cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/cxs7xwjpfj.1
title: Data S1 - Nanostring

description: Innate immune transcriptional signature during the time course of SARS-COV-2 infection in Human Airway Epithelia (MOI 0.1 24, 48 72hpi). After on-column mRNA extraction, gene expression levels were evaluated using two customized NanoString nCounter Gene Expression Panels: “immune response” (96 genes) and “type III IFNs” (12 genes). Data processing and normalization were performed with nSolver analysis software (version 4.0, NanoString technologies) and results are expressed in fold change induction compared to the mock condition. Heatmap and Principal Component Analysis (PCA) were produced using Genomics Suite 7 (Partek, St Louis, MO, USA). After on-columns mRNA extraction, expression was evaluated using two different gene panels (composed of 96 and 12 genes respectively) using the Nanostring technology. Data treatment and normalization ware performed with nSolver analysis software (version 4.0, NanoString technologies). Results are expressed in counts and fold change induction compared to the mock condition.
DOI: 10.17632/dc97zn6gzc.2
title: Data from a botanical survey of the Anogeissus cloud forest in Jabal Qamar, Dhofar, Oman

description: This data was collected from thirty sites in Jabal Qamar, Dhofar, Oman in September 2016-April 2017. Sites were located between 300 and 900 m above sea level in the altitudinal range of the Anogeissus cloud forest, which is endemic to the central South Arabian mountains in Yemen and Oman. The data comprises measurements of 120 adult and 120 juvenile woody plants and 30 quadrat samples at each site, totalling 7200 woody plants and 900 quadrat samples. Measurements include; location (lat, long, elevation), species, height, living/dead, PCQ distance, diameter at root collar, diameter at breast height (where applicable), density, cover, frequency, importance, bark-stripped area, browsing pressure, broken limbs, bent limbs, percentage cover of grasses, herbs, rock and bare ground, canopy cover, sward height and percentage cover of the three dominant ground species.
DOI: 10.17632/pc8z47jzm5.4
title: Supplemental data for "Differential Histone Distribution Patterns in Induced Asymmetrically Dividing Mouse Embryonic Stem Cells"

description: Those supplemental data includes Figure S5-S11, table 1-3 and movie S1, which are complementary to the main-text figures 1-4 and supplemental figure S1-S4. Figure S5: Validation of the E14TG2a mESC line used in this study. (A) Representative images of the mESC morphology and alkaline phosphatase (AP) staining when cultured in complete medium (CM) with LIF+2i. (B) Cells cultured in N2B27 medium with bFGF/ActivinA for five days show EpiSCs cell morphology and decreased AP staining. (C) Growth curve of mESCs and mEpiSCs, with cell doubling time indicated in the plot. Scale bar in (A) and (B): 100 um. Figure S6: Expression of histone-Dendra2 fusion proteins have no apparent effect on the cell cycle progression of mESCs. (A) Western blot analysis of non-transgenic wild-type (WT) mESCs and transgenic mESCs expressing H3-Dendra2, H4-Dendra2, H2A-Dendra2, H2B-Dendra2 and H3.3-Dendra2, respectively. The sizes of histone proteins are ~15 KD, the sizes for Histone-Dendra2 fusion proteins are ~40 KD, as indicated in the panel. (B) The cell cycle profiles obtained using DNA content analysis (PI staining) with FACS (Fluorescence Activated Cell Sorting). (C) Growth curves of non-transgenic WT-mESCs and each histone-Dendra2 transgenic mESC lines, with cell doubling times indicated in the panel. (D) The percentage of EdU-positive cells with 30-minute EdU pulse labeling in H3-Dendra2, H4-Dendra2, H2A-Dendra2, H2B-Dendra2 and H3.3-Dendra2 transgenic mESCs. (E) The “stemness” identity of the mESC line carrying the H3-Dendra2 transgene, confirmed by immunofluorescent signals for ESC markers, including Nanog, Rex1, Oct4, Sox2 and SSEA-1. Scale bar in (E): 20 um. Figure S7: Schematic depiction of a model for different histone distribution patterns with Wnt3a-induced ACD of mESCs. (A) With Wnt3a bead, non-overlapping histone H3 and H4 regions could be explained by regional conservative mode of nucleosome reassembly during DNA replication, shown as [Model (1) in (E)]. (B) The separable signals are lost in symmetrically dividing mESCs, which could be due to dispersive mode of nucleosome reassembly during DNA replication, shown as [Model (2) in (E)]. (C) The symmetric histone distribution patterns of H2A and H2B during ACD of mESCs. (D) DNA replication-independent model, which applies to H3.3. (E) Distinct nucleosome reassembly modes [(1) conservative versus (2) dispersive] during DNA replication could have regional specificities: the conservative model could occur at gene regions that need to be differentially expressed in the two daughter cells derived from Wnt3a-induced asymmetrically dividing mESCs, such as stemness genes, differentiation genes, or Wnt signaling pathway target genes. On the other hand, for those genes whose expression is similar between the two daughter cells, such as housekeeping genes and genes silenced in mESCs, the dispersive model could be applied to make sure the sister chromatids inherit the identical epigenetic information.
DOI: 10.17632/pc8z47jzm5.5
title: Supplemental data for "Differential Histone Distribution Patterns in Induced Asymmetrically Dividing Mouse Embryonic Stem Cells"

description: Those supplemental data includes figures, raw image galleries, quantification tables and movie, which are complementary to the main-text figures 1-4 and supplemental figure S1-S4. Validation of the E14TG2a mESC line used in this study. (A) Representative images of the mESC morphology and alkaline phosphatase (AP) staining when cultured in complete medium (CM) with LIF+2i. (B) Cells cultured in N2B27 medium with bFGF/ActivinA for five days show EpiSCs cell morphology and decreased AP staining. (C) Growth curve of mESCs and mEpiSCs, with cell doubling time indicated in the plot. Scale bar in (A) and (B): 100 um. Expression of histone-Dendra2 fusion proteins have no apparent effect on the cell cycle progression of mESCs. (A) Western blot analysis of non-transgenic wild-type (WT) mESCs and transgenic mESCs expressing H3-Dendra2, H4-Dendra2, H2A-Dendra2, H2B-Dendra2 and H3.3-Dendra2, respectively. The sizes of histone proteins are ~15 KD, the sizes for Histone-Dendra2 fusion proteins are ~40 KD, as indicated in the panel. (B) The cell cycle profiles obtained using DNA content analysis (PI staining) with FACS (Fluorescence Activated Cell Sorting). (C) Growth curves of non-transgenic WT-mESCs and each histone-Dendra2 transgenic mESC lines, with cell doubling times indicated in the panel. (D) The percentage of EdU-positive cells with 30-minute EdU pulse labeling in H3-Dendra2, H4-Dendra2, H2A-Dendra2, H2B-Dendra2 and H3.3-Dendra2 transgenic mESCs. (E) The “stemness” identity of the mESC line carrying the H3-Dendra2 transgene, confirmed by immunofluorescent signals for ESC markers, including Nanog, Rex1, Oct4, Sox2 and SSEA-1. Scale bar in (E): 20 um. Schematic depiction of a model for different histone distribution patterns with Wnt3a-induced ACD of mESCs. (A) With Wnt3a bead, non-overlapping histone H3 and H4 regions could be explained by regional conservative mode of nucleosome reassembly during DNA replication, shown as [Model (1) in (E)]. (B) The separable signals are lost in symmetrically dividing mESCs, which could be due to dispersive mode of nucleosome reassembly during DNA replication, shown as [Model (2) in (E)]. (C) The symmetric histone distribution patterns of H2A and H2B during ACD of mESCs. (D) DNA replication-independent model, which applies to H3.3. (E) Distinct nucleosome reassembly modes [(1) conservative versus (2) dispersive] during DNA replication could have regional specificities: the conservative model could occur at gene regions that need to be differentially expressed in the two daughter cells derived from Wnt3a-induced asymmetrically dividing mESCs, such as stemness genes, differentiation genes, or Wnt signaling pathway target genes. On the other hand, for those genes whose expression is similar between the two daughter cells, such as housekeeping genes and genes silenced in mESCs, the dispersive model could be applied to make sure the sister chromatids inherit the identical epigenetic information.
DOI: 10.17632/kr7fb26b39.1
title: Black_carbon

description: Processed data at both mountian and surface sites around Beijing during wintertime 2019
DOI: 10.17632/mvy4tjfdcj.1
title: Data for: The effect of perineural dexamethasone on rebound pain after ropivacaine single-injection nerve block: A randomized controlled trial
DOI: 10.17632/4ydzgp7m46.1
title: Supplementary Table 1: Tools for assessment of severity of Hidradenitis suppurativa

description: Tools for assessment of severity of Hidradenitis suppurativa
DOI: 10.17632/4ydzgp7m46.2
title: Supplementary Table 1: Tools for assessment of severity of Hidradenitis suppurativa
DOI: 10.17632/n8vx33c9k3.1
title: Screening for novel adhesin proteins of Leptospira interrogans

description: Intra-family specific antigenic determinants of outer membrane proteins were screened using KEGG genome database and NCBI and then scrutinized based on VaxiJen and virulence scores. The selected novel targets (Conserved hypothetical proteins) were studied for their interaction with host extracellular matrix components by molecular docking studies. Novel pathogen specific molecules were screened for B cell linear epitopes and specific target peptide (KNSMP01) was synthesized and immunized in rabbit to get the hyperimmune sera. It has been evaluated for its antigenic potential and compatibility in human cells by in vitro.
DOI: 10.5281/zenodo.3888920
title: RIBuild: Analysis of models for failure

description: The dataset consists of data used for analysing a number of models, each related to a specific failure mode or failure mechanism that affects the material properties of building materials. Three RIBuild partners (KUL, UNIVPM, RISE) were responsible of performing laboratory tests to evaluate the models chosen to characterize a specific failure mode (frost, algae, mould). One RIBuild partner (DTU/AAU) used measurement data from a WP3 test setup to validate simulations of wood rot in wooden beam ends. Further details to be found in RIBuild deliverable D2.2. Overview of data files to be found in 'RIBuild data WP2 Model analysis' as part of this dataset.
DOI: 10.5281/zenodo.3888919
title: RIBuild: Analysis of models for failure

description: The dataset consists of data used for analysing a number of models, each related to a specific failure mode or failure mechanism that affects the material properties of building materials. Three RIBuild partners (KUL, UNIVPM, RISE) were responsible of performing laboratory tests to evaluate the models chosen to characterize a specific failure mode (frost, algae, mould). One RIBuild partner (DTU/AAU) used measurement data from a WP3 test setup to validate simulations of wood rot in wooden beam ends. Further details to be found in RIBuild deliverable D2.2. Overview of data files to be found in 'RIBuild data WP2 Model analysis' as part of this dataset.
DOI: 10.17632/nd5sy8t32r.1
title: GGNTm example Code
DOI: 10.17632/gxhvrjfdsb.1
title: Data for: 3637428

description: CAMEL ANALYSIS OF SELECTED PRIVATE AND PUBLIC SECTOR BANKS IN INDIA. An analysis through CAMEL analysis of 10 banks selected according to the high asset value. 5 banks each from private and public sector banks. The period of study from 2014-15 to 2019-20.
DOI: 10.17632/dc6m74vyt6.3
title: ‘Dr. Google, what is that on my skin?’ – Internet searches related to skin problems: Google Trends data from 2004 to 2019

description: Title: ‘Dr. Google, what is that on my skin?’ – Internet searches related to skin problems: Google Trends data from 2004 to 2019 Authors: Mikołaj Kamiński 1, Linda Tizek 2, Alexander Zink 2 Affiliations: 1 District Hospital in Oborniki, Szpitalna 2, 64-600 Oborniki, Poland 2 Technical University of Munich, School of Medicine, Department of Dermatology and Allergy, Munich, Germany Highlights &gt; Google Trends presents the popularity of Google queries since 2004 &gt; The study analyzed searches of Googles users related to skin symptoms &gt; Pruritus, perspiration, and skin rash gained the most attention &gt; The interest in all manifestations increases over time &gt; The searches presented explainable seasonal variations
DOI: 10.5281/zenodo.3889733
title: RIBuild: Laboratory based investigations of the materials' water activity and pH relative to mould growth

description: This dataset contains measurements of relative humidity and temperature in small test walls, from mycometer test and from measurements of moisture content in materials in the test walls. The objective of the study is to find the causes and conditions that lead to mould growth between a existing wall and installed insulation systems, and to suggest solutions to prevent mould growth.The study examines whether the alkaline environment (pH&gt; 9), which may occur in the adhesive glue joint between the existing wall and the installed insulation is sufficient to prevent mould growth,even if the moisture (water activity (aw)) at the interface exceeds the levels (aw&gt; 0.75) commonly considered critical for mould growth. The dataset also contains extensive photo documentation of preparations and carrying out the experiments. Further details to be found in appendix 5 of RIBuild deliverable 2.2 and in<br> Jensen, N.F., Bjarløv, S.P., Rode, C., Andersen, B., Møller, E.B. (submitted 2020). Laboratory based investigation of the materials’ water activity and pH relative to fungal growth in internally insulated solid masonry walls. Indoor Air. Wiley. Overview of data files to be found in 'RIBuild data WP2_DTU Small walls' as part of this dataset.
DOI: 10.5281/zenodo.3889732
title: RIBuild: Laboratory based investigations of the materials' water activity and pH relative to mould growth

description: This dataset contains measurements of relative humidity and temperature in small test walls, from mycometer test and from measurements of moisture content in materials in the test walls. The objective of the study is to find the causes and conditions that lead to mould growth between a existing wall and installed insulation systems, and to suggest solutions to prevent mould growth.The study examines whether the alkaline environment (pH&gt; 9), which may occur in the adhesive glue joint between the existing wall and the installed insulation is sufficient to prevent mould growth,even if the moisture (water activity (aw)) at the interface exceeds the levels (aw&gt; 0.75) commonly considered critical for mould growth. The dataset also contains extensive photo documentation of preparations and carrying out the experiments. Further details to be found in appendix 5 of RIBuild deliverable 2.2 and in<br> Jensen, N.F., Bjarløv, S.P., Rode, C., Andersen, B., Møller, E.B. (submitted 2020). Laboratory based investigation of the materials’ water activity and pH relative to fungal growth in internally insulated solid masonry walls. Indoor Air. Wiley. Overview of data files to be found in 'RIBuild data WP2_DTU Small walls' as part of this dataset.
DOI: 10.5281/zenodo.3890050
title: RIBuild: Hotbox coldbox experiment with solid wall in combination with wooden beam ends at KU Leuven

description: This dataset contains measurement from a hotbox coldbox experiment involving a solid wall wooden beam end connection at KU Leuven. The focus of this study has been on the impact of an air gap between finishing and beam end, involving different internal insulation systems. Further, it includes photo documentation of construction and installation of sensors. Further details to be found in RIBuild deliverable D3.1. Overview of data files to be found in 'RIBuild data WP3_KUL Test stand' as part of this dataset. Further data on hotbox coldbox experiments can be found in the dataset 'RIBuild: Hotbox coldbox experiment with solid wall in combination with wooden beam ends at TU Dresden' (https://zenodo.org/deposit/3904836). Data from measurements on solid wall wooden beam end connections at an outdoor test unit can be found in the dataset 'RIBuild: Outdoor test stand with solid wall in combination with wooden beam ends at DTU' (https://zenodo.org/deposit/3903524).
DOI: 10.5281/zenodo.3862761
title: Carbon-Phosphorous Lyase Enzyme Activity Profiles in the North Pacific Subtropical Gyre

description: These datasets contain oceanic enzyme activity measurements of Carbon-Phosphorus (C-P) lyase, a catalytic enzyme pathway, which cleaves C-P bonds, allowing microbial utilization of phosphonates as a phosphorous source. These activity measurements were made in the North Pacific Subtropical Gyre. Samples were collected in the top 1000 m of the water column on KM1717, KM1821, and KM2001 cruises and in the top 225 m of the water column on FK180310-2.
DOI: 10.5281/zenodo.3890049
title: RIBuild: Hotbox coldbox experiment with solid wall in combination with wooden beam ends at KU Leuven

description: This dataset contains measurement from a hotbox coldbox experiment involving a solid wall wooden beam end connection at KU Leuven. The focus of this study has been on the impact of an air gap between finishing and beam end, involving different internal insulation systems. Further, it includes photo documentation of construction and installation of sensors. Further details to be found in RIBuild deliverable D3.1. Overview of data files to be found in 'RIBuild data WP3_KUL Test stand' as part of this dataset. Further data on hotbox coldbox experiments can be found in the dataset 'RIBuild: Hotbox coldbox experiment with solid wall in combination with wooden beam ends at TU Dresden' (https://zenodo.org/deposit/3904836). Data from measurements on solid wall wooden beam end connections at an outdoor test unit can be found in the dataset 'RIBuild: Outdoor test stand with solid wall in combination with wooden beam ends at DTU' (https://zenodo.org/deposit/3903524).
DOI: 10.17632/6c56r7ngyb.2
title: Data for: Selection or drift: the population biology underlying transposon insertion sequencing experiments

description: Code to create the figures in article "Selection or drift: the population biology underlying transposon insertion sequencing experiments".
DOI: 10.17632/nwmyvyyy2v.7
title: Data for: Predicting the Impacts of Mutations on Protein-Ligand Affinity Based on Molecular Dynamics Simulations and Machine Learning Methods

description: Statistics of the original data set, including the mutation type, the ID of the corresponding mutant in the protein data bank (PDB), the PDB ID of the wild type protein, the ID of the ligand, the type of ligand-binding sites (multiple or single), the impact of mutation on the protein-ligand affinity (decreased or increased) and the affinity fold change. For mutation types, XIY means a substitution from residue X to residue Y at position I, and XIY/AIIB indicates a dual mutation at positions I and II.
DOI: 10.5281/zenodo.3910750
title: PDX1-/NKX6.1+ progenitors derived from human pluripotent stem cells as a novel source of insulin-secreting cells

description: PDX1-/NKX6.1+ progenitors derived from hESCs were differentiated to pancreatic beta cell stage where they generated glucose-responsive, insulin-secreting cells. The transcriptome profile of hESC- derived PDX1-/NKX6.1+ progenitors were compared with hPSC-derived PDX1+/NKX6.1+ pancreatic progenitors as described in the article entitled "<strong>PDX1<sup>-</sup>/NKX6.1<sup>+</sup>progenitors derived from human pluripotent stem cells as a novel source of insulin-secreting cells</strong>" by Memon et al. 2020. Furthermore, beta cells derived from PDX1-/NKX6.1+ progenitors (3D-beta) were compared with their own endocrine progenitors at an earlier stage (stage 5, 3D-S5) to map their development. The file name is : Sample name_replicate_sample ID_read direction_001 where: -3D-beta: insulin-expressing cells derived from self-detached, 3D, PDX1-/NKX6.1+ progenitors -3D-S5: endocrine progenitors from stage 5, derived from self-detached, 3D, PDX1-/NKX6.1+ progenitors - RNA-seq data were generated from two biological replicates in most cases. - Read direction: R1 (Forward), R2 (Reverse).
DOI: 10.5281/zenodo.3910749
title: PDX1-/NKX6.1+ progenitors derived from human pluripotent stem cells as a novel source of insulin-secreting cells

description: PDX1-/NKX6.1+ progenitors derived from hESCs were differentiated to pancreatic beta cell stage where they generated glucose-responsive, insulin-secreting cells. The transcriptome profile of hESC- derived PDX1-/NKX6.1+ progenitors were compared with hPSC-derived PDX1+/NKX6.1+ pancreatic progenitors as described in the article entitled "<strong>PDX1<sup>-</sup>/NKX6.1<sup>+</sup>progenitors derived from human pluripotent stem cells as a novel source of insulin-secreting cells</strong>" by Memon et al. 2020. Furthermore, beta cells derived from PDX1-/NKX6.1+ progenitors (3D-beta) were compared with their own endocrine progenitors at an earlier stage (stage 5, 3D-S5) to map their development. The file name is : Sample name_replicate_sample ID_read direction_001 where: -3D-beta: insulin-expressing cells derived from self-detached, 3D, PDX1-/NKX6.1+ progenitors -3D-S5: endocrine progenitors from stage 5, derived from self-detached, 3D, PDX1-/NKX6.1+ progenitors - RNA-seq data were generated from two biological replicates in most cases. - Read direction: R1 (Forward), R2 (Reverse).
DOI: 10.5061/dryad.76hdr7st6
title: Soil carbon, nitrogen, and phosphorus cycling microbial populations and their resistance to global change depend on soil C:N:P stoichiometry

description: Maintaining stability of ecosystem functions to global change calls for a better understanding regulatory factors of functionally specialized microbial-groups and their population-response to disturbance. Here, we explored this issue by collecting soils from 54 managed ecosystems in China and conducting a microcosm experiment. Soil carbon:nitrogen:phosphorus (C:N:P) stoichiometry imparted a greater effect on the abundance of microbial-groups associated with main C, N and P biogeochemical processes in comparison with the mean annual temperature and precipitation. Nitrogen cycling genes, including bacterial amoA-b, nirS, narG and norB, exhibited the highest genetic resistance to N deposition. The amoA-a and nosZ genes exhibited the highest resistance to warming and drying-wetting cycles, respectively. Soil total C, N and P contents, and their ratios had a strong direct effect on the genetic resistance of microbial-groups, which was dependent on the mean annual temperature and precipitation. Specifically, soil C:P ratio exerted the main predictor and drivers of N cycling genetic resistance to N deposition. Soil total C and N contents, and their ratios were the main predictors of P cycling genetic resistance to the three aforementioned disturbances. Overall, our work highlights the importance of soil stoichiometric balance for maintaining the ability of ecosystem functions to withstand global change.
DOI: 10.17632/8kptw2k475.3
title: Data for: Optimization of solvent properties for post-combustion CO2 capture using process simulation

description: Process simulations have been used to identify the most important properties of the absorbent for post-combustion CO2 recovery and provide valuable insight for further solvent development. The process model has been validated by pilot plant data. Afterward, the effects of various solvent physicochemical properties including liquid density, surface tension, thermal conductivity, viscosity, volatility, heat capacity, CO2 solubility, enthalpy of solution, solvent strength and absorption kinetics on the CO2 capture performance have been investigated separately. Then a viscous solvent with low volatility and slow absorption kinetics is assumed to service a 450 MW natural gas combined cycle power plant. Combined with an economic analysis, sensitivity studies of solvent properties are employed for this water-lean absorbent.