cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5522/04/22128671
title: OCT5k: A dataset of multi-disease and multi-graded annotations for retinal layers

description: The thickness and appearance of retinal layers are essential markers for diagnosing and studying eye diseases. Despite the increasing availability of imaging devices to scan and store large amounts of data, analyzing retinal images and generating trial endpoints has remained a manual, error-prone, and time-consuming task. In particular, the lack of large amounts of high-quality labels for different diseases hinders the development of automated algorithms. Therefore, we have compiled 5016 pixel-wise manual labels for 1672 optical coherence tomography (OCT) scans featuring two different diseases as well as healthy subjects to help democratize the process of developing novel automatic techniques. We also collected 4698 bounding box annotations for a subset of 566 scans across 9 classes of disease biomarker. Due to variations in retinal morphology, intensity range, and changes in contrast and brightness, designing segmentation and detection methods that can generalize to different disease types is challenging. While machine learning-based methods can overcome these challenges, high-quality expert annotations are necessary for training. Publicly available annotated image datasets typically contain few images and/or only cover a single type of disease, and most are only annotated by a single grader. To address this gap, we present a comprehensive multi-grader and multi-disease dataset fortraining machine learning-based algorithms. The proposed dataset covers three subsets of scans (Age-related Macular Degeneration, Diabetic Macular Edema, and healthy) and annotations for two types of tasks (semantic segmentation and object detection).
DOI: 10.5522/04/22128671.v3
title: OCT5k: A dataset of multi-disease and multi-graded annotations for retinal layers

description: The thickness and appearance of retinal layers are essential markers for diagnosing and studying eye diseases. Despite the increasing availability of imaging devices to scan and store large amounts of data, analyzing retinal images and generating trial endpoints has remained a manual, error-prone, and time-consuming task. In particular, the lack of large amounts of high-quality labels for different diseases hinders the development of automated algorithms. Therefore, we have compiled 5016 pixel-wise manual labels for 1672 optical coherence tomography (OCT) scans featuring two different diseases as well as healthy subjects to help democratize the process of developing novel automatic techniques. We also collected 4698 bounding box annotations for a subset of 566 scans across 9 classes of disease biomarker. Due to variations in retinal morphology, intensity range, and changes in contrast and brightness, designing segmentation and detection methods that can generalize to different disease types is challenging. While machine learning-based methods can overcome these challenges, high-quality expert annotations are necessary for training. Publicly available annotated image datasets typically contain few images and/or only cover a single type of disease, and most are only annotated by a single grader. To address this gap, we present a comprehensive multi-grader and multi-disease dataset fortraining machine learning-based algorithms. The proposed dataset covers three subsets of scans (Age-related Macular Degeneration, Diabetic Macular Edema, and healthy) and annotations for two types of tasks (semantic segmentation and object detection).
DOI: 10.15468/dl.nm55y8
title: Occurrence Download

description: A dataset containing 1000 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Living Specimen, Occurrence evidence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Diabrotica virgifera LeConte, 1868, Diabrotica virgifera virgifera, Diabrotica virgifera zeae Krysan & R.Smith, 1980)"
 ]
}

 The dataset includes 1000 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002140-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6yq2sm
title: Occurrence Download

description: A dataset containing 146 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((119.3006 35.93357, 119.4911 35.93357, 119.4911 36.08258, 119.3006 36.08258, 119.3006 35.93357))",
 "Year is greater than or equal to 2013",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 146 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002141-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.652akz
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is SANT Herbarium vascular plants collection",
 "Country is Croatia"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002142-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57967/hf/3466
title: Climate_and_Health
DOI: 10.6084/m9.figshare.27627393
title: 测序结果.zip

description: eEF2K knockout cell
DOI: 10.6084/m9.figshare.27627393.v1
title: 测序结果.zip

description: eEF2K knockout cell
DOI: 10.15468/dl.77myvx
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Tasmanian Herbarium (HO) AVH data",
 "Country is Croatia"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002144-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6khxmy
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Spider Mites Collection of Jean Gutierrez",
 "Country is Croatia"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002143-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.juhujr
title: Occurrence Download

description: A dataset containing 101 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((112.8769 27.79764, 113.0018 27.79764, 113.0018 27.90783, 112.8769 27.90783, 112.8769 27.79764))",
 "Year is greater than or equal to 2013",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 101 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002145-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7ny3ya
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is The Fungal Collection of Helga Große-Brauckmann at the Botanische Staatssammlung München",
 "Country is Croatia"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002146-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p8zm5r
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is The University and Jepson Herbaria -- Bryophytes",
 "Country is Croatia"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002147-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pgn2gs
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is The Vascular Plants Collection of the University of Goettingen",
 "Country is Croatia"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002148-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kx4p67
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((119.6826 36.31069, 119.8473 36.31069, 119.8473 36.45998, 119.6826 36.45998, 119.6826 36.31069))",
 "Year is greater than or equal to 2013",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002149-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d4k59x
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is UCBG TAPIR Provider",
 "Country is Croatia"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002150-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6k8q4w
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is University of British Columbia Herbarium (UBC) - Algae Collection",
 "Country is Croatia"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002151-241106120511685/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.26968165.v3
title: origin_datas.zip

description: <b><i>Background</i></b><b>: </b>Colorectal cancer (CRC) is a popular malignancy with highly incidence in developed countries. In this study, we aimed to explore the N6-methyladenosine (m6A) regulators-related prognosis signatures in CRC progression.<b><i>Method</i></b>: The bulk RNA-seq data of AC-ICAM and GSE33113 database of CRC were obtained from the cBioportal and GEO database, and 21 m6A regulators genes was used for this study. The Seurat and harmony R package were used for the scRNA-seq analysis of GSE146771 cohort. The ConsensusClusterPlus package performed the consensus clustering based on the m6A regulators expression. The ggGSEA package was used for the Gene Set Enrichment Analysis (GSEA). The un/multivariate and lasso Cox analysis was performed by the “survival” and “glmnet” for risk model construction. The pRRophetic and GSVA package was used for the potential drugs and immune infiltration analysis, and the KM survival and ROC analysis was performed through the “survival” and “timeROC” package. The vitro assay including the qPCR, wound healing and trans-well were formed.<b><i>Results</i></b>: The patients in the AC-ICAM cohort were divided into three molecular subtypes (S1, 2 and 3) based on 9 m6A regulators prognostic genes, the S3 had the significantly good outcome, while the S1 was the poorest prognosis and associated with the activation of NF-kB, TNF-α and Hypoxia pathways. Subsequently, we determined 3 key genes for the RiskScore from the above 9 m6A regulators genes, the RiskScore system with good classification effectiveness divided the patients into high and low risk groups, in which the former had more types of immune cell infiltration that supported multiple immune response activation and exhibited significantly poor prognosis, the <i>METTL3</i> is a key risk factor for migration and invasion of CRC. Meanwhile, a nomogram with highly clinical practical value was developed based in the RiskScore and other clinical features. Finally, 8 potential drugs associated with the RiskScore were identified and CD4+ cells and the Tregs were associated with the cancer progression.<b><i>Conclusion</i></b>: We identified the m6A regulators-signature as a reliable prognostic phenotype and developed a useful m6A regulators-related RiskScore for the prognosis of CRC patients.
DOI: 10.6084/m9.figshare.26968165
title: origin_datas.zip

description: <b><i>Background</i></b><b>: </b>Colorectal cancer (CRC) is a popular malignancy with highly incidence in developed countries. In this study, we aimed to explore the N6-methyladenosine (m6A) regulators-related prognosis signatures in CRC progression.<b><i>Method</i></b>: The bulk RNA-seq data of AC-ICAM and GSE33113 database of CRC were obtained from the cBioportal and GEO database, and 21 m6A regulators genes was used for this study. The Seurat and harmony R package were used for the scRNA-seq analysis of GSE146771 cohort. The ConsensusClusterPlus package performed the consensus clustering based on the m6A regulators expression. The ggGSEA package was used for the Gene Set Enrichment Analysis (GSEA). The un/multivariate and lasso Cox analysis was performed by the “survival” and “glmnet” for risk model construction. The pRRophetic and GSVA package was used for the potential drugs and immune infiltration analysis, and the KM survival and ROC analysis was performed through the “survival” and “timeROC” package. The vitro assay including the qPCR, wound healing and trans-well were formed.<b><i>Results</i></b>: The patients in the AC-ICAM cohort were divided into three molecular subtypes (S1, 2 and 3) based on 9 m6A regulators prognostic genes, the S3 had the significantly good outcome, while the S1 was the poorest prognosis and associated with the activation of NF-kB, TNF-α and Hypoxia pathways. Subsequently, we determined 3 key genes for the RiskScore from the above 9 m6A regulators genes, the RiskScore system with good classification effectiveness divided the patients into high and low risk groups, in which the former had more types of immune cell infiltration that supported multiple immune response activation and exhibited significantly poor prognosis, the <i>METTL3</i> is a key risk factor for migration and invasion of CRC. Meanwhile, a nomogram with highly clinical practical value was developed based in the RiskScore and other clinical features. Finally, 8 potential drugs associated with the RiskScore were identified and CD4+ cells and the Tregs were associated with the cancer progression.<b><i>Conclusion</i></b>: We identified the m6A regulators-signature as a reliable prognostic phenotype and developed a useful m6A regulators-related RiskScore for the prognosis of CRC patients.
DOI: 10.6084/m9.figshare.26968165.v2
title: origin_datas.zip

description: <b><i>Background</i></b><b>: </b>Colorectal cancer (CRC) is a popular malignancy with highly incidence in developed countries. In this study, we aimed to explore the N6-methyladenosine (m6A) regulators-related prognosis signatures in CRC progression.<b><i>Method</i></b>: The bulk RNA-seq data of AC-ICAM and GSE33113 database of CRC were obtained from the cBioportal and GEO database, and 21 m6A regulators genes was used for this study. The Seurat and harmony R package were used for the scRNA-seq analysis of GSE146771 cohort. The ConsensusClusterPlus package performed the consensus clustering based on the m6A regulators expression. The ggGSEA package was used for the Gene Set Enrichment Analysis (GSEA). The un/multivariate and lasso Cox analysis was performed by the “survival” and “glmnet” for risk model construction. The pRRophetic and GSVA package was used for the potential drugs and immune infiltration analysis, and the KM survival and ROC analysis was performed through the “survival” and “timeROC” package. The vitro assay including the qPCR, wound healing and trans-well were formed.<b><i>Results</i></b>: The patients in the AC-ICAM cohort were divided into three molecular subtypes (S1, 2 and 3) based on 9 m6A regulators prognostic genes, the S3 had the significantly good outcome, while the S1 was the poorest prognosis and associated with the activation of NF-kB, TNF-α and Hypoxia pathways. Subsequently, we determined 3 key genes for the RiskScore from the above 9 m6A regulators genes, the RiskScore system with good classification effectiveness divided the patients into high and low risk groups, in which the former had more types of immune cell infiltration that supported multiple immune response activation and exhibited significantly poor prognosis, the <i>METTL3</i> is a key risk factor for migration and invasion of CRC. Meanwhile, a nomogram with highly clinical practical value was developed based in the RiskScore and other clinical features. Finally, 8 potential drugs associated with the RiskScore were identified and CD4+ cells and the Tregs were associated with the cancer progression.<b><i>Conclusion</i></b>: We identified the m6A regulators-signature as a reliable prognostic phenotype and developed a useful m6A regulators-related RiskScore for the prognosis of CRC patients.
DOI: 10.15468/dl.efsdcq
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is University of Nebraska State Museum, C.E. Bessey Herbarium - Fungi",
 "Country is Croatia"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002152-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9sm6dx
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((117.8427 34.25776, 118.0529 34.25776, 118.0529 34.40562, 117.8427 34.40562, 117.8427 34.25776))",
 "Year is greater than or equal to 2013",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002153-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7h22fa
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is WRSL-F Mycological Collection",
 "Country is Croatia"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002154-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.up7kz9
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is ZMH Annelida collection",
 "Country is Croatia"
 ]
}

 The dataset includes 10 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002155-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5p5hbp
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((106.0103 11.23716, 106.1674 11.23716, 106.1674 11.35123, 106.0103 11.35123, 106.0103 11.23716))",
 "Year is greater than or equal to 2013",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002158-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nm55qk
title: Occurrence Download

description: A dataset containing 124 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "Geometry POLYGON((78.32228 32.66603,78.8373 31.30011,81.14369 30.00137,81.70349 30.42682,83.89792 29.01612,86.2267 27.82934,88.04046 27.80694,88.73461 28.16522,88.86897 27.17996,89.67508 28.25479,91.53363 27.9413,91.8919 27.67259,92.13822 26.88887,97.35558 28.27718,97.60189 28.54588,98.29605 27.67259,98.74389 27.42628,98.67672 25.81405,100.60112 25.61635,102.18411 26.95787,103.06951 29.58724,103.7671 30.8751,103.82076 32.45809,103.47197 36.02653,102.66706 37.79733,98.85715 39.54131,95.95947 39.54131,94.51063 39.64863,89.11772 38.92421,87.58839 38.97787,85.52246 38.57541,80.47835 37.55586,77.74165 36.268,78.09045 35.35577,78.60022 34.09474,79.61978 32.94104,78.32228 32.66603))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Perissodactyla"
 ]
}

 The dataset includes 124 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002157-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dywq4b
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is pins",
 "Country is Croatia"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002159-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2hk7wp
title: Occurrence Download

description: A dataset containing 126 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((114.7853 30.31753, 114.9606 30.31753, 114.9606 30.50577, 114.7853 30.50577, 114.7853 30.31753))",
 "Year is greater than or equal to 2013",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 126 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002160-241106120511685/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.