cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17863/cam.45964
title: Research data supporting "Widespread conservation and lineage-specific diversification of genome-wide DNA methylation patterns across arthropods"

description: This dataset includes the raw data underlying the analyses detailed in Lewis et al (2020) Widespread conservation and lineage-specific diversification of genome-wide DNA methylation patterns across arthropods. For full details of the methods used to generate the data, please refer to the preprint on biorxiv (https://www.biorxiv.org/content/10.1101/2020.01.27.920108v1). This is linked to the following grant IDs: RPG-2016-210 and MC-A652-5PY80. For descriptions of data files see the file README.txt
DOI: 10.15468/dl.admewt
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Chilo partellus Swinhoe, 1885",
 "Country is Kenya",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 9 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037626-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3786332_d11
title: Additional file 8: Table S6a. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Univariate and multivariate logistic regression of the second CRC patient cohort. (XLSX 9 kb)
DOI: 10.5281/zenodo.4805812
title: Impact of common sample pre-treatments on key soil microbial properties

description: Data and R scripts to the associated open access publication in Soil Biology and Biochemistry.


Based on five different paired sites (each with cropland and forest), the effects of six common pre-treatments were evaluated on 18O-CUE and associated parameters, i.e. respiration rate, soil microbial biomass C, total DNA extracted, and estimated abundances of fungi, bacteria and archaea. The six common pre-treatments were: (i) immediate analysis of field-fresh soil samples, and analysis following 14 d pre-incubation of soil samples that were (ii) field-fresh, (iii) air-dried, (iv) oven-dried (40 °C), (v) frozen at -20°C and (vi) frozen in situ (dry ice and subsequently liquid N2).


Please read info.txt for information on the content of individual files.


 
description: This work is part of the "Breaking the Ice" project funded by the German Research Foundation [grant number 401106790].
DOI: 10.5281/zenodo.4805813
title: Impact of common sample pre-treatments on key soil microbial properties

description: Data and R scripts to the associated open access publication in Soil Biology and Biochemistry.


Based on five different paired sites (each with cropland and forest), the effects of six common pre-treatments were evaluated on 18O-CUE and associated parameters, i.e. respiration rate, soil microbial biomass C, total DNA extracted, and estimated abundances of fungi, bacteria and archaea. The six common pre-treatments were: (i) immediate analysis of field-fresh soil samples, and analysis following 14 d pre-incubation of soil samples that were (ii) field-fresh, (iii) air-dried, (iv) oven-dried (40 °C), (v) frozen at -20°C and (vi) frozen in situ (dry ice and subsequently liquid N2).


Please read info.txt for information on the content of individual files.


 
description: This work is part of the "Breaking the Ice" project funded by the German Research Foundation [grant number 401106790].
DOI: 10.6084/m9.figshare.c.3786332_d10.v1
title: Additional file 7: Table S5. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Clinico-pathological features of the second CRC patient cohort. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3786332_d10
title: Additional file 7: Table S5. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Clinico-pathological features of the second CRC patient cohort. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3786332_d9
title: Additional file 6: Table S4b. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Univariate and multivariate analysis of the disease-specific survival for the first CRC patient cohort. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3786332_d9.v1
title: Additional file 6: Table S4b. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Univariate and multivariate analysis of the disease-specific survival for the first CRC patient cohort. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3786332_d8.v1
title: Additional file 5: Table S4a. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Univariate and multivariate logistic regression of the first CRC patient cohort. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3786332_d8
title: Additional file 5: Table S4a. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Univariate and multivariate logistic regression of the first CRC patient cohort. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3786332_d7
title: Additional file 4: Table S3. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Clinico-pathological characteristics of first CRC patient cohort. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3786332_d7.v1
title: Additional file 4: Table S3. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Clinico-pathological characteristics of first CRC patient cohort. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.c.3786332_d5
title: Additional file 2: Table S2. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Primer sequences used for qRT-PCR, RACE, siRNAs, and vector construction in this study. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3786332_d5.v1
title: Additional file 2: Table S2. of N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration

description: Primer sequences used for qRT-PCR, RACE, siRNAs, and vector construction in this study. (XLSX 11 kb)
DOI: 10.17863/cam.23164
title: Research data supporting "Oxygen Enhanced- and Dynamic Contrast Enhanced- Optoacoustic Tomography provide surrogate biomarkers of tumour vascular function, hypoxia and necrosis"

description: The data includes imaging data acquired with a MultiSpectral Optoacoustic Tomography scanner, central to the publication, together with Matlab code used to analyse it. Quantified histology data is also included, as well as the files used to generate the figures.
DOI: 10.6084/m9.figshare.c.3786359_d1.v1
title: Additional file 1: of A comprehensive proteogenomic study of the human Brucella vaccine strain 104 M

description: This file contains supplementary Tables S1-S9. Table S1. The 6 F translated genome database of B. abortus 104 M used in this study. Table S2. List of proteins identified in this study. Table S3. List of peptides identified in this study. Table S4. List of PSMs identified in this study. Table S5. List of hypothetical proteins identified in this study and function analysis. Table S6. List of orphan peptides identified in this study. Table S7. List of N-terminal acetylation identified in this study. Table S8. The codon usage of two chromosomes in B. abortus 104 M. Table S9. List of primers used for RT-PCR amplifications in this study. (XLSX 38564 kb)
DOI: 10.6084/m9.figshare.c.3743114_d2
title: MOESM11 of A nondestructive method to estimate the chlorophyll content of Arabidopsis seedlings

description: Additional file 11: S11. Raw data for fitting. The original data used for the chlorophyll content calculation with chemical extraction and RGB value, including 4 independent experiment data of the plates grown seedlings and 1 experiment for the plants grown in the soil.
DOI: 10.6084/m9.figshare.c.3743114_d7
title: MOESM3 of A nondestructive method to estimate the chlorophyll content of Arabidopsis seedlings

description: Additional file 3: S3. RGB_Measure.java This is the .java compiler for creating the .class file plug-in for imageJ to be used for the the RGB reads.
DOI: 10.6084/m9.figshare.c.3743114_d2.v1
title: MOESM11 of A nondestructive method to estimate the chlorophyll content of Arabidopsis seedlings

description: Additional file 11: S11. Raw data for fitting. The original data used for the chlorophyll content calculation with chemical extraction and RGB value, including 4 independent experiment data of the plates grown seedlings and 1 experiment for the plants grown in the soil.
DOI: 10.6084/m9.figshare.c.3743114_d1
title: MOESM10 of A nondestructive method to estimate the chlorophyll content of Arabidopsis seedlings

description: Additional file 10: S10. Leastsquareequation.m Script written for Matlab to apply the least square equation.
DOI: 10.6084/m9.figshare.c.3743114_d1.v1
title: MOESM10 of A nondestructive method to estimate the chlorophyll content of Arabidopsis seedlings

description: Additional file 10: S10. Leastsquareequation.m Script written for Matlab to apply the least square equation.
DOI: 10.6084/m9.figshare.c.3742406_d1.v1
title: Additional file 1: of A prediction model for lymph node metastases using pathologic features in patients intraoperatively diagnosed as stage I non-small cell lung cancer

description: Support file containing the Age ranges, Pathology, location, Differentiation, Tumor size 2.65 cm, Pleura invasion, Bronchus invasion, Multicentric invasion, Angiolymphatic invasion, Neural invasion and LNM (lymph node metastasis) described in categorical variables and Tumorsize, xβ and ŷ described in continuous variables. (XLSX 32 kb)
DOI: 10.17863/cam.59826
title: Research data supporting "Automated Calibration of a Poly(oxymethylene) Dimethyl Ether Oxidation Mechanism Using the Knowledge Graph Technology"

description: The zip file contains the "mechanism.txt" file, which is a chemical mechanism in CHEMKIN-format plain text file. The mechanism was calibrated using the developed framework in "Automated Calibration of a Poly(oxymethylene) Dimethyl Ether Oxidation Mechanism Using the Knowledge Graph Technology". An ontological representation for combustion experiments, OntoChemExp, was developed that allows for the semantic enrichment of experiments within the J-Park simulator (JPS, theworldavatar.com), an existing cross-domain knowledge graph. OntoChemExp is fully capable of supporting experimental results in the Process Informatics Model (PrIMe) database. A set of software agents are developed to perform experimental result retrieval, sensitivity analysis, and calibration tasks. It should be noted that the chemical model should only be used as a whole and individual rate parameters should not be used outside of this model. This particularly applies to reactions whose rates are well-established in the literature, with relatively narrow uncertainty bounds. See the main manuscript for more details.
DOI: 10.6084/m9.figshare.c.3742406_d1
title: Additional file 1: of A prediction model for lymph node metastases using pathologic features in patients intraoperatively diagnosed as stage I non-small cell lung cancer

description: Support file containing the Age ranges, Pathology, location, Differentiation, Tumor size 2.65 cm, Pleura invasion, Bronchus invasion, Multicentric invasion, Angiolymphatic invasion, Neural invasion and LNM (lymph node metastasis) described in categorical variables and Tumorsize, xβ and ŷ described in continuous variables. (XLSX 32 kb)
DOI: 10.6084/m9.figshare.c.3742382_d9
title: Additional file 8: of Revelation of mRNAs and proteins in porcine milk exosomes by transcriptomic and proteomic analysis

description: Proteins bioinformatics analysis. (XLSX 28 kb)
DOI: 10.6084/m9.figshare.c.3742382_d9.v1
title: Additional file 8: of Revelation of mRNAs and proteins in porcine milk exosomes by transcriptomic and proteomic analysis

description: Proteins bioinformatics analysis. (XLSX 28 kb)
DOI: 10.6084/m9.figshare.c.3714919_d8
title: Additional file 7: of Functional variation in allelic methylomes underscores a strong genetic contribution and reveals novel epigenetic alterations in the human epigenome

description: Allelic methylation in enhancer peaks. In this file, we report the ChromHMM bin and the allele-sepcific CpG methylation and RNA read coverage at CpGs within H3K27ac and H3K4me1 ChIP-Seq peaks. (XLSX 1899 kb)
DOI: 10.6084/m9.figshare.c.3714124_d1.v1
title: Additional file 1: Table S1. of Comparative genomics of Enterococcus spp. isolated from bovine feces

description: Reference sequences for contig ordering using progressive Mauve. Table S2. Clusters of Orthologous Groups (COGs) gene abundance profile overview for all 21 Enterococcus spp. isolated from bovine feces. Table S3. Raw antibiogram data from disk susceptibility testing conducted previously [10]. Table S4. Putative prophage detected in Enterococcus spp. isolated from bovine feces. Table S5. Presence and absence of CRISPR arrays and intact prophage in Enterococcus spp. isolated from bovine feces. Table S6. Direct repeat sequences of CRISPR arrays found in Enterococcus spp. isolated from bovine feces. Table S7. Spacer sequences of CRISPR arrays found in Enterococcus spp. isolated from bovine feces. (XLSX 466 kb)
DOI: 10.6084/m9.figshare.c.3714124_d1
title: Additional file 1: Table S1. of Comparative genomics of Enterococcus spp. isolated from bovine feces

description: Reference sequences for contig ordering using progressive Mauve. Table S2. Clusters of Orthologous Groups (COGs) gene abundance profile overview for all 21 Enterococcus spp. isolated from bovine feces. Table S3. Raw antibiogram data from disk susceptibility testing conducted previously [10]. Table S4. Putative prophage detected in Enterococcus spp. isolated from bovine feces. Table S5. Presence and absence of CRISPR arrays and intact prophage in Enterococcus spp. isolated from bovine feces. Table S6. Direct repeat sequences of CRISPR arrays found in Enterococcus spp. isolated from bovine feces. Table S7. Spacer sequences of CRISPR arrays found in Enterococcus spp. isolated from bovine feces. (XLSX 466 kb)
DOI: 10.6084/m9.figshare.c.3713995_d1
title: Additional file 1: of Effectiveness of autodissemination stations containing pyriproxyfen in reducing immature Aedes albopictus populations

description: Data generated and analysed in this study. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.c.3713995_d1.v1
title: Additional file 1: of Effectiveness of autodissemination stations containing pyriproxyfen in reducing immature Aedes albopictus populations

description: Data generated and analysed in this study. (XLSX 23 kb)
DOI: 10.15468/dl.2hq6js
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cochliomyia hominivorax (Coquerel, 1858)",
 "Country is Libya",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037627-241126133413365/datasets/export for details.
DOI: 10.6084/m9.figshare.c.3713959_d1.v1
title: Additional file 1: Table S1. of Sox9 transcriptionally regulates Wnt signaling in intestinal epithelial stem cells in hypomethylated crypts in the diabetic state

description: qRT-PCR primer sequences. Table S2. Bisulfite-sequencing primer sequences. Table S3. Summary of methylation enrichment peaks (MEPs) promoter regions. Table S4. Unsupervised hierarchical clustering analysis of DMEPs. Table S5. Summary of group comparison-related DMEPs. Table S6. Sox9 binding peak signal by ChIP-seq. (XLSX 934 kb)
DOI: 10.17863/cam.13683
title: Research data supporting "Modelling of pastes as viscous soils – Lubricated squeeze flow"

description: Excel spreadsheets from the paper in Powder Technology describing experimental and numerical simulations of a particulate paste undergoing squeeze flow. The paste is modelled as a soil with a viscous liquid phase.
DOI: 10.17863/cam.13408
title: Research data supporting "An optical Fourier transform coprocessor with direct phase determination"

description: This directory contains data pertaining to the paper ‘An optical Fourier transform coprocessor with direct phase determination,’ by Macfaden, Gordon & Wilkinson (2017). The data is organised with reference to the figures in the paper. Descriptions of these data files are as follows. FIG 2: This figure pertains to a characterised two-pass twisted nematic SLM system which is used to impose a certain optical modulation. The exercise of characterising, designing and optimising this system is its own paper (Characterisation, design, and optimisation of a two-pass twisted nematic liquid crystal spatial light modulator system for arbitrary complex modulation, Macfaden & Wilkinson (2016)). The associated data is: Macfaden, A. J., & Wilkinson, T. D. Research data supporting "Characterisation, design, and optimisation of a two-pass twisted nematic liquid crystal spatial light modulator system for arbitrary complex modulation" [Dataset]. https://doi.org/10.17863/CAM.5955 -Figure2c.xls This file includes the specific data shown in Figure2c. Different sheets contain the different data described in the legend of Figure2c. FIG 3: -Figure3.xls This function contains, in separate worksheets, the data shown in the panels of Figure 3. The coordinates used in these figures are simply sequential indices, and as such the data is number grids. FIG 4: This figure has many parts. The contents is sub-divided between different files. -Figure4a.xls This figure contains the initial conditions and Fourier domain representation (complex amplitude). -Figure4b.xls This figure contains the detailed figures for t=t_1. Specifically, the input, decomposed real and complex and even and odd components, the transforms of these and recombined function (both computed and optically evaluated). -Figure4c.xls This figure contains the Fourier domain representation of the thermal distribution at subsequent times, along with the optical and discrete Fourier transform - Visualisation 1.avi This is the visualisation of cooling over many other times, described in the Figure 4 caption. - Visualisation 2.avi This is a temporally smoothed version of Visualisation 1.avi. This shows the underlying physical process more clearly by reducing the effect of some of the experimental optical noise.
DOI: 10.6084/m9.figshare.c.3697255_d5.v1
title: MOESM5 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 5: Table S5. The whole list of structural pairs of the identified MMPs and MOA-cliffs for the combined dataset.
DOI: 10.6084/m9.figshare.c.3697255_d5
title: MOESM5 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 5: Table S5. The whole list of structural pairs of the identified MMPs and MOA-cliffs for the combined dataset.
DOI: 10.6084/m9.figshare.c.3697255_d4.v1
title: MOESM1 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 1: Table S1. The whole list of studied AR agonist and antagonist datasets.
DOI: 10.6084/m9.figshare.c.3697255_d4
title: MOESM1 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 1: Table S1. The whole list of studied AR agonist and antagonist datasets.
DOI: 10.6084/m9.figshare.c.3697255_d3.v1
title: MOESM4 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 4: Table S4. Compounds reported as active in both AR agonist and antagonist screens.
DOI: 10.6084/m9.figshare.c.3697255_d3
title: MOESM4 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 4: Table S4. Compounds reported as active in both AR agonist and antagonist screens.
DOI: 10.6084/m9.figshare.c.3697255_d2
title: MOESM3 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 3: Table S3. The whole list of active MMPs for the AR agonist and antagonist datasets.
DOI: 10.6084/m9.figshare.c.3697255_d2.v1
title: MOESM3 of Cheminformatics analysis of the AR agonist and antagonist datasets in PubChem

description: Additional file 3: Table S3. The whole list of active MMPs for the AR agonist and antagonist datasets.
DOI: 10.15468/dl.tjwbu9
title: Occurrence Download

description: A dataset containing 499 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Betula dahurica Pall."
 ]
}

 The dataset includes 499 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037628-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14384321
title: Supplementary Material: An integrated multiphase dynamic genome-scale model explains batch fermentations led by species of the Saccharomyces genus
DOI: 10.6084/m9.figshare.c.3678916_d5
title: Additional file 3: Table S2. of Identification and evolutionary analysis of long non-coding RNAs in zebra finch

description: Information of the annotated genes. (XLSX 1440 kb)
DOI: 10.5281/zenodo.14384320
title: Supplementary Material: An integrated multiphase dynamic genome-scale model explains batch fermentations led by species of the Saccharomyces genus
DOI: 10.5281/zenodo.14505700
title: Supplementary Material: An integrated multiphase dynamic genome-scale model explains batch fermentations led by species of the Saccharomyces genus
DOI: 10.6084/m9.figshare.c.3678931_d1.v1
title: Additional file 4: of Transcriptome profiling of the floating-leaved aquatic plant Nymphoides peltata in response to flooding stress

description: The deduced protein sequences of all predicted genes in the pooling transcriptome assembly of Nymphoides peltata. (TXT 21193 kb)
DOI: 10.6084/m9.figshare.c.3678931_d1
title: Additional file 4: of Transcriptome profiling of the floating-leaved aquatic plant Nymphoides peltata in response to flooding stress

description: The deduced protein sequences of all predicted genes in the pooling transcriptome assembly of Nymphoides peltata. (TXT 21193 kb)
DOI: 10.6084/m9.figshare.c.3678889_d2
title: Additional file 2: of Comparison of rumen bacteria distribution in original rumen digesta, rumen liquid and solid fractions in lactating Holstein cows

description: OTUs distribution in each sample. (XLSX 2056Â kb)
DOI: 10.5281/zenodo.14506600
title: Dewetting-Assisted Patterning: A Lithography-Free Route to Synthesize Black and Colored Silicon - DATASETS

description: Datasets referring the manuscript "Dewetting-Assisted Patterning: A Lithography-Free Route to Synthesize Black and Colored Silicon" published in ACS Applied Materials and Interfaces

https://pubs.acs.org/doi/full/10.1021/acsami.3c08533 

Please read the .txt file for more information concerning the datasets
DOI: 10.5281/zenodo.14506601
title: Dewetting-Assisted Patterning: A Lithography-Free Route to Synthesize Black and Colored Silicon - DATASETS

description: Datasets referring the manuscript "Dewetting-Assisted Patterning: A Lithography-Free Route to Synthesize Black and Colored Silicon" published in ACS Applied Materials and Interfaces

https://pubs.acs.org/doi/full/10.1021/acsami.3c08533 

Please read the .txt file for more information concerning the datasets
DOI: 10.25574/62563
title: Chandra X-ray Observatory ObsId 62563
DOI: 10.25574/62566
title: Chandra X-ray Observatory ObsId 62566
DOI: 10.25574/62718
title: Chandra X-ray Observatory ObsId 62718