cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.sskr2v
title: Occurrence Download

description: A dataset containing 676898 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((2.479608666666667 32.097476, 2.479608666666667 49.184106666666665, -31.565747 49.184106666666665, -31.565747 32.097476, 2.479608666666667 32.097476))",
 "EventDate is 2020-04-01,2020-04-30"
 ]
}

 The dataset includes 676898 records from 662 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031944-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gfxfkb
title: Occurrence Download

description: A dataset listing the 5726 species recorded in GBIF matching the query:
{
 "Country" : [
 "is Grenada"
 ]
}

 The dataset's 5726 records were derived from 350 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017944-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10925575
title: ATAC-seq dataset: Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors

description: The dataset encompasses raw sequencing reads, identified peaks, and regions of differential accessibility derived from ATAC-seq experiments conducted under various immune activation conditions. For additional technical details regarding data collection, please refer to the published source at https://doi.org/10.1093/jxb/erab373.
DOI: 10.5281/zenodo.10972420
title: Bogoliubov Excitations Driven by Thermal Lattice Phonons in a Quantum Fluid of Light

description: This dataset corresponds to the all experimental data plotted in the article"Bogoliubov Excitations Driven by Thermal Lattice Phonons in a Quantum Fluid of Light", Irénée Frérot, Amit Vashisht, Martina Morassi, Aristide Lemaître, Sylvain Ravets, Jacqueline Bloch, Anna Minguzzi, and Maxime Richard, Phys. Rev. X 13, 041058, Published 26 December 2023.

the data are provided as '.mat' Matlab data file. Each file is named according the figure and panel it referes to. For instance 'Fnj.mat' referes to the experimental data plotted in the panel j of Fig.n. The extension 'SI' refers to Figures in the supplemental information of the article.

The files are structured into self explanatory fields: Fnj.x is the x axis data vector, and Fnj.dy are the error bars of the corresponding data points Fnj.y. Reasonable requests for additional explanations can be addressed to the article corresponding author.
DOI: 10.15468/dl.dhpsvg
title: Occurrence Download

description: A dataset containing 176 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Larval fish at time series station Helgoland Roads, North Sea, in 2003"
 ]
}

 The dataset includes 176 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004436-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10972771
title: Dataset from Castel et al. 'Genetic sex determination in three closely related hydrothermal vent gastropods, including one species with intersex individuals'

description: This is the dataset used in "Genetic sex determination in three closely related hydrothermal vent gastropods, including one species with intersex individuals"Castel J, Pradillon F, Cueff V, Leger G, Daguin-Thiébaut C, Ruault S, Mary J, Hourdez S, Jollivet D, and Broquet T
description: See description in Readme file
DOI: 10.15468/dl.bq4fe4
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Richterago lanata Roque"
 ]
}

 The dataset includes 27 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039165-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pcnq54
title: Occurrence Download

description: A dataset containing 406902 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Eukaryotic diversity in Central Park"
 ]
}

 The dataset includes 406902 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066189-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10972419
title: Bogoliubov Excitations Driven by Thermal Lattice Phonons in a Quantum Fluid of Light

description: This dataset corresponds to the all experimental data plotted in the article"Bogoliubov Excitations Driven by Thermal Lattice Phonons in a Quantum Fluid of Light", Irénée Frérot, Amit Vashisht, Martina Morassi, Aristide Lemaître, Sylvain Ravets, Jacqueline Bloch, Anna Minguzzi, and Maxime Richard, Phys. Rev. X 13, 041058, Published 26 December 2023.

the data are provided as '.mat' Matlab data file. Each file is named according the figure and panel it referes to. For instance 'Fnj.mat' referes to the experimental data plotted in the panel j of Fig.n. The extension 'SI' refers to Figures in the supplemental information of the article.

The files are structured into self explanatory fields: Fnj.x is the x axis data vector, and Fnj.dy are the error bars of the corresponding data points Fnj.y. Reasonable requests for additional explanations can be addressed to the article corresponding author.
DOI: 10.5281/zenodo.10867350
title: ATAC-seq dataset: Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors

description: The dataset encompasses raw sequencing reads, identified peaks, and regions of differential accessibility derived from ATAC-seq experiments conducted under various immune activation conditions. For additional technical details regarding data collection, please refer to the published source at https://doi.org/10.1093/jxb/erab373.
DOI: 10.15468/dl.7fhipa
title: Occurrence Download

description: A dataset containing 8414 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is CASES2003_2004"
 ]
}

 The dataset includes 8414 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004436-170714134226665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10370472
title: OCTDL: Optical Coherence Tomography Dataset for Image-Based Deep Learning Methods

description: Optical coherence tomography (OCT) is a non-invasive imaging technique that has extensive clinical applications in ophthalmology. OCT enables the visualization of the retinal layers, playing a vital role in the early detection and monitoring of retinal diseases. OCT uses the principle of light wave interference to create detailed images of the retinal microstructures, making it a valuable tool for diagnosing ocular conditions. Optical Coherence Tomography Dataset for Image-Based Deep Learning Methods (OCTDL) comprising over 2000 OCT images labeled according to disease group and retinal pathology.

The dataset consists of the following categories and images:- Age-Related Macular Degeneration - 1231 images;- Diabetic Macular Edema - 147 images;- Epiretinal Membrane- 155 images;- Normal - 332 images;- Retinal Artery Occlusion - 22 images;- Retinal Vein Occlusion - 101 images;- Vitreomacular Interface Disease - 76 images.

This dataset is published to provide researchers and developers with access to a large set of labeled images, which contributes to the development and improvement of algorithms for the automatic processing and analysis of OCT images for early diagnosis and monitoring of eye diseases. CSV file consists of file_name, disease, subcategory, condition, patient_id, eye, sex, year, image_width, and image_height. The dataset will be updated periodically.

 

For more information and details about the dataset see:

https://rdcu.be/dELrE

https://arxiv.org/abs/2312.08255

@article{kulyabin2024octdl,
  title={OCTDL: Optical Coherence Tomography Dataset for Image-Based Deep Learning Methods},
  author={Kulyabin, Mikhail and Zhdanov, Aleksei and Nikiforova, Anastasia and Stepichev, Andrey           and Kuznetsova, Anna and Ronkin, Mikhail and Borisov, Vasilii and Bogachev, Alexander           and Korotkich, Sergey and Constable, Paul A and Maier, Andreas},
  journal={Scientific Data},
  volume={11},
  number={1},
  pages={365},
  year={2024},
  publisher={Nature Publishing Group UK London},  doi={https://doi.org/10.1038/s41597-024-03182-7}
}
DOI: 10.5281/zenodo.10839556
title: OCTDL: Optical Coherence Tomography Dataset for Image-Based Deep Learning Methods

description: Optical coherence tomography (OCT) is a non-invasive imaging technique that has extensive clinical applications in ophthalmology. OCT enables the visualization of the retinal layers, playing a vital role in the early detection and monitoring of retinal diseases. OCT uses the principle of light wave interference to create detailed images of the retinal microstructures, making it a valuable tool for diagnosing ocular conditions. Optical Coherence Tomography Dataset for Image-Based Deep Learning Methods (OCTDL) comprising over 2000 OCT images labeled according to disease group and retinal pathology.

The dataset consists of the following categories and images:- Age-Related Macular Degeneration - 1231 images;- Diabetic Macular Edema - 147 images;- Epiretinal Membrane- 155 images;- Normal - 332 images;- Retinal Artery Occlusion - 22 images;- Retinal Vein Occlusion - 101 images;- Vitreomacular Interface Disease - 76 images.

This dataset is published to provide researchers and developers with access to a large set of labeled images, which contributes to the development and improvement of algorithms for the automatic processing and analysis of OCT images for early diagnosis and monitoring of eye diseases. CSV file consists of file_name, disease, subcategory, condition, patient_id, eye, sex, year, image_width, and image_height. The dataset will be updated periodically.

 

For more information and details about the dataset see:

https://rdcu.be/dELrE

https://arxiv.org/abs/2312.08255

@article{kulyabin2024octdl,
  title={OCTDL: Optical Coherence Tomography Dataset for Image-Based Deep Learning Methods},
  author={Kulyabin, Mikhail and Zhdanov, Aleksei and Nikiforova, Anastasia and Stepichev, Andrey           and Kuznetsova, Anna and Ronkin, Mikhail and Borisov, Vasilii and Bogachev, Alexander           and Korotkich, Sergey and Constable, Paul A and Maier, Andreas},
  journal={Scientific Data},
  volume={11},
  number={1},
  pages={365},
  year={2024},
  publisher={Nature Publishing Group UK London},  doi={https://doi.org/10.1038/s41597-024-03182-7}
}
DOI: 10.5281/zenodo.7817087
title: Dataset from Castel et al. 'Genetic sex determination in three closely related hydrothermal vent gastropods, including one species with intersex individuals'

description: This is the dataset used in "Genetic sex determination in three closely related hydrothermal vent gastropods, including one species with intersex individuals"Castel J, Pradillon F, Cueff V, Leger G, Daguin-Thiébaut C, Ruault S, Mary J, Hourdez S, Jollivet D, and Broquet T
description: See description in Readme file
DOI: 10.5281/zenodo.10972942
title: lyDATA: 2021 USZ Oropharynx

description: Dataset:


We provide a dataset on lymph node level (LNL) involvement in 287 patients with newly diagnosed oropharyngeal squamous cell carcinoma (OPSCC). For each patient, ipsilateral and contralateral LNL involvement for levels I to VII is reported together with clinicopathological factors including TNM-stage, primary tumor subsite, tumor lateralization, HPV status, sex, age, smoking status, and primary treatment. LNL involvement was assessed individually based on available diagnostic modalities (PET, MRI, CT, fine needle aspiration) by reviewing pathology and radiology reports together with the radiological images. The data is shared as a CSV-table with rows of patients and columns of patient/tumor-specific information and the involvement of individual LNL based on the respective diagnostic modalities.


Reuse potential:


Patterns of lymphatic progression have never been reported on a patient-individual basis in as much detail as provided in this dataset. The data can be used to build quantitative models for lymphatic tumor progression to estimate the probability of occult metastases in LNLs. This may in turn allow for further personalization of the elective clinical target volume definition in radiotherapy and the extent of neck dissection for surgically treated patients. The data can be pooled with other data to build large multi-institutional datasets on lymphatic metastatic progression in the future.
description: This work was supported by the clinical research priority program (CRPP) "Artificial intelligence in oncological imaging" at the University of Zurich.
DOI: 10.15468/dl.8e2teb
title: Occurrence Download

description: A dataset containing 664 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dendrophthoe falcata (L.fil.) Blume"
 ]
}

 The dataset includes 664 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020858-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tbmf55
title: Occurrence Download

description: A dataset containing 253564 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Brazil",
 "GadmGid is BRA.12_1",
 {
 "or" : [
 "TaxonKey is Liliopsida",
 "TaxonKey is Magnoliopsida"
 ]
 }
 ]
}

 The dataset includes 253564 records from 194 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0066185-210914110416597/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.20307700
title: Additional file 8 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 8: Table S6. The primer sequences for qRT-PCR used in this study.
DOI: 10.6084/m9.figshare.14541033.v2
title: Targeting the KRAS α4-α5 allosteric interface inhibits pancreatic cancer tumorigenesis

description: <i>RAS</i> is the most frequently mutated oncogene in human cancer with nearly ~20% of cancer patients possessing mutations in one of three <i>RAS</i> genes (<i>K, N</i> or <i>HRAS</i>). However, <i>KRAS</i> is mutated in nearly 90% of pancreatic ductal carcinomas (PDAC). Although pharmacological inhibition of RAS has been challenging, KRAS(G12C)-specific inhibitors have recently entered the clinic. While KRAS(G12C) is frequently expressed in lung cancers, it is rare in PDAC. Thus, more broadly efficacious RAS inhibitors are needed for treating KRAS mutant-driven cancers such as PDAC. A RAS-specific tool biologic, NS1 Monobody, inhibits HRAS- and KRAS-mediated signalling and oncogenic transformation both <i>in vitro</i> and <i>in vivo</i> by targeting the α4–α5 allosteric site of RAS and blocking RAS self-association. Here, we evaluated the efficacy of targeting the α4-α5 interface of KRAS as an approach to inhibit PDAC development using an immunocompetent orthotopic mouse model. Chemically regulated NS1 expression inhibited ERK and AKT activation in KRAS(G12D) mutant KPC PDAC cells and reduced the formation and progression of pancreatic tumours. NS1-expressing tumours were characterized by increased infiltration of CD4 + T helper cells. These results suggest that targeting the #x3B1;4-#x3B1;5 allosteric site of KRAS may represent a viable therapeutic approach for inhibiting KRAS-mutant pancreatic tumours.
DOI: 10.6084/m9.figshare.7725125
title: Table S1 from Evolutionary and functional analysis of the plant-specific NADPH oxidase gene family in <i>Brassica rapa</i> L.

description: 134 RBOH genes identified in the 13 species examined.
DOI: 10.6084/m9.figshare.20307676.v1
title: Additional file 1 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 1: Table S1. List of the 20 NtftsH genes identified in this study.
DOI: 10.6084/m9.figshare.20307697
title: Additional file 7 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 7: Table S5. GO annotation of NtftsH.
DOI: 10.6084/m9.figshare.20307700.v1
title: Additional file 8 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 8: Table S6. The primer sequences for qRT-PCR used in this study.
DOI: 10.6084/m9.figshare.20307703.v1
title: Additional file 9 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 9: Table S7. Gene expression data and cq value under different stress treatments.
DOI: 10.6084/m9.figshare.20307694.v1
title: Additional file 6 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 6: Table S4. The lists of tobacco and other species ftsH synteny gene pairs.
DOI: 10.6084/m9.figshare.15064855.v1
title: Additional file 1 of Determination of genetic effects and functional SNPs of bovine HTR1B gene on milk fatty acid traits

description: Additional file 1: Table S1. Associations of 13 SNPs of HTR1B gene with fatty acid traits in Chinese Holstein (LSM ± SE).
DOI: 10.6084/m9.figshare.15064864.v1
title: Additional file 4 of Determination of genetic effects and functional SNPs of bovine HTR1B gene on milk fatty acid traits

description: Additional file 4: Table S4. PCR primers information of HTR1B gene.
DOI: 10.6084/m9.figshare.20307676
title: Additional file 1 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 1: Table S1. List of the 20 NtftsH genes identified in this study.
DOI: 10.6084/m9.figshare.7724945.v1
title: Identiﬁcation of a novel antisense RNA that regulates growth hormone receptor expression in chickens

description: Natural antisense transcripts (NATs) are widely present in mammalian genomes and act as pivotal regulator molecules of gene expression. However, studies on NATs in the chicken are relatively rare. We identiﬁed a novel antisense transcript in the chicken, designated <i>GHR-AS-EST</i>, transcribed from the growth hormone receptor (<i>GHR</i>) locus, which encodes a well-known regulatory molecule of muscle development and fat deposition. <i>GHR-AS-EST</i> is predominantly expressed in the chicken liver and muscle tissues. <i>GHR-AS-EST</i> sequence conservation among vertebrates is weak. <i>GHR-AS-EST</i> forms an RNA–RNA duplex with <i>GHBP</i> to increase its stability, and regulates the expression of <i>GHR</i> sense transcripts at both the mRNA and protein levels. Further, <i>GHR-AS-EST</i> promotes cell proliferation by stimulating the expression of signaling factors in the JAK2/STAT pathway, and contributes to fat deposition via downregulating the expression of signaling factors in the JAK2/SOCS pathway in LMH hepatocellular carcinoma cells. We expect that the discovery of a NAT for a regulatory gene associated with cell proliferation and lipolysis will further our understanding of the molecular regulation of both muscle development and fat deposition.
DOI: 10.6084/m9.figshare.23977800.v1
title: Train and test data from EBSD observation from A machine learning study on the fatigue crack path of short crack on an α titanium alloy

description: In the present study, a physics-informed neural network model based on Bayesian hyperparameter optimization is proposed for the prediction of short crack growth paths. A large number of cyclic loadings at a lower amplitude were applied to an α titanium sample by ultrasonic fatigue machine to ensure a sufficient amount of data for machine learning. The grain size, grain orientation, grain boundary direction on the path, as well as crack growth direction, were selected as feature data for training the prediction model. The optimizations of the size ratio and the angle operation were conducted to compare different data processing methods, respectively. After evaluation, eventually, a model for predicting crack growth path is obtained with a reliable performance of 10% tolerance on the path angle at each grain boundary. And the prediction effect of the proposed model is better than that of some classic machine learning models and slip trace analysis.This article is part of the theme issue 'Physics-informed machine learning and its structural integrity applications (Part 1)'.
DOI: 10.6084/m9.figshare.7725155.v1
title: Table S2 from Evolutionary and functional analysis of the plant-specific NADPH oxidase gene family in <i>Brassica rapa</i> L.

description: Ka/Ks analysis for the gene pairs with collinearity relationship.
DOI: 10.6084/m9.figshare.14541039.v1
title: Real-world comparison of direct-acting oral anticoagulants and vitamin K antagonists in chronic kidney disease: a systematic review and meta-analysis

description: <b>Background</b>: No clear clinical guidelines exist on anticoagulant use for chronic kidney disease (CKD) patients. We compared the efficacy and safety of direct-acting oral anticoagulants (DOACs) vs. vitamin K antagonists (VKA) in patients with CKD by pooling data from real-world observational studies. <b>Research design & methods</b>: This systematic review searched PubMed, Embase, and CENTRAL databases and pooled multivariable-adjusted hazard ratios (HR) of outcomes. <b>Results</b>: Fifteen studies were included. Our results indicated a small but significant reduction in the risk of all-cause mortality (p = 0.01), stroke or systemic embolism (p = 0.03), and major bleeding (p = 0.01) with DOAC as compared to VKA. In subgroup analysis based on the severity of CKD, no difference in the risk of stroke or systemic embolism was noted in any subgroups. The risk of mortality was reduced only in patients with moderate-severe or severe CKD and the risk of major bleeding was reduced only in patients with moderate-severe or moderate CKD. <b>Conclusion</b>: DOACs are associated with only a modest reduction in stroke or systemic embolism, major bleeding, and mortality when compared to VKA in CKD patients. Reduction in mortality and major bleeding with DOAC may only be seen in moderate-to-severe CKD patients.
DOI: 10.6084/m9.figshare.20307688
title: Additional file 4 of Genome-wide identification and expression analysis of the ftsH protein family and its response to abiotic stress in Nicotiana tabacum L

description: Additional file 4: Table S2. List of the tandem repeat gene pairs of ftsH in tobacco.
DOI: 10.6084/m9.figshare.15064858
title: Additional file 2 of Determination of genetic effects and functional SNPs of bovine HTR1B gene on milk fatty acid traits

description: Additional file 2: Table S2. Additive(a), dominant(d) and substitution(α) effects of 11 SNPs on milk fatty acid traits of HTR1B gene.
DOI: 10.6084/m9.figshare.16633032
title: Additional file 2 of Potential mechanism of Ziyin Tongluo Formula in the treatment of postmenopausal osteoporosis: based on network pharmacology and ovariectomized rat model

description: Additional file 2: Table S2. List of ZYTLF-targets, PMOP-genes, and ZYTLF-PMOP overlapping genes.