cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/tn8ykbj82c.1
title: Cartilage tissue from sites of weight bearing in osteoarthritis patients exhibits a differential phenotype with distinct chondrocytes subests

description: Background
Osteoarthritis (OA) is a degenerative joint disease that is associated with excessive mechanical loading. The aim here was to elucidate whether different subpopulations of chondrocytes exhibit distinct phenotypes in response to variations in loading conditions. Furthermore, we seek to investigate the transcriptional switches and cell crosstalk among these subsets of chondrocytes.
Methods
Proteomic analysis was performed on cartilage tissue isolated from weight bearing and non-weight bearing regions of the joint. Additionally, single-cell RNA sequencing was used to identify different subsets of chondrocytes, including hypertrophic chondrocytes (HCs) and OA hypertrophic chondrocytes (OAHCs)s. By applying pseudotime and cell communication analyses, it was found that OAHCs exhibit unique transcriptional and cell interaction features that distinguish them from other subpopulations of chondrocytes. These cells were induced to differentiate in vitro through stimulation with TGFβ, and their presence was also confirmed in pathological sections of human OA cartilage tissue. The molecular mechanisms underlying transcriptional changes in these cells were analyzed through whole-transcriptome sequencing.
Findings
The weight bearing region of OA cartilage tissue harbors a subpopulation of chondrocytes, referred to as OAHCs, which display unique features compared to the hypertrophic chondrocytes present in healthy cartilage. The existence of these specialized cells provides a plausible explanation for the dualistic effects of TGFβ signaling pathway in response to excessive mechanical loading, as observed in both normal and pathologic cartilage tissues.
Interpretation
Although TGFβ signaling pathway is known to prevent hypesrtrophy and differentiation of chondrocytes in healthy cartilage, the intricate sensitivity of OAHCs in weight-bearing cartilage to this pathway leads to their hypertrophic differentiation and the development of OA phenotype, even upon minimal stimulation by active TGFβ.
DOI: 10.15493/obsdb.0000.0225
title: Sea Temperature - Subsurface, Actual, Degrees Celsius for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 05 between 1.82m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Sea Temperature - Subsurface, Actual, Degrees Celsius for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 05 between 1.82m and 0.00m below sea level from 2021-03-26T12:00:21+02:00 to 2025-12-03T12:08:57+02:00 at -33.680720,25.769630 (+N-S,-W+E)
DOI: 10.17632/2mhkgtcpwj
title: Quartz-feldspar-lithic (QFL), and feldspar composition from the Cenozoic deposits of Weihe Basin, central China

description: The Quartz-feldspar-lithic (QFL), and feldspar composition data in the sediments can provide valuable information on the provenance and the weathering intensity of the sediments. Traditionally, the QFL composition is identified under binocular microscope. In this dataset, all data were obtained by a novel method of Quantitative Evaluation of Minerals by Scanning Electron Microscopy (QEMSCAN). We applied this methods on a nearly continuous Cenozoic deposits of the Weihe Basin, Central China, which can provide information about the history of weathering intensity over the past 46 Ma. 
Two tables of data are included. Table 1 is the Quartz-feldspar-lithic (QFL) data determined by QEMSCAN method. The grain counts of monocrystal and coarse grained k-feldspar, plagioclase, albite and quartz, carbonate, the number of all particles, and the calculated quartz-feldspar-lithic composition of all samples are shown. The sources and formations of the samples are also labeled. Table 2 is the number of grains of albite, K-feldspar, Ca-plagioclase and the ratios of Ca-plagioclase/all feldspar (Ca%), albite / K-feldspar (Na/K-feldspar), and Ca-plagioclase/albite (Ca/Na-feldspar) of all samples in this study are shown. The sources and formations of the samples are also labeled.
DOI: 10.5281/zenodo.18121884
title: Linked collectors and determiners for: Plant Specimen Database of Tama Forest Science Garden, Forestry and Forest Products Research Institute, Japan.

description: Natural history specimen data linked to collectors and determiners held within, "Plant Specimen Database of Tama Forest Science Garden, Forestry and Forest Products Research Institute, Japan". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/38e8b720-9074-4471-a016-73cae18a6c1c using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/38e8b720-9074-4471-a016-73cae18a6c1c. Formatted as a Frictionless Data package.
DOI: 10.15493/obsdb.0000.027f
title: Oxygen - Dissolved Oxygen Saturation, Actual, Percent for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 12 between 2.49m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Oxygen - Dissolved Oxygen Saturation, Actual, Percent for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 12 between 2.49m and 0.00m below sea level from 2021-03-26T12:50:25+02:00 to 2025-12-03T13:03:35+02:00 at -33.631640,25.736640 (+N-S,-W+E)
DOI: 10.17632/2mhkgtcpwj.1
title: Quartz-feldspar-lithic (QFL), and feldspar composition from the Cenozoic deposits of Weihe Basin, central China

description: The Quartz-feldspar-lithic (QFL), and feldspar composition data in the sediments can provide valuable information on the provenance and the weathering intensity of the sediments. Traditionally, the QFL composition is identified under binocular microscope. In this dataset, all data were obtained by a novel method of Quantitative Evaluation of Minerals by Scanning Electron Microscopy (QEMSCAN). We applied this methods on a nearly continuous Cenozoic deposits of the Weihe Basin, Central China, which can provide information about the history of weathering intensity over the past 46 Ma. 
Two tables of data are included. Table 1 is the Quartz-feldspar-lithic (QFL) data determined by QEMSCAN method. The grain counts of monocrystal and coarse grained k-feldspar, plagioclase, albite and quartz, carbonate, the number of all particles, and the calculated quartz-feldspar-lithic composition of all samples are shown. The sources and formations of the samples are also labeled. Table 2 is the number of grains of albite, K-feldspar, Ca-plagioclase and the ratios of Ca-plagioclase/all feldspar (Ca%), albite / K-feldspar (Na/K-feldspar), and Ca-plagioclase/albite (Ca/Na-feldspar) of all samples in this study are shown. The sources and formations of the samples are also labeled.
DOI: 10.15493/obsdb.0000.024d
title: Turbidity, Actual, Formazin Nephelometric Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 04 between 2.12m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Turbidity, Actual, Formazin Nephelometric Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 04 between 2.12m and 0.00m below sea level from 2021-03-26T14:04:47+02:00 to 2025-12-03T13:51:58+02:00 at -33.698040,25.816220 (+N-S,-W+E)
DOI: 10.17632/vfw72cj42z
title: CTDP1 and RPB7 stabilize and license Pol II termination to reinitiation

description: The regulation of the transcription process has been investigated extensively, but how RNA Pol II terminates and reinitiates a new round remains elusive. Here, we employed mathematic modeling and time series sequencing to reveal that CTDP1 serves as a crucial regulator of Pol II termination-reinitiation recycling in mammalian cells. Mechanistically, RPB7 recruits CTDP1 to Pol II, where CTDP1 dephosphorylates Pol II. The phosphatase activity of CTDP1 is required for Pol II recycling. Then, RPB7 permits the hypophosphorylated Pol II to reinitiate transcription at gene promoters. The stability of recycling Pol II depends on the incorporation of RPB7, phosphorylation, CTD, the linker region of RPB1, and regulated by the E3 ligase Cullin 3. Our findings collectively demonstrate that phosphatase CTDP1 regulates the recycle of Pol II from termination to reinitiation by interacting with RPB7, potentially serving as a checkpoint for completing Pol II CTD phosphorylation-coupled RNA processing.
In this dataset, the raw data of Western blot, genotyping and imaging in our study was uploaded. The file name has the corresponding figure number in the paper with the detected protein's name (for Western blot) or its treatment condition. For cell imaging, images were acquired by Nikon A1R microscope. More details can be found in our paper.
DOI: 10.15493/obsdb.0000.021d
title: Oxygen - Dissolved Oxygen, Actual, Milligrams per liter for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 04 between 2.48m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Oxygen - Dissolved Oxygen, Actual, Milligrams per liter for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 04 between 2.48m and 0.00m below sea level from 2021-03-26T11:36:57+02:00 to 2025-12-03T11:41:23+02:00 at -33.696160,25.794970 (+N-S,-W+E)
DOI: 10.17632/vfw72cj42z.1
title: CTDP1 and RPB7 stabilize and license Pol II termination to reinitiation

description: The regulation of the transcription process has been investigated extensively, but how RNA Pol II terminates and reinitiates a new round remains elusive. Here, we employed mathematic modeling and time series sequencing to reveal that CTDP1 serves as a crucial regulator of Pol II termination-reinitiation recycling in mammalian cells. Mechanistically, RPB7 recruits CTDP1 to Pol II, where CTDP1 dephosphorylates Pol II. The phosphatase activity of CTDP1 is required for Pol II recycling. Then, RPB7 permits the hypophosphorylated Pol II to reinitiate transcription at gene promoters. The stability of recycling Pol II depends on the incorporation of RPB7, phosphorylation, CTD, the linker region of RPB1, and regulated by the E3 ligase Cullin 3. Our findings collectively demonstrate that phosphatase CTDP1 regulates the recycle of Pol II from termination to reinitiation by interacting with RPB7, potentially serving as a checkpoint for completing Pol II CTD phosphorylation-coupled RNA processing.
In this dataset, the raw data of Western blot, genotyping and imaging in our study was uploaded. The file name has the corresponding figure number in the paper with the detected protein's name (for Western blot) or its treatment condition. For cell imaging, images were acquired by Nikon A1R microscope. More details can be found in our paper.
DOI: 10.15493/obsdb.0000.026f
title: Inorganic Carbon - pH, Actual, Potential of Hydrogen for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 09 between 2.07m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Inorganic Carbon - pH, Actual, Potential of Hydrogen for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 09 between 2.07m and 0.00m below sea level from 2021-03-26T13:17:21+02:00 to 2025-12-03T13:23:13+02:00 at -33.680720,25.769630 (+N-S,-W+E)
DOI: 10.17632/bjkbjtf3vk
title: A filling rig for liquid and gas working fluids for two-phase thermal management systems

description: Two-phase cooling devices are used to remove and dissipate heat from high power-density electronic systems to maintain them within their operating temperature limits. The manufacture of these devices, such as heat pipes, thermosyphons or vapour chambers, involves firstly removing any internal air or non-condensable gases before charging with the required volume of working fluid. This paper presents detailed designs and operating instructions for a single bench-top station for use in a laboratory environment for the vacuum evacuation, degassing and charging of these devices. Two configurations allow for the filling of fluids which are either liquids or gases at standard temperature and pressure conditions. For liquids, the dispensed volume can be measured directly on an integrated burette, while the method of vapour transfer is used for gases.

The hardware was demonstrated by filling multiple thermosyphon devices with a number of common working fluids used in two-phase systems, including water, acetone and ammonia. It was shown to deliver precise and repeatable filling volumes with average differences compared to target volumes of 1.7% and 10.5% for liquids and gases respectively. The design is intended to be highly customisable where its size can be modified to accommodate filling volume requirements for different applications.

This repository contains the necessary design files related to the hardware. This includes the assembly drawings, electrical schematics, CAD and 3-D printing models, and python software scripts.
DOI: 10.15493/obsdb.0000.0212
title: Conductivity, Actual, MicroSiemens per centimetre for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 01 between 1.24m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Conductivity, Actual, MicroSiemens per centimetre for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 01 between 1.24m and 0.00m below sea level from 2021-03-26T09:43:08+02:00 to 2025-12-03T10:09:33+02:00 at -33.709340,25.841160 (+N-S,-W+E)
DOI: 10.17632/bjkbjtf3vk.1
title: A filling rig for liquid and gas working fluids for two-phase thermal management systems

description: Two-phase cooling devices are used to remove and dissipate heat from high power-density electronic systems to maintain them within their operating temperature limits. The manufacture of these devices, such as heat pipes, thermosyphons or vapour chambers, involves firstly removing any internal air or non-condensable gases before charging with the required volume of working fluid. This paper presents detailed designs and operating instructions for a single bench-top station for use in a laboratory environment for the vacuum evacuation, degassing and charging of these devices. Two configurations allow for the filling of fluids which are either liquids or gases at standard temperature and pressure conditions. For liquids, the dispensed volume can be measured directly on an integrated burette, while the method of vapour transfer is used for gases.

The hardware was demonstrated by filling multiple thermosyphon devices with a number of common working fluids used in two-phase systems, including water, acetone and ammonia. It was shown to deliver precise and repeatable filling volumes with average differences compared to target volumes of 1.7% and 10.5% for liquids and gases respectively. The design is intended to be highly customisable where its size can be modified to accommodate filling volume requirements for different applications.

This repository contains the necessary design files related to the hardware. This includes the assembly drawings, electrical schematics, CAD and 3-D printing models, and python software scripts.
DOI: 10.15493/obsdb.0000.024a
title: Salinity - Subsurface, Actual, Practical Salinity Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 04 between 2.12m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Salinity - Subsurface, Actual, Practical Salinity Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 04 between 2.12m and 0.00m below sea level from 2021-03-26T14:04:47+02:00 to 2025-12-03T13:51:58+02:00 at -33.698040,25.816220 (+N-S,-W+E)
DOI: 10.15493/obsdb.0000.0288
title: Turbidity, Actual, Formazin Nephelometric Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 02 between 4.05m and 0.00m below sea level from 2021-06-10 to 2025-12-03

description: Turbidity, Actual, Formazin Nephelometric Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 02 between 4.05m and 0.00m below sea level from 2021-06-10T13:15:43+02:00 to 2025-12-03T10:33:21+02:00 at -33.691330,25.831960 (+N-S,-W+E)
DOI: 10.17632/9hd54s429t
title: Data for: Composition-Dependent Morphologies of CeO2 Nanoparticles in the Presence of Co-Adsorbed H2O and CO2: A Density Functional Theory Study

description: This repository provides additional data for the paper: 
Composition-Dependent Morphologies of CeO2 Nanoparticles in the Presence of Co-Adsorbed H2O and CO2: A Density Functional Theory Study
Nanoscale, 2024, DOI: 10.1039/D4NR01296H
Samuel Moxon, Adam Symington, Joshua Tse, Joseph Flitcroft, Jonathan Skelton, Lisa J. Gillie, David J. Cooke, Stephen C. Parker, and Marco Molinari
DOI: 10.17632/9hd54s429t.1
title: Data for: Composition-Dependent Morphologies of CeO2 Nanoparticles in the Presence of Co-Adsorbed H2O and CO2: A Density Functional Theory Study

description: This repository provides additional data for the paper: 
Composition-Dependent Morphologies of CeO2 Nanoparticles in the Presence of Co-Adsorbed H2O and CO2: A Density Functional Theory Study
Nanoscale, 2024, DOI: 10.1039/D4NR01296H
Samuel Moxon, Adam Symington, Joshua Tse, Joseph Flitcroft, Jonathan Skelton, Lisa J. Gillie, David J. Cooke, Stephen C. Parker, and Marco Molinari
DOI: 10.15493/obsdb.0000.0217
title: Oxygen - Dissolved Oxygen, Actual, Milligrams per liter for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 03 between 2.13m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Oxygen - Dissolved Oxygen, Actual, Milligrams per liter for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 03 between 2.13m and 0.00m below sea level from 2021-03-26T10:56:58+02:00 to 2025-12-03T11:09:48+02:00 at -33.711690,25.797350 (+N-S,-W+E)
DOI: 10.17632/9pkcvm48z3
title: Data for: Composition-Dependent Morphology of Stoichiometric and Oxygen Deficient PuO2 Nanoparticles in the Presence of H2O and CO2: A Density-Functional Theory Study

description: This repository provides additional data for the paper: 
Composition-Dependent Morphology of Stoichiometric and Oxygen Deficient PuO2 Nanoparticles in the Presence of H2O and CO2: A Density-Functional Theory Study 
In Applied Surface Science, 2024
Samuel Moxon,a Joseph Flitcroft,b Lisa J. Gillie,a David J. Cooke,a Jonathan Skelton,b Stephen C. Parker,c and Marco Molinaria,*
a Department of Physical and Life Sciences, University of Huddersfield, Queensgate, Huddersfield, HD1 3DH, UK
b Department of Chemistry, University of Manchester, Manchester M13 9PL, UK
c Department of Chemistry, University of Bath, Claverton Down, Bath, BA2 7AY, UK
* Corresponding author: m.molinari@hud.ac.uk
DOI: 10.15493/obsdb.0000.00c5
title: Wind Speed, Average, Meters per second for Constantiaberg, Constantiaberg automated weather station 889.00m above sea level from 2013-10-28 to 2025-12-15

description: Wind Speed, Average, Meters per second for Constantiaberg, Constantiaberg automated weather station 889.00m above sea level from 2013-10-28T12:00:00+02:00 to 2025-12-15T14:00:00+02:00 at -34.055000,18.387400 (+N-S,-W+E)
DOI: 10.17632/9pkcvm48z3.1
title: Data for: Composition-Dependent Morphology of Stoichiometric and Oxygen Deficient PuO2 Nanoparticles in the Presence of H2O and CO2: A Density-Functional Theory Study

description: This repository provides additional data for the paper: 
Composition-Dependent Morphology of Stoichiometric and Oxygen Deficient PuO2 Nanoparticles in the Presence of H2O and CO2: A Density-Functional Theory Study 
In Applied Surface Science, 2024
Samuel Moxon,a Joseph Flitcroft,b Lisa J. Gillie,a David J. Cooke,a Jonathan Skelton,b Stephen C. Parker,c and Marco Molinaria,*
a Department of Physical and Life Sciences, University of Huddersfield, Queensgate, Huddersfield, HD1 3DH, UK
b Department of Chemistry, University of Manchester, Manchester M13 9PL, UK
c Department of Chemistry, University of Bath, Claverton Down, Bath, BA2 7AY, UK
* Corresponding author: m.molinari@hud.ac.uk
DOI: 10.15493/obsdb.0000.024e
title: Oxygen - Dissolved Oxygen Saturation, Actual, Percent for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 05 between 2.43m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Oxygen - Dissolved Oxygen Saturation, Actual, Percent for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Salinity 05 between 2.43m and 0.00m below sea level from 2021-03-26T13:50:41+02:00 to 2025-12-03T13:43:38+02:00 at -33.711690,25.797350 (+N-S,-W+E)
DOI: 10.17632/3hwx68h2ny
title: Data for: Strain Effects on the Adsorption of Water on Cerium Dioxide Surfaces and Nanoparticles: A Modelling Outlook

description: This repository has additional data for the paper: Strain Effects on the Adsorption of Water on Cerium Dioxide Surfaces and Nanoparticles: A Modelling Outlook

Sidra Munir*,1, Khoa Minh Ta1, Thomas Smith1, Lisa J. Gillie1, David J. Cooke1, Stephen C. Parker,2 and Marco Molinari*,1
1Department of Physical and Life Sciences, University of Huddersfield, Queensgate, Huddersfield HD1 3DH, UK 
2Department of Chemistry, University of Bath, Claverton Down, Bath BA2 7AY, UK
*Corresponding authors: sidra.munir@hud.ac.uk, m.molinari@hud.ac.uk 

A list of adsorption configurations are provided in the paper. Miller indices {hkl} represent {100}, {110}, {111} stochiometric (S) surfaces. X% represent an unstrained (0%) and strain (-5% - 5%) imposed on the surfaces. The formula H2O represents the adsorbed species. The letter M and D represent the molecular and dissociative adsorption of H2O molecule. 1, 2, 3, 4 adsorbed water molecule corresponds to 25, 50, 75 and 100% water coverage. The detail on how this data is generated can be found in the manuscript. 
CONTCAR files in the text format are produced using the Vienna Ab initio Simulation Package (VASP) code.[1-3] The raw VASP energies of the said configurations are provided in the table below. 

References
[1] Kresse, G.; Furthmüller, J. Efficient iterative schemes for ab initio total-energy calculations using a plane-wave basis set. Phys. Rev. B. 1996, 54(16), 11169–11186.
[2] Kresse, G.; Hafner, J. Ab initio molecular dynamics for liquid metals. Phys. Rev. B. 1993, 47(1), 558–561.
[3] Kresse, G.; Furthmüller, J. Efficiency of ab-initio total energy calculations for metals and semiconductors using a plane-wave basis set. Comput. Mater. Sci. 1996, 6(1), 15–50.
DOI: 10.15493/obsdb.0000.0226
title: Salinity - Subsurface, Actual, Practical Salinity Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 05 between 1.82m and 0.00m below sea level from 2021-03-26 to 2025-12-03

description: Salinity - Subsurface, Actual, Practical Salinity Unit for Estuaries, Multiparameter Meters, Sundays Estuary, Sundays Biological 05 between 1.82m and 0.00m below sea level from 2021-03-26T12:00:21+02:00 to 2025-12-03T12:08:57+02:00 at -33.680720,25.769630 (+N-S,-W+E)