cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13145/bacdive62.20240916.9.1
title: Rubritepida flocculans Alarico et al. 2002

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive63.20240916.9.1
title: Saccharibacter floricola Jojima et al. 2004

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15468/dl.bxbtac
title: Occurrence Download

description: A dataset containing 4551 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "Geometry POLYGON((-82.15917 -5.53208,-75.01321 -5.53208,-75.01321 2.06585,-82.15917 2.06585,-82.15917 -5.53208))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ara macao (Linnaeus, 1758)"
 ]
}

 The dataset includes 4551 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0059277-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13145/bacdive64.20240916.9.1
title: Stella humosa Vasilyeva 1985

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive65.20240916.9.1
title: Stella vacuolata Vasilyeva 1985

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.5281/zenodo.13899488
title: "Data on Water Discharges from Copper Ore Extraction in the Sayak Ore Basin"
DOI: 10.5281/zenodo.13899489
title: "Data on Water Discharges from Copper Ore Extraction in the Sayak Ore Basin"
DOI: 10.15468/dl.euxfk2
title: Occurrence Download

description: A dataset containing 33691 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 "TaxonKey is Papilio troilus Linnaeus, 1758"
 ]
}

 The dataset includes 33691 records from 92 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000416-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5066/p13omhnz
title: Coastal Multibeam Bathymetry Data Collected in August 2022 From Breton Island, Louisiana 

description: As part of the restoration monitoring component of the Deepwater Horizon early restoration project, scientists from the U.S. Geological Survey St. Petersburg Coastal and Marine Science Center in St. Petersburg, Florida (USGS–SPCSMC), conducted a bathymetric survey near Breton Island, Louisiana (LA). During this study, multibeam bathymetry data were collected aboard the research vessel (R/V) Sallenger August 2-5, 2022, as a part of field activity number (FAN) 2022-328-FA. Single-beam and seismic data were also acquired as a part of this field activity, please refer to Lyons and others (2024) and Forde and others (2023) for further details. The purpose of data collection was to develop a baseline digital elevation model of the seafloor environment around Breton Island for comparison with both previous and future elevation assessments, and to evaluate elevation change following island restoration. For further information regarding data collection and/or processing methods, please refer to the associated metadata. 

Lyons, E.O., DeWitt, N.T., Flocks, J.G., Reynolds, B.J., Farmer, A.S., Bernier, J.C., Galbraith, B.A., Stalk, C.A., Nieckoski, N.J., and Reynolds, M.O., 2024, Coastal single-beam bathymetry data collected in 2022 from Breton Island, Louisiana: U.S. Geological Survey data release, https://doi.org/10.5066/P97NH83J.

Forde, A.S., Flocks, J.G., and Farmer, A.S., 2023, Archive of chirp subbottom profile data collected in 2022 From Breton Island, Louisiana: U.S. Geological Survey data release, https://doi.org/10.5066/P9Q28MFD.
DOI: 10.5066/p97nh83j
title: Coastal Single-beam Bathymetry Data Collected in 2022 From Breton Island, Louisiana 

description: As part of the restoration monitoring component of the Deepwater Horizon early restoration project, scientists from the U.S. Geological Survey St. Petersburg Coastal and Marine Science Center (USGS SPCMSC) conducted a single-beam and multibeam bathymetry survey around Breton Island, Louisiana (LA), from August 3-5, 2022, for Field Activity Number (FAN) 2022-328-FA. The purpose of data collection was to develop a baseline digital elevation model of the seafloor environment around Breton Island for comparison with both previous and future elevation assessments, and to evaluate elevation change following island restoration. The survey encompassed approximately 65 square kilometers of nearshore environment including the former Mississippi River to Gulf Outlet and submerged areas of South Breton Island. The single-beam bathymetry was acquired using two 12-foot personal watercrafts (PWCs) and a 20-foot Twin Vee. All vessels were outfitted with high precision Global Navigation Satellite System (GNSS) receivers, motion reference units, and survey grade single-beam echosounders. For additional information on post-processing steps please refer to DeWitt and others (2016) and Hansen and others (2017).

DeWitt, N.T., Fredericks, J.J., Flocks, J.G., Miselis, J.L., Locker, S.D., Kindinger, J.L., Bernier, J.C., Kelso, K.W., Reynolds, B.J., Wiese, D.S., and Browning, T.N., 2016, Archive of bathymetry and backscatter data collected in 2014 nearshore Breton and Gosier Islands, Breton National Wildlife Refuge, Louisiana: U.S. Geological Survey Data Series 1005, https://doi.org/10.3133/ds1005.

Hansen, M.E., DeWitt, N.T., and Reynolds, B.J., 2017, Archive of bathymetry data collected in South Florida from 1995 to 2015: U.S. Geological Survey Data Series 1031, https://doi.org/10.3133/ds1031.
DOI: 10.15468/dl.bd4awe
title: Occurrence Download

description: A dataset containing 28456 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Flora of kurgans in the \"Wild Fields\" (Ukraine)"
 ]
}

 The dataset includes 28456 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000420-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13891601
title: Article: Modeling Mouse ICM - Complete Data Bank - Part I

description: Our study presents a spatial-stochastic model for the gene regulatory network (GRN) and the signaling pathway governing cell-fate differentiation during early mouse embryogenesis, specifically at the blastocyst stage. Departing from biophysics-based models of gene regulation, we perform stochastic simulations of the biochemical processes driving early mouse embryogenesis both at the cell and tissue level. Combining these simulations with state-of-the-art AI-aided inference techniques, we successfully parameterize our model, replicating key experimental observations and providing mechanistic insights into the biochemical interactions giving rise to them. Thanks to the stochastic nature of our approach, we quantify the high robustness of ICM specification to various kinds of noise, and provide quantitative predictions for the effects of diverse experimentally testable perturbations. Altogether, we provide a deeper understanding of the intricate mechanisms driving early cell-fate decisions in mouse embryogenesis, highlighting the synergy of local cellular and broader tissue-scale interactions that shape development.
DOI: 10.5281/zenodo.13891602
title: Article: Modeling Mouse ICM - Complete Data Bank - Part I

description: Our study presents a spatial-stochastic model for the gene regulatory network (GRN) and the signaling pathway governing cell-fate differentiation during early mouse embryogenesis, specifically at the blastocyst stage. Departing from biophysics-based models of gene regulation, we perform stochastic simulations of the biochemical processes driving early mouse embryogenesis both at the cell and tissue level. Combining these simulations with state-of-the-art AI-aided inference techniques, we successfully parameterize our model, replicating key experimental observations and providing mechanistic insights into the biochemical interactions giving rise to them. Thanks to the stochastic nature of our approach, we quantify the high robustness of ICM specification to various kinds of noise, and provide quantitative predictions for the effects of diverse experimentally testable perturbations. Altogether, we provide a deeper understanding of the intricate mechanisms driving early cell-fate decisions in mouse embryogenesis, highlighting the synergy of local cellular and broader tissue-scale interactions that shape development.
DOI: 10.5281/zenodo.13896946
title: Article: Modeling Mouse ICM - Complete Data Bank - Part II

description: Our study presents a spatial-stochastic model for the gene regulatory network (GRN) and the signaling pathway governing cell-fate differentiation during early mouse embryogenesis, specifically at the blastocyst stage. Departing from biophysics-based models of gene regulation, we perform stochastic simulations of the biochemical processes driving early mouse embryogenesis both at the cell and tissue level. Combining these simulations with state-of-the-art AI-aided inference techniques, we successfully parameterize our model, replicating key experimental observations and providing mechanistic insights into the biochemical interactions giving rise to them. Thanks to the stochastic nature of our approach, we quantify the high robustness of ICM specification to various kinds of noise, and provide quantitative predictions for the effects of diverse experimentally testable perturbations. Altogether, we provide a deeper understanding of the intricate mechanisms driving early cell-fate decisions in mouse embryogenesis, highlighting the synergy of local cellular and broader tissue-scale interactions that shape development.
DOI: 10.5281/zenodo.13896947
title: Article: Modeling Mouse ICM - Complete Data Bank - Part II

description: Our study presents a spatial-stochastic model for the gene regulatory network (GRN) and the signaling pathway governing cell-fate differentiation during early mouse embryogenesis, specifically at the blastocyst stage. Departing from biophysics-based models of gene regulation, we perform stochastic simulations of the biochemical processes driving early mouse embryogenesis both at the cell and tissue level. Combining these simulations with state-of-the-art AI-aided inference techniques, we successfully parameterize our model, replicating key experimental observations and providing mechanistic insights into the biochemical interactions giving rise to them. Thanks to the stochastic nature of our approach, we quantify the high robustness of ICM specification to various kinds of noise, and provide quantitative predictions for the effects of diverse experimentally testable perturbations. Altogether, we provide a deeper understanding of the intricate mechanisms driving early cell-fate decisions in mouse embryogenesis, highlighting the synergy of local cellular and broader tissue-scale interactions that shape development.
DOI: 10.15468/dl.ypvexq
title: Occurrence Download

description: A dataset containing 6560 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Steppe islands in a sea of fields (southern Ukraine)"
 ]
}

 The dataset includes 6560 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000422-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13896988
title: Article: Modeling Mouse ICM - Complete Data Bank - Part III

description: Our study presents a spatial-stochastic model for the gene regulatory network (GRN) and the signaling pathway governing cell-fate differentiation during early mouse embryogenesis, specifically at the blastocyst stage. Departing from biophysics-based models of gene regulation, we perform stochastic simulations of the biochemical processes driving early mouse embryogenesis both at the cell and tissue level. Combining these simulations with state-of-the-art AI-aided inference techniques, we successfully parameterize our model, replicating key experimental observations and providing mechanistic insights into the biochemical interactions giving rise to them. Thanks to the stochastic nature of our approach, we quantify the high robustness of ICM specification to various kinds of noise, and provide quantitative predictions for the effects of diverse experimentally testable perturbations. Altogether, we provide a deeper understanding of the intricate mechanisms driving early cell-fate decisions in mouse embryogenesis, highlighting the synergy of local cellular and broader tissue-scale interactions that shape development.
DOI: 10.5281/zenodo.13896989
title: Article: Modeling Mouse ICM - Complete Data Bank - Part III

description: Our study presents a spatial-stochastic model for the gene regulatory network (GRN) and the signaling pathway governing cell-fate differentiation during early mouse embryogenesis, specifically at the blastocyst stage. Departing from biophysics-based models of gene regulation, we perform stochastic simulations of the biochemical processes driving early mouse embryogenesis both at the cell and tissue level. Combining these simulations with state-of-the-art AI-aided inference techniques, we successfully parameterize our model, replicating key experimental observations and providing mechanistic insights into the biochemical interactions giving rise to them. Thanks to the stochastic nature of our approach, we quantify the high robustness of ICM specification to various kinds of noise, and provide quantitative predictions for the effects of diverse experimentally testable perturbations. Altogether, we provide a deeper understanding of the intricate mechanisms driving early cell-fate decisions in mouse embryogenesis, highlighting the synergy of local cellular and broader tissue-scale interactions that shape development.
DOI: 10.15468/dl.dnzwk9
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 "TaxonKey is Paracoccus juniperi (Ehrhorn, 1906)"
 ]
}

 The dataset includes 4 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000425-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cx43u4
title: Occurrence Download

description: A dataset containing 7056 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 "TaxonKey is Inonotus hispidus (Bull.) P.Karst."
 ]
}

 The dataset includes 7056 records from 221 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000424-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e6ykwn
title: Occurrence Download

description: A dataset containing 34116 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Phellodendron sachalinense (F.Schmidt) Sarg., Philadelphus incanus Koehne, Philadelphus tomentosus Wall., Photinia serratifolia (Desf.) Kalkman, Photinia villosa (Thunb.) DC., Phyllostachys aurea (André) Rivière & C.Rivière, Phyllostachys aureosulcata McClure, Phyllostachys flexuosa Rivière & C.Rivière, Phyllostachys nigra (Lodd. ex Lindl.) Munro, Phyllostachys viridiglaucescens (Carrière) Rivière & C.Rivière, Picea asperata Mast., Picea brachytyla (Franch.) E.Pritz., Picea likiangensis (Franch.) E.Pritz., Picea purpurea Mast., Picea schrenkiana Fisch. & C.A.Mey., Picea smithiana (Wall.) Boiss., Picea wilsonii Mast., Picrasma quassioides (D.Don) Benn., Pieris japonica (Thunb.) D.Don ex G.Don, Pinus armandii Franch., Pinus bungeana Zucc. ex Endl., Pinus wallichiana A.B.Jacks., Platycarya strobilacea Siebold & Zucc., Poliothyrsis sinensis Oliv., Polygonum aubertii L.Henry)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 34116 records from 497 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000426-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13899481
title: The Lower Connacht Recension of Auraicept na nÉces

description: Semi-diplomatic editions of Auraicept na nÉces from the Book of Ballymote, the Great Book of Lecan, and John Beaton's Broad Book.
DOI: 10.5281/zenodo.13899482
title: The Lower Connacht Recension of Auraicept na nÉces

description: Semi-diplomatic editions of Auraicept na nÉces from the Book of Ballymote, the Great Book of Lecan, and John Beaton's Broad Book.
DOI: 10.15468/dl.t2uqgn
title: Occurrence Download

description: A dataset containing 33 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 "TaxonKey is Paradirphia boudinoti Lemaire & Wolfe, 1990"
 ]
}

 The dataset includes 33 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000427-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zk6kzd
title: Occurrence Download

description: A dataset containing 12036 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 "TaxonKey is Inonotus leporinus (Fr.) Gilb. & Ryvarden"
 ]
}

 The dataset includes 12036 records from 66 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000428-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25934/pr00009434
title: Retrospective analysis of different doses of atezolizumab in patients with advanced solid tumors

description: Cancer is a group of diseases where abnormal cells grow uncontrollably and can spread to other parts of the body. Advanced solid tumors are cancers that have formed solid masses and have spread beyond their original site. Millions of people worldwide are affected by various types of advanced cancers, making it a major public health concern.
Currently, the standard dose of atezolizumab is 1200 mg given intravenously (through a vein). However, not all patients respond the same way to this dose. Some may benefit just as much from a lower dose, which could reduce side effects and treatment costs. This research aims to find out if lower doses of atezolizumab are as effective and safe as the standard dose. The findings could lead to better, more personalized cancer treatments, improving patient care and outcomes.
This research will use existing data from a previous clinical trial involving 661 patients with advanced solid tumors. This is called a retrospective study because it looks back at data that has already been collected. Researchers will compare the effectiveness and safety of the standard 1200 mg dose with a lower dose of atezolizumab. They will look at key outcomes such as:
•	Overall survival (OS): How long patients live after starting treatment.
•	Progression-free survival (PFS): How long patients live without their cancer getting worse.
•	Adverse events (AEs): Any side effects or other unwanted effects from the treatment.
To ensure the results are reliable, the study will use statistical methods to account for differences between patients and analyze the data. This will include cleaning the data to correct any inaccuracies and using statistical software to perform the analysis.
This study aims to improve our understanding of atezolizumab dosing, potentially leading to more effective and personalized treatments for cancer patients, ultimately enhancing their quality of life and treatment outcomes.
DOI: 10.17179/excli2024-7592_supplementary_data
title: Ultrastructural alterations and mitochondrial dysfunction in skeletal muscle of peripheral artery disease patients: Implications for early therapeutic interventions

description: Peripheral artery disease (PAD) is an atherosclerotic condition that impairs blood flow to the lower extremities, resulting in myopathy in affected skeletal muscles. Improving our understanding of PAD and developing novel treatment strategies necessitates a comprehensive examination of cellular structural alterations that occur in the muscles with disease progression. Here we aimed to employ electron microscopy to quantify skeletal muscle ultrastructural alterations responsible for the myopathy of PAD. Fifty-two participants (22 controls, 10 PAD Stage II, and 20 PAD Stage IV) were enrolled. Gastrocnemius biopsies were obtained to determine mitochondrial respiration and oxidative stress. Skeletal muscle sarcomere, mitochondria, lipid droplets, and sarcoplasm were assessed using transmission electron microscopy and focused ion beam scanning electron microscopy. Controls and PAD Stage II patients underwent walking performance tests: 6-minute walking test, 4-minute walking velocity, and maximum graded treadmill test. We identified several prominent ultrastructural modifications in PAD gastrocnemius, including reduced sarcomere dimensions, alterations in mitochondria number and localization, myofibrillar disorientation, changes in lipid droplets, and modifications in mitochondria-lipid droplet contact area. These changes correlated with impaired mitochondrial respiration and increased ROS production. We observed progressive deterioration in mitochondrial parameters across PAD stages. Stage II PAD showed impaired mitochondrial function and structure, while stage IV exhibited further deterioration, more pronounced structural alterations, and a decrease in mitochondrial content. The walking performance of Stage II PAD patients was significantly reduced. Our findings suggest that pathological mitochondria play a key role in the skeletal muscle dysfunction of PAD patients and represent an important target for therapeutic interventions aimed at improving clinical and functional outcomes in this patient population. Our data indicate that treatments should be implemented early and may include therapies designed to preserve and enhance mitochondrial biogenesis and respiration, optimize mitochondrial-lipid droplet interactions, or mitigate oxidative stress.
description: EXCLI Journal; 23:Doc1208; ISSN 1611-2156
DOI: 10.15468/dl.uhuw7f
title: Occurrence Download

description: A dataset containing 137 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "DatasetKey" : [
 "is Global database of alien macrofungi"
 ]
 }
 },
 "TaxonKey is Paradirphia hoegei Druce, 1886"
 ]
}

 The dataset includes 137 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000430-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.