cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26584023
title: Additional file 3 of Genome-wide multi-trait analysis of irritable bowel syndrome and related mental conditions identifies 38 new independent variants

description: Additional file 3: Table S1. a Univariate and bivariate MiXeR output for IBS vs. neuroticism. Table S2. Results from association analyses of lead and secondary lead variants conditioned on the lead variant using COJO. For locus with more than two secondary variants, we further check independency of the secondary variants among each other. P-value of the secondary variants in MTAG-IBS and P-value after conditional analysis using COJO are given. The last column in the right indicates whether the secondary variant was considered as an independent signal. Table S3. Results in the original GWAS on IBS of the lead SNPs from MTAG-IBS. Table S4. Credible variants for each of the 37 independent loci or IBS identified in the cross-trait analysis using MTAG. Variants included herein were identified by all three fine-mapping methods (PAINTOR, CAVIARBF and FINEMAP). The prosterior probability of the variant being causal estimated by PAINTOR, CAVIARBF and FINEMAP is indicated in the last three columns. Chromosome (CHR), base position (BP), and SNP of the index variants. Effect alle (A1) and non-effect allele (A2) with respect to the beta (BETA). The standard error of the beta (SE) and the association P-value. Table S5. Functional annotation of the credible variants for each of the 42 lead variants identified in the cross-trait analysis of IBS using MTAG. Chromosome (CHR), SNP of the index variants, base position (BP), combined Annotation Dependent Depletion score (CADD), RegulomeDB score (RDB) and chromatin state (minChrState) are indicated. Table S6. GWAS Catalog results for MTAG-IBS credible set variants associated with other traits in previous GWAS. Table S7. Variants in credible sets mapped to genes associated with eQTLs. Table S8. Genes mapped to sets of crediable variants in FUMA. Table S9. Enrichment of genes mapped to variants in credible sets. Table S10. Results of the gene-based asociation analysis on MTAG-IBS using MAGMA. Only gene-wide signficant genes are shown. The p-value for gene-wide significance after Bonferroni correction was 0.05/18,135=2.757x10-6. Table S11. Results of the gene-set analysis on MTAG-IBS using MAGMA. Table S12. Enrichment analysis on druggable genes for MTAG-IBS genes using data from PharmaKG.Categories according to the Anatomical Therapeutic Chemical (ATC) classification system are provided. Table S13. Results of the partitioned heritability analysis using LDSC. Table S14. Genetic correlations between MTAG-IBS and 28 phenotypes inlcuding digestive, immnological and psychiatric disorders from MR-Base. Table S15. a CAUSE model comparison.
DOI: 10.15468/dl.kgnj98
title: Occurrence Download

description: A dataset containing 68 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "OccurrenceStatus is Present",
 "TaxonKey is Balaenoptera musculus (Linnaeus, 1758)"
 ]
}

 The dataset includes 68 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068945-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f8cnsw
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.16738 -33.485395, 148.16738 -33.487641, 148.169626 -33.487641, 148.169626 -33.485395, 148.16738 -33.485395))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068946-240626123714530/datasets/export for details.
DOI: 10.15468/dl.4pkt9n
title: Occurrence Download

description: A dataset containing 496 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Cariniana rubra Gardner ex Miers, Cariniana carajarum Toledo, Couratari rubra Gardner ex Miers)"
 ]
}

 The dataset includes 496 records from 93 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068947-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yew4u3
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON (((148.36501 -33.485395, 148.36501 -33.492132, 148.367256 -33.492132, 148.367256 -33.487641, 148.369502 -33.487641, 148.369502 -33.485395, 148.36501 -33.485395)), ((148.369502 -33.487641, 148.369502 -33.492132, 148.376239 -33.492132, 148.376239 -33.487641, 148.380731 -33.487641, 148.380731 -33.485395, 148.373993 -33.485395, 148.373993 -33.487641, 148.369502 -33.487641)))"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068948-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6xubfm
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.607556 -33.485395, 148.607556 -33.487641, 148.612048 -33.487641, 148.612048 -33.485395, 148.607556 -33.485395))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068949-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.26584086.v1
title: Additional file 2 of Panax quinquefolius saponin inhibits vascular smooth muscle cell calcification via activation of nuclear factor-erythroid 2-related factor 2

description: Additional file 2.
DOI: 10.15468/dl.ms4dvd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((149.633887 -33.485395, 149.633887 -33.487641, 149.638378 -33.487641, 149.638378 -33.485395, 149.633887 -33.485395))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068950-240626123714530/datasets/export for details.
DOI: 10.15468/dl.nzmkk9
title: Occurrence Download

description: A dataset containing 302 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Colombia",
 "OccurrenceStatus is Present",
 "PublishingOrg is 14fb9c57-68a5-4870-b434-5355df7a9c3c",
 "TaxonKey is Cerdocyon thous (Linnaeus, 1766)"
 ]
}

 The dataset includes 302 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068952-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rgmhkm
title: Occurrence Download

description: A dataset containing 398 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Colombia",
 "OccurrenceStatus is Present",
 "PublishingOrg is one of (eace4687-50e8-4f9a-829b-29ff8ff1fa8b, eac88d99-9f6c-4031-8fc4-8088f0e0dfe7, bc092ff0-02e4-11dc-991f-b8a03c50a862, cccff716-2694-4209-9f9e-2f7a484465a0, 2a7e3080-28a9-11dd-97cd-b8a03c50a862)",
 "TaxonKey is one of (Clusia alata Planch. & Triana, Meriania nobilis Triana)"
 ]
}

 The dataset includes 398 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068953-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ek8w6u
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON (((147.280289 -33.485395, 147.280289 -33.492132, 147.284781 -33.492132, 147.284781 -33.494378, 147.287027 -33.494378, 147.287027 -33.487641, 147.284781 -33.487641, 147.284781 -33.485395, 147.280289 -33.485395)), ((147.280289 -33.485395, 147.280289 -33.478658, 147.278043 -33.478658, 147.278043 -33.485395, 147.280289 -33.485395)), ((147.284781 -33.485395, 147.291518 -33.485395, 147.291518 -33.474166, 147.293764 -33.474166, 147.293764 -33.465183, 147.29601 -33.465183, 147.29601 -33.458445, 147.287027 -33.458445, 147.287027 -33.478658, 147.284781 -33.478658, 147.284781 -33.485395)), ((147.284781 -33.478658, 147.284781 -33.474166, 147.280289 -33.474166, 147.280289 -33.478658, 147.284781 -33.478658)))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068955-240626123714530/datasets/export for details.
DOI: 10.5281/zenodo.12788764
title: Accelerating Whole-Sample Polarization-Resolved Second Harmonic Generation imaging in Mammary Gland Tissue via Generative Adversarial Networks

description: Authors:

Arash Aghigh, Jysiane Cardot, Melika Saadat Mohammadi, Gaëtan Jargot, Heide Ibrahim, Isabelle Plante, François Légaré

Affiliations:

    1.    Centre Énergie Matériaux Télécommunications, Institut National de la Recherche Scientifique, Varennes, Québec, Canada.    2.    Centre Armand-Frappier Santé Biotechnologie, Institut National de la Recherche Scientifique, Laval, Québec, Canada.

Corresponding Author:

Arash Aghigh, arash.aghigh@inrs.ca

Description:

This dataset accompanies the research on improving whole-sample Polarization-Resolved Second Harmonic Generation (P-SHG) imaging in mammary gland tissue using Enhanced Super-Resolution Generative Adversarial Networks (ESRGAN). The novel approach significantly reduces imaging time while maintaining high image quality and analytical accuracy, demonstrating a reduction in imaging time by more than 95%. This method also minimizes laser-induced photodamage, lowers costs of optical components, and increases the accessibility and applicability of P-SHG imaging in various fields.

Keywords:

Polarization-Resolved Second Harmonic Generation, P-SHG, Generative Adversarial Networks, GAN, ESRGAN, Mammary Gland Imaging, Super-Resolution, Image Upscaling, Deep Learning, Biomedical Imaging

Funding Information:

    •    Canada Foundation for Innovation    •    Fonds de recherche du Québec–Nature et technologies    •    Natural Sciences and Engineering Research Council of Canada    •    New Frontiers Research Fund    •    NSERC CREATE program (scholarship for Arash Aghigh)

Related Identifiers:

    •    GitHub repository for ChaiNNer program: https://github.com/chaiNNer-org/chaiNNer    •    Download links for models used: https://openmodeldb.info

Additional Information:

Animal studies were conducted according to the procedures provided by the Canadian Council on Animal Care. The protocol (2005-02) was reviewed and approved by the Institutional Committee for Animal Protection of the Laboratoire National de Biologie Expérimentale (LNBE), the animal facilities based at the Institut National de Recherche Scientifique (INRS).
DOI: 10.5281/zenodo.12788763
title: Accelerating Whole-Sample Polarization-Resolved Second Harmonic Generation imaging in Mammary Gland Tissue via Generative Adversarial Networks

description: Authors:

Arash Aghigh, Jysiane Cardot, Melika Saadat Mohammadi, Gaëtan Jargot, Heide Ibrahim, Isabelle Plante, François Légaré

Affiliations:

    1.    Centre Énergie Matériaux Télécommunications, Institut National de la Recherche Scientifique, Varennes, Québec, Canada.    2.    Centre Armand-Frappier Santé Biotechnologie, Institut National de la Recherche Scientifique, Laval, Québec, Canada.

Corresponding Author:

Arash Aghigh, arash.aghigh@inrs.ca

Description:

This dataset accompanies the research on improving whole-sample Polarization-Resolved Second Harmonic Generation (P-SHG) imaging in mammary gland tissue using Enhanced Super-Resolution Generative Adversarial Networks (ESRGAN). The novel approach significantly reduces imaging time while maintaining high image quality and analytical accuracy, demonstrating a reduction in imaging time by more than 95%. This method also minimizes laser-induced photodamage, lowers costs of optical components, and increases the accessibility and applicability of P-SHG imaging in various fields.

Keywords:

Polarization-Resolved Second Harmonic Generation, P-SHG, Generative Adversarial Networks, GAN, ESRGAN, Mammary Gland Imaging, Super-Resolution, Image Upscaling, Deep Learning, Biomedical Imaging

Funding Information:

    •    Canada Foundation for Innovation    •    Fonds de recherche du Québec–Nature et technologies    •    Natural Sciences and Engineering Research Council of Canada    •    New Frontiers Research Fund    •    NSERC CREATE program (scholarship for Arash Aghigh)

Related Identifiers:

    •    GitHub repository for ChaiNNer program: https://github.com/chaiNNer-org/chaiNNer    •    Download links for models used: https://openmodeldb.info

Additional Information:

Animal studies were conducted according to the procedures provided by the Canadian Council on Animal Care. The protocol (2005-02) was reviewed and approved by the Institutional Committee for Animal Protection of the Laboratoire National de Biologie Expérimentale (LNBE), the animal facilities based at the Institut National de Recherche Scientifique (INRS).
DOI: 10.6084/m9.figshare.26584203
title: Additional file 2 of Admission criteria and academic performance in medical school

description: Additional file 2: Supplementary Table 2. Characteristics of students accepted in the academic year 2013-2014.
DOI: 10.6084/m9.figshare.26584203.v1
title: Additional file 2 of Admission criteria and academic performance in medical school

description: Additional file 2: Supplementary Table 2. Characteristics of students accepted in the academic year 2013-2014.
DOI: 10.15468/dl.mzv9dd
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "TaxonKey is Saguinus fuscicollis (Spix, 1823)"
 ]
}

 The dataset includes 27 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068956-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hzgt27
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON (((148.614294 -33.496624, 148.614294 -33.501116, 148.618785 -33.501116, 148.618785 -33.496624, 148.614294 -33.496624)), ((148.614294 -33.496624, 148.614294 -33.494378, 148.621031 -33.494378, 148.621031 -33.492132, 148.618785 -33.492132, 148.618785 -33.480903, 148.61654 -33.480903, 148.61654 -33.483149, 148.614294 -33.483149, 148.614294 -33.492132, 148.612048 -33.492132, 148.612048 -33.496624, 148.614294 -33.496624)))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068957-240626123714530/datasets/export for details.
DOI: 10.15468/dl.zkkv38
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is South America",
 "Country is Colombia",
 "OccurrenceStatus is Present",
 "PublishingOrg is one of (30ff48bd-4dd1-429d-a5a5-348c8e5fbfb1, eace4687-50e8-4f9a-829b-29ff8ff1fa8b, 77c64839-4c99-4a40-beb3-cd16afc23540, cccff716-2694-4209-9f9e-2f7a484465a0)",
 "TaxonKey is Aleyrodidae"
 ]
}

 The dataset includes 38 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068958-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26634564
title: Additional file 1 of Angelica acutiloba Kitagawa flower induces A549 cell pyroptosis via the NF-κB/NLRP3 pathway for anti-lung cancer effects

description: Additional file 1: Table 1. Methods of primary antibody and secondary antibody dilution.
DOI: 10.6084/m9.figshare.26634564.v1
title: Additional file 1 of Angelica acutiloba Kitagawa flower induces A549 cell pyroptosis via the NF-κB/NLRP3 pathway for anti-lung cancer effects

description: Additional file 1: Table 1. Methods of primary antibody and secondary antibody dilution.
DOI: 10.15468/dl.yb8329
title: Occurrence Download

description: A dataset containing 147 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "OccurrenceStatus is Present",
 "TaxonKey is Micrurus laticollaris Peters, 1870"
 ]
}

 The dataset includes 147 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068959-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hwzmrk
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON (((147.309485 -33.507853, 147.31173 -33.507853, 147.31173 -33.492132, 147.316222 -33.492132, 147.316222 -33.485395, 147.309485 -33.485395, 147.309485 -33.507853)), ((147.309485 -33.507853, 147.307239 -33.507853, 147.307239 -33.510099, 147.309485 -33.510099, 147.309485 -33.507853)))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068960-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.26634576
title: Additional file 4 of How effective are interventions to reduce damage to agricultural crops from herbivorous wild birds and mammals? A systematic review protocol

description: Additional file 4.  Data extraction sheet.
DOI: 10.15468/dl.uptwzx
title: Occurrence Download

description: A dataset containing 605704 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-180 0, -40 0, -40 80, -180 80, -180 0))",
 "Year 1970-2024",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Numenius phaeopus (Linnaeus, 1758)"
 ]
}

 The dataset includes 605704 records from 114 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068943-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26584095.v1
title: Additional file 5 of Panax quinquefolius saponin inhibits vascular smooth muscle cell calcification via activation of nuclear factor-erythroid 2-related factor 2

description: Additional file 5.
DOI: 10.6084/m9.figshare.26584083
title: Additional file 1 of Panax quinquefolius saponin inhibits vascular smooth muscle cell calcification via activation of nuclear factor-erythroid 2-related factor 2

description: Additional file 1.
DOI: 10.6084/m9.figshare.26584092.v1
title: Additional file 4 of Panax quinquefolius saponin inhibits vascular smooth muscle cell calcification via activation of nuclear factor-erythroid 2-related factor 2

description: Additional file 4.
DOI: 10.6084/m9.figshare.26584092
title: Additional file 4 of Panax quinquefolius saponin inhibits vascular smooth muscle cell calcification via activation of nuclear factor-erythroid 2-related factor 2

description: Additional file 4.
DOI: 10.6084/m9.figshare.26584023.v1
title: Additional file 3 of Genome-wide multi-trait analysis of irritable bowel syndrome and related mental conditions identifies 38 new independent variants

description: Additional file 3: Table S1. a Univariate and bivariate MiXeR output for IBS vs. neuroticism. Table S2. Results from association analyses of lead and secondary lead variants conditioned on the lead variant using COJO. For locus with more than two secondary variants, we further check independency of the secondary variants among each other. P-value of the secondary variants in MTAG-IBS and P-value after conditional analysis using COJO are given. The last column in the right indicates whether the secondary variant was considered as an independent signal. Table S3. Results in the original GWAS on IBS of the lead SNPs from MTAG-IBS. Table S4. Credible variants for each of the 37 independent loci or IBS identified in the cross-trait analysis using MTAG. Variants included herein were identified by all three fine-mapping methods (PAINTOR, CAVIARBF and FINEMAP). The prosterior probability of the variant being causal estimated by PAINTOR, CAVIARBF and FINEMAP is indicated in the last three columns. Chromosome (CHR), base position (BP), and SNP of the index variants. Effect alle (A1) and non-effect allele (A2) with respect to the beta (BETA). The standard error of the beta (SE) and the association P-value. Table S5. Functional annotation of the credible variants for each of the 42 lead variants identified in the cross-trait analysis of IBS using MTAG. Chromosome (CHR), SNP of the index variants, base position (BP), combined Annotation Dependent Depletion score (CADD), RegulomeDB score (RDB) and chromatin state (minChrState) are indicated. Table S6. GWAS Catalog results for MTAG-IBS credible set variants associated with other traits in previous GWAS. Table S7. Variants in credible sets mapped to genes associated with eQTLs. Table S8. Genes mapped to sets of crediable variants in FUMA. Table S9. Enrichment of genes mapped to variants in credible sets. Table S10. Results of the gene-based asociation analysis on MTAG-IBS using MAGMA. Only gene-wide signficant genes are shown. The p-value for gene-wide significance after Bonferroni correction was 0.05/18,135=2.757x10-6. Table S11. Results of the gene-set analysis on MTAG-IBS using MAGMA. Table S12. Enrichment analysis on druggable genes for MTAG-IBS genes using data from PharmaKG.Categories according to the Anatomical Therapeutic Chemical (ATC) classification system are provided. Table S13. Results of the partitioned heritability analysis using LDSC. Table S14. Genetic correlations between MTAG-IBS and 28 phenotypes inlcuding digestive, immnological and psychiatric disorders from MR-Base. Table S15. a CAUSE model comparison.
DOI: 10.6084/m9.figshare.26584086
title: Additional file 2 of Panax quinquefolius saponin inhibits vascular smooth muscle cell calcification via activation of nuclear factor-erythroid 2-related factor 2

description: Additional file 2.
DOI: 10.15468/dl.mwsuqq
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tetraophasis szechenyii",
 "Country is one of (Brunei Darussalam, Indonesia, Philippines, Timor-Leste, Singapore)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032691-250920141307145/datasets/export for details.
DOI: 10.15468/dl.rpnc7f
title: Occurrence Download

description: A dataset containing 137 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paspalum fimbriatum",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 137 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032693-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x9h46p
title: Occurrence Download

description: A dataset containing 6750 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "TaxonKey is Moringa oleifera"
 ]
}

 The dataset includes 6750 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032694-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.