to show that treatment <i>in vivo</i> decreases DCIS progression in patient derived DCIS and cell line models.<br>
DOI: 10.6084/m9.figshare.11877408
title: Reduced 10-year risk of developing cardiovascular disease after participating in a lifestyle programme in primary care

description: <b>Background:</b> Despite well-known preventive effects for future cardiovascular disease (CVD) risk through lifestyle changes, scientific evaluations of lifestyle programmes in primary care are scarce. Moreover, structured lifestyle counselling is still not integrated in everyday clinical practice. We aimed to evaluate change in cardiovascular risk factors and Framingham 10-year risk score of developing CVD in men and women at high cardiovascular risk after participation in a structured lifestyle programme over 1 year. A single-group study was carried out with a 1-year follow-up including before and after measurements. <b>Methods:</b> The lifestyle programme comprised five appointments to a district nurse over 1 year, focussing on lifestyle habits based on motivational interviewing. Fasting blood samples and anthropometric measurements were obtained at baseline and 1-year follow-up. The 10-year risk of CVD was calculated according to Framingham general CVD risk score. <b>Results:</b> A total of 404 patients were included in the study. There was a positive change over 1 year in the total study population for all risk factors evaluated. This included improvements in weight, waist circumference, blood pressure, blood lipids, and fasting glucose. The 10-year risk of developing CVD decreased for the total population from 24.8% to 21.4% at 1 year, equivalent to a 14% decrease. <b>Conclusions:</b> A structured lifestyle programme in primary care contributes to significant improvements of cardiovascular risk factors and the reduction of 10-year risk for CVD for both men and women at high cardiovascular risk.
DOI: 10.6084/m9.figshare.11877408.v1
title: Reduced 10-year risk of developing cardiovascular disease after participating in a lifestyle programme in primary care

description: <b>Background:</b> Despite well-known preventive effects for future cardiovascular disease (CVD) risk through lifestyle changes, scientific evaluations of lifestyle programmes in primary care are scarce. Moreover, structured lifestyle counselling is still not integrated in everyday clinical practice. We aimed to evaluate change in cardiovascular risk factors and Framingham 10-year risk score of developing CVD in men and women at high cardiovascular risk after participation in a structured lifestyle programme over 1 year. A single-group study was carried out with a 1-year follow-up including before and after measurements. <b>Methods:</b> The lifestyle programme comprised five appointments to a district nurse over 1 year, focussing on lifestyle habits based on motivational interviewing. Fasting blood samples and anthropometric measurements were obtained at baseline and 1-year follow-up. The 10-year risk of CVD was calculated according to Framingham general CVD risk score. <b>Results:</b> A total of 404 patients were included in the study. There was a positive change over 1 year in the total study population for all risk factors evaluated. This included improvements in weight, waist circumference, blood pressure, blood lipids, and fasting glucose. The 10-year risk of developing CVD decreased for the total population from 24.8% to 21.4% at 1 year, equivalent to a 14% decrease. <b>Conclusions:</b> A structured lifestyle programme in primary care contributes to significant improvements of cardiovascular risk factors and the reduction of 10-year risk for CVD for both men and women at high cardiovascular risk.