cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1449296.v3
title: BEP simulation results

description: Cancer evolution simulations based on the BEP model were performed for different combinations of 4 parameter values: s (stem cell hierarchy), r (mutation rate), d (number of driver genes) and f (strength of driver mutations).<br>From 20 independent simulation instances, averaged 6 statistics were obtained: ε (population entropy), μ (founder mutation count), ρ (average mutation count), λ (population fitness), τ (growth time) and θ (self-similarity). The results can be interactively explored at our web site: http://bep.hgc.jp
DOI: 10.6084/m9.figshare.1449296.v2
title: results of BEP simulation

description: Cancer evolution simulations based on the BEP model were performed for different combinations of 4 parameter values: s (stem cell hierarchy), r (mutation rate), d (number of driver genes) and f (strength of driver mutations).<br>From 20 independent simulation instances, averaged 6 statistics were obtained: ε (population entropy), μ (founder mutation count), ρ (average mutation count), λ (population fitness), τ (growth time) and θ (self-similarity).
DOI: 10.6084/m9.figshare.1449286.v1
title: Soil microbial communities Barro Colorado

description: Sequence information (16S for bacteria and ITS1 for fungi) from soil samples collected in Barro Colorado Island (BCI).
DOI: 10.6084/m9.figshare.1449264
title: C.remanei protein coding gene annotations

description: protein-coding genes predicted by maker2
DOI: 10.6084/m9.figshare.1449277
title: Negotiation Protocol for Agile and Reliable E-Science Collaboration

description: A negotiation protocol specification, including negoitation messages, negoitation procedures, states, assumption and rules, and race condition discussion. The protocol is based on Alliance model, and aims at enabling agile, dynamic, reliable, and lightweight e-Science collaboration.
DOI: 10.6084/m9.figshare.1449264.v1
title: C.remanei protein coding gene annotations

description: protein-coding genes predicted by maker2
DOI: 10.6084/m9.figshare.1449260
title: Data for SULI 2015 projects

description: HRRR and NEXRAD data
DOI: 10.6084/m9.figshare.1449260.v1
title: Data for SULI 2015 projects

description: HRRR and NEXRAD data
DOI: 10.6084/m9.figshare.1449256
title: Corneal confocal microscopy detects small fibre neuropathy in patients with upper gastrointestinal cancer and nerve regeneration in chemotherapy induced peripheral neuropathy.

description: This dataset is provided at request of the scientific journal PLOS One. These data were used for analysis in our study entitled "Corneal confocal microscopy detects small fibre neuropathy in patients with upper gastrointestinal cancer and nerve regeneration in chemotherapy induced peripheral neuropathy". We hereby make our dataset available.
DOI: 10.6084/m9.figshare.1449251
title: fMRI Data set

description: fmri data set
DOI: 10.6084/m9.figshare.1449251.v2
title: fMRI Data set

description: fmri data set
DOI: 10.6084/m9.figshare.1449250
title: Lysoplex: An efficient toolkit to detect DNA sequence variations in the autophagy-lysosomal pathway

description: The autophagy-lysosomal pathway (ALP) regulates cell homeostasis and plays a crucial role in human diseases, such as lysosomal storage disorders (LSDs) and common neurodegenerative diseases. Therefore, the identification of DNA sequence variations in genes involved in this pathway and their association with human diseases would have a significant impact on health. To this aim, we developed Lysoplex, a targeted next-generation sequencing (NGS) approach, which allowed us to obtain a uniform and accurate coding sequence coverage of a comprehensive set of 891 genes involved in lysosomal, endocytic, and autophagic pathways. Lysoplex was successfully validated on 14 different types of LSDs and then used to analyze 48 mutation-unknown patients with a clinical phenotype of neuronal ceroid lipofuscinosis (NCL), a genetically heterogeneous subtype of LSD. Lysoplex allowed us to identify pathogenic mutations in 67% of patients, most of whom had been unsuccessfully analyzed by several sequencing approaches. In addition, in 3 patients, we found potential disease-causing variants in novel NCL candidate genes. We then compared the variant detection power of Lysoplex with data derived from public whole exome sequencing (WES) efforts. On average, a 50% higher number of validated amino acid changes and truncating variations per gene were identified. Overall, we identified 61 truncating sequence variations and 488 missense variations with a high probability to cause loss of function in a total of 316 genes. Interestingly, some loss-of-function variations of genes involved in the ALP pathway were found in homozygosity in the normal population, suggesting that their role is not essential. Thus, Lysoplex provided a comprehensive catalog of sequence variants in ALP genes and allows the assessment of their relevance in cell biology as well as their contribution to human disease.
DOI: 10.6084/m9.figshare.1449251.v1
title: fMRI Data set

description: fmri data set
DOI: 10.6084/m9.figshare.1449250.v1
title: Lysoplex: An efficient toolkit to detect DNA sequence variations in the autophagy-lysosomal pathway

description: The autophagy-lysosomal pathway (ALP) regulates cell homeostasis and plays a crucial role in human diseases, such as lysosomal storage disorders (LSDs) and common neurodegenerative diseases. Therefore, the identification of DNA sequence variations in genes involved in this pathway and their association with human diseases would have a significant impact on health. To this aim, we developed Lysoplex, a targeted next-generation sequencing (NGS) approach, which allowed us to obtain a uniform and accurate coding sequence coverage of a comprehensive set of 891 genes involved in lysosomal, endocytic, and autophagic pathways. Lysoplex was successfully validated on 14 different types of LSDs and then used to analyze 48 mutation-unknown patients with a clinical phenotype of neuronal ceroid lipofuscinosis (NCL), a genetically heterogeneous subtype of LSD. Lysoplex allowed us to identify pathogenic mutations in 67% of patients, most of whom had been unsuccessfully analyzed by several sequencing approaches. In addition, in 3 patients, we found potential disease-causing variants in novel NCL candidate genes. We then compared the variant detection power of Lysoplex with data derived from public whole exome sequencing (WES) efforts. On average, a 50% higher number of validated amino acid changes and truncating variations per gene were identified. Overall, we identified 61 truncating sequence variations and 488 missense variations with a high probability to cause loss of function in a total of 316 genes. Interestingly, some loss-of-function variations of genes involved in the ALP pathway were found in homozygosity in the normal population, suggesting that their role is not essential. Thus, Lysoplex provided a comprehensive catalog of sequence variants in ALP genes and allows the assessment of their relevance in cell biology as well as their contribution to human disease.
DOI: 10.6084/m9.figshare.1449233
title: Table poléométrique - SIG data set, France

description: Data set from the "table poléométrique" made in 1782 by Charles de Fourcroy. It is a data set where 109 towns in France territory are described from a morphology point of view (urban areas). Data set is based on annex of the article published by François de Dainville in Population (Grandeur et population des villes au XVIIIe siècle, Population, 1958, 13(3), pp. 459-480). This work takes place within a PhD in archaeology and geography - UMR 8504 Géographie-cités, Université Paris I - Panthéon-Sorbonne.
DOI: 10.6084/m9.figshare.1449233.v2
title: Table poléométrique - SIG data set, France

description: Data set from the "table poléométrique" made in 1782 by Charles de Fourcroy. It is a data set where 109 towns in France territory are described from a morphology point of view (urban areas). Data set is based on annex of the article published by François de Dainville in Population (Grandeur et population des villes au XVIIIe siècle, Population, 1958, 13(3), pp. 459-480). This work takes place within a PhD in archaeology and geography - UMR 8504 Géographie-cités, Université Paris I - Panthéon-Sorbonne.
DOI: 10.6084/m9.figshare.1449233.v1
title: Table poléométrique - SIG data set, France

description: Data set from the "table poléométrique" made in 1782 by Charles de Fourcroy. It is a data set where 109 towns in France territory are described from a morphology point of view (urban areas). Data set is based on annex of the article published by François de Dainville in Population (Grandeur et population des villes au XVIIIe siècle, Population, 1958, 13(3), pp. 459-480). This work takes place within a PhD in archaeology and geography - UMR 8504 Géographie-cité, Université Paris I - Panthéon-Sorbonne.
DOI: 10.6084/m9.figshare.1449225
title: Table poléométrique - complete data set

description: Data set from the "table poléométrique" made in 1782 by Charles de Fourcroy. It is a data set where 218 towns all around the world are described from a morphology point of view (urban areas). However the perspective particulary focus on France territory (130 records). Data set is based on annex of the article published by François de Dainville in Population (Grandeur et population des villes au XVIIIe siècle, Population, 1958, 13(3), pp. 459-480). This work takes place within a PhD in archaeology and geography - UMR 8504 Géographie-cités, Université Paris I - Panthéon-Sorbonne.
DOI: 10.6084/m9.figshare.1449219
title: Age and nature of Cryogenian diamictites at Aksu, Northwest China: implications for Sturtian tectonics and climate

description: The Neoproterozoic succession in the Aksu region of northwestern China forms an unconformable boundary with the lower Precambrian Aksu basement group and consists of the Qiaoenbrak, Yuermeinak, Sugetbrak, and Chigebrak Formations. The two lowermost units include distinct glaciogenic diamictites that indicate distinct episodes of glaciation. In this study, we report the LA-ICP-MS U–Pb ages of detrital zircons and geochemical data from the lower Neoproterozoic strata. The age of the detrital zircon constrains the maximum depositional age to between 769 ± 10 and 727 ± 8 Ma for the Qiaoenbrak diamictites, which are associated with the Kaigas glaciation that occurred during the early Cryogenian period. The youngest detrital zircon age of 719 ± 9 Ma corresponds to the maximum depositional age of the Yuermeinak diamictites, which are associated with the Sturtian glaciation. The detrital zircons from the lower Neoproterozoic strata in the Aksu area indicated four peak ages of 2484, 1948, 861, and 647–581 Ma, which are consistent with the major tectonic episodes in the Tarim Block. The peak age of 2484 Ma represents an Archaean basement, which participated in the worldwide continental nuclei growth event from the late Neoarchaean to the early Palaeoproterozoic. The peak age of 1948 Ma may be associated with the assembly of the Columbia supercontinent, and the 861 and 647–581 Ma are likely associated with the break-up of the Rodinia supercontinent. The combination of geological and geochemical characteristics between the Qiaoenbrak Formation and Aksu Group indicates that the Qiaoenbrak Formation may be penecontemporaneous with the Aksu Group in an active continental margin tectonic setting. Following the break-up of the Rodinia supercontinent, the margin of the Aksu evolved into a passive margin and the Yuermeinak and Sugetbrak Formations were deposited.
DOI: 10.6084/m9.figshare.1449225.v1
title: Table poléométrique - complete dataset

description: Data set from the "table poléométrique" made in 1782 by Charles de Fourcroy. It is a data set where 218 towns all around the world are described from a morphology point of view (urban areas). However the perspective particulary focus on France territory (130 records). Data set is based on annex of the article published by François de Dainville in Population (Grandeur et population des villes au XVIIIe siècle, Population, 1958, 13(3), pp. 459-480). This work takes place within a PhD in archaeology and geography - UMR 8504 Géographie-cité, Université Paris I - Panthéon-Sorbonne.
DOI: 10.6084/m9.figshare.1449219.v1
title: Age and nature of Cryogenian diamictites at Aksu, Northwest China: implications for Sturtian tectonics and climate

description: The Neoproterozoic succession in the Aksu region of northwestern China forms an unconformable boundary with the lower Precambrian Aksu basement group and consists of the Qiaoenbrak, Yuermeinak, Sugetbrak, and Chigebrak Formations. The two lowermost units include distinct glaciogenic diamictites that indicate distinct episodes of glaciation. In this study, we report the LA-ICP-MS U–Pb ages of detrital zircons and geochemical data from the lower Neoproterozoic strata. The age of the detrital zircon constrains the maximum depositional age to between 769 ± 10 and 727 ± 8 Ma for the Qiaoenbrak diamictites, which are associated with the Kaigas glaciation that occurred during the early Cryogenian period. The youngest detrital zircon age of 719 ± 9 Ma corresponds to the maximum depositional age of the Yuermeinak diamictites, which are associated with the Sturtian glaciation. The detrital zircons from the lower Neoproterozoic strata in the Aksu area indicated four peak ages of 2484, 1948, 861, and 647–581 Ma, which are consistent with the major tectonic episodes in the Tarim Block. The peak age of 2484 Ma represents an Archaean basement, which participated in the worldwide continental nuclei growth event from the late Neoarchaean to the early Palaeoproterozoic. The peak age of 1948 Ma may be associated with the assembly of the Columbia supercontinent, and the 861 and 647–581 Ma are likely associated with the break-up of the Rodinia supercontinent. The combination of geological and geochemical characteristics between the Qiaoenbrak Formation and Aksu Group indicates that the Qiaoenbrak Formation may be penecontemporaneous with the Aksu Group in an active continental margin tectonic setting. Following the break-up of the Rodinia supercontinent, the margin of the Aksu evolved into a passive margin and the Yuermeinak and Sugetbrak Formations were deposited.
DOI: 10.6084/m9.figshare.1449217
title: Diversity in the deep sea

description: Supporting data for the paper: Mindel, B.L., Neat, F.C., Trueman, C.T., Webb, T.J. & Blanchard, J.L. (2016) Functional, size and taxonomic diversity of fish along a depth gradient in the deep sea. PeerJ, 4:e2387; DOI 10.7717/peerj.2387<br><br>Datasets have been summarised to enable replication of figures and analyses from this paper. Data are provided by Marine Scotland Science from their ongoing deepwater trawl survey. <br><br>Calculate size diversity:<br>Input needed in order to calculate size diversity for each station using the Leinster-Cobbold measure of diversity. 'Class number' and 'Class midpoint' are based on length of individuals. 'Proportional abundance' is the proportion of biomass (based on the previous column 'Kg per hr') that that class accounts for within the station. The method of calculating size diversity (final column) can be found in the main manuscript.<br><br>Diversity and trait values:<br>Data needed to produce Figures 4, 5 and 6 from the paper. Includes values of all measures of diversity examined, plus means and standard deviations of continuous morphological traits as described in the manuscript.<br><br>Guild biomass: <br>Data needed to produce Figure 7 from the paper. Percentage of biomass accounted for in each depth band by each feeding guild.<br><br>Species codes: <br>Translation of species codes to Latin names.<br><br>Species site matrix:<br>One input into the calculation of functional diversity - biomass of each species in each station. The column names are species codes, and their translation to Latin names can be found in 'Species codes'.<br><br><br>
DOI: 10.6084/m9.figshare.1449219.v3
title: Age and nature of Cryogenian diamictites at Aksu, Northwest China: implications for Sturtian tectonics and climate

description: The Neoproterozoic succession in the Aksu region of northwestern China forms an unconformable boundary with the lower Precambrian Aksu basement group and consists of the Qiaoenbrak, Yuermeinak, Sugetbrak, and Chigebrak Formations. The two lowermost units include distinct glaciogenic diamictites that indicate distinct episodes of glaciation. In this study, we report the LA-ICP-MS U–Pb ages of detrital zircons and geochemical data from the lower Neoproterozoic strata. The age of the detrital zircon constrains the maximum depositional age to between 769 ± 10 and 727 ± 8 Ma for the Qiaoenbrak diamictites, which are associated with the Kaigas glaciation that occurred during the early Cryogenian period. The youngest detrital zircon age of 719 ± 9 Ma corresponds to the maximum depositional age of the Yuermeinak diamictites, which are associated with the Sturtian glaciation. The detrital zircons from the lower Neoproterozoic strata in the Aksu area indicated four peak ages of 2484, 1948, 861, and 647–581 Ma, which are consistent with the major tectonic episodes in the Tarim Block. The peak age of 2484 Ma represents an Archaean basement, which participated in the worldwide continental nuclei growth event from the late Neoarchaean to the early Palaeoproterozoic. The peak age of 1948 Ma may be associated with the assembly of the Columbia supercontinent, and the 861 and 647–581 Ma are likely associated with the break-up of the Rodinia supercontinent. The combination of geological and geochemical characteristics between the Qiaoenbrak Formation and Aksu Group indicates that the Qiaoenbrak Formation may be penecontemporaneous with the Aksu Group in an active continental margin tectonic setting. Following the break-up of the Rodinia supercontinent, the margin of the Aksu evolved into a passive margin and the Yuermeinak and Sugetbrak Formations were deposited.
DOI: 10.6084/m9.figshare.1449219.v2
title: Age and nature of Cryogenian diamictites at Aksu, Northwest China: implications for Sturtian tectonics and climate

description: The Neoproterozoic succession in the Aksu region of northwestern China forms an unconformable boundary with the lower Precambrian Aksu basement group and consists of the Qiaoenbrak, Yuermeinak, Sugetbrak, and Chigebrak Formations. The two lowermost units include distinct glaciogenic diamictites that indicate distinct episodes of glaciation. In this study, we report the LA-ICP-MS U–Pb ages of detrital zircons and geochemical data from the lower Neoproterozoic strata. The age of the detrital zircon constrains the maximum depositional age to between 769 ± 10 and 727 ± 8 Ma for the Qiaoenbrak diamictites, which are associated with the Kaigas glaciation that occurred during the early Cryogenian period. The youngest detrital zircon age of 719 ± 9 Ma corresponds to the maximum depositional age of the Yuermeinak diamictites, which are associated with the Sturtian glaciation. The detrital zircons from the lower Neoproterozoic strata in the Aksu area indicated four peak ages of 2484, 1948, 861, and 647–581 Ma, which are consistent with the major tectonic episodes in the Tarim Block. The peak age of 2484 Ma represents an Archaean basement, which participated in the worldwide continental nuclei growth event from the late Neoarchaean to the early Palaeoproterozoic. The peak age of 1948 Ma may be associated with the assembly of the Columbia supercontinent, and the 861 and 647–581 Ma are likely associated with the break-up of the Rodinia supercontinent. The combination of geological and geochemical characteristics between the Qiaoenbrak Formation and Aksu Group indicates that the Qiaoenbrak Formation may be penecontemporaneous with the Aksu Group in an active continental margin tectonic setting. Following the break-up of the Rodinia supercontinent, the margin of the Aksu evolved into a passive margin and the Yuermeinak and Sugetbrak Formations were deposited.
DOI: 10.17632/v9v6ck223r.1
title: Dataset on biomechanics of human supra-aortic trunks and abdominal visceral arteries harvested during autopsy

description: The supra-aortic trunks and the most critical visceral branches of the abdominal aorta (celiac trunk, superior mesenteric artery, and renal arteries) are responsible for the blood supply to the head, neck, superior limbs, and abdominal viscera. The atherosclerotic degeneration of those vessels or branches could eventually lead to a significant decrease in the blood flow to vital structures. That is the main reason why those arteries are currently common sites of endovascular manipulation. The knowledge about the resistance of these vessels' walls and their compliance is beneficial for the doctors who manipulate them and the industries that produce endovascular devices. The present dataset is a collection of uniaxial biomechanical tests from arteries harvested during the autopsy procedure of 27 adult donors. Samples from the brachiocephalic trunk, left common carotid artery1, left subclavian artery, celiac trunk, superior mesenteric artery, and renal arteries were collected for analysis whenever it was possible. A 2 cm long segment of each artery was collected and longitudinally opened to produce a flat tissue sample. Like the standardization used for aorta fragments previously published in literature2, the uniaxial tensile test utilized the INSTRON SPEC 2200 device and was coordinated by INSPEC software and SERIES IX software. The essential variables studied through this test are failure stress, failure tension, and failure strain. Each sample test generated a graph representing the relationship between stress and strain (elastic diagram). Notable findings: Although much smaller and seaming much more delicate than the aorta itself, some of its branches showed values of stress and tension higher than the ones observed in aorta fragments previously published in the literature by Monteiro and Nynomiya.3,4 DATA DESCRIPTION: Biomechanical Data: For each valid sample test, three documents were generated: 1. Stress X strain graph (all graphs contain a notification in their left upper corner about each sample's failure stress, strain (also called ultimate yield in the charts), and tension). 2. Table (excel file containing all the values related to the stress X strain graph) 3. A report from the Biomechanical test software containing details of the test All files related to valid biomechanical tests from these 27 cadaveric donors' arteries were included in the present dataset. Unfortunately, some of the tensile tests were not considered valid as the samples slipped from the biomechanical test equipment clips. Therefore, only valid tests are present in this dataset.
DOI: 10.6084/m9.figshare.1449148
title: GreenlandGlacierNames_GGNv01

description: Place names in Greenland can be difficult to get right, as they are a mix of Greenlandic, Danish, and other foreign languages. In addition, orthographies have changed over time. With this new dataset, we give the researcher working with Greenlandic glaciers the proper tool to find the correct name for glaciers and ice caps in Greenland and to locate glaciers described in the historic literature with the old Greenlandic orthography. The dataset contains information on the names of 733 glaciers, 285 originating from the Greenland Ice Sheet (GrIS) and 448 from local glaciers and ice caps (LGIC). http://www.the-cryosphere-discuss.net/9/1593/2015/tcd-9-1593-2015.pdf Current available version: V1.0 Dataset is available as: 1)Text file 2)ArcGIS shapefile 3)KML file
DOI: 10.6084/m9.figshare.1449102
title: Gaussian Job Archive for C10H22N2Si

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1449102.v1
title: Gaussian Job Archive for C10H22N2Si

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.
DOI: 10.6084/m9.figshare.1449075
title: Gaussian Job Archive for C70H114N2Si4

description: Archive of work produced using the resources of the Imperial College High Performance Computing Service.