cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.20462211.v1
title: Additional file 3 of Small-area estimation for public health surveillance using electronic health record data: reducing the impact of underrepresentation

description: Additional file 3. Predictions from each model (M0, M1, M2) for each test condition (asthma, diabetes, hypertension, obesity, smoking) for each practice (Atrius, CHA, MLCHC, aggregate) in each of the 351 municipalities.
DOI: 10.25387/g3.11549403
title: Supplemental Material for Fritz et al., 2020

description: Figures S1 and S2 contain the permutation test resampling distributions used to identify statistically significant differences between nucleotide diversity estimates for amplicons of <i>cad-86C</i> 1b and 2b primer pairs. Figure S3 is a gel image showing the 5,539 bp <i>cad-86C</i> cDNA amplicons from the <i>H. zea</i> larval midguts. Table S1 contains the <i>cad-86C</i> 1b and 2b primer sequences. Table S2 contains the qRT-PCR primers for <i>cad-86C</i> and the α-Tubulin control. Table S3 contains the barcodes used for identification of <i>cad-86C</i> sequences from each individual. Table S4 contains a summary of the number of Illumina reads produced per individual, that remained after filtering, and coverage depth. Table S5 contains a summary of the genomic regions with low heterozygosity in GA-R and high genetic divergence between GA and GA-R. Table S6 contains a percent identity matrix for the <i>H. zea</i> CAD-86C with other cadherin proteins known to be involved in Bt resistance. Table S7 contains a summary of the PacBio sequencing reads produced for each <i>H. zea</i> individual, and the number of reads remaining after filtering. Table S8 contains haplotype frequency information for <i>cad-86C</i> cDNA sequences. File S1 describes the methods used to run msms. File S2 contains our ExoAP clean protocol. File S3 contains the cadherin sequences used for phylogenetic analysis. File S4 shows the cadherin protein sequences aligned by T-Coffee. <br>
DOI: 10.6084/m9.figshare.14695335
title: A redescription of <i>Kunpania scopulusa</i>, a bidentalian dicynodont (Therapsida, Anomodontia) from the ?Guadalupian of northwestern China

description: Permian dicynodonts were discovered in strata exposed on the flanks of the Bogda Mountains (Xinjiang, China) in 1928. Nearly all known specimens were collected in the Guodikeng Formation (= upper Wutonggou low-order cycle); the single exception is the holotype of <i>Kunpania scopulusa</i>, which originated in the underlying Quanzijie Formation. The Quanzijie Formation is generally considered Capitanian in age, which would make <i>Kunpania</i> one of the oldest known bidentalian dicynodonts, but the type of <i>K. scopulusa</i> has received little attention. Here we redescribe <i>K. scopulusa</i> and investigate its phylogenetic relationships. <i>Kunpania scopulusa</i> is a valid species diagnosed by the absence of anterior palatal ridges; a robust crista oesophagea; a prominent lateral dentary shelf; a posteriorly curving projection on the angular; and a large, triangular attachment area for M. latissimus dorsi on the humerus. Our phylogenetic analysis recovered <i>K. scopulusa</i> as a stemward member of Dicynodontoidea and the sister taxon of the South African species <i>Sintocephalus alticeps.</i> Depending on the precise age of the uppermost Quanzijie Formation, three scenarios describe the potential phylogenetic implications of <i>K. scopulusa</i>: (1) bidentalian dicynodonts diversified before the end-Guadalupian extinction, with little of their early history preserved; (2) the main diversifications of cryptodont and dicynodontoid bidentalians occurred in the aftermath of the end-Guadalupian extinction, with <i>K. scopulusa</i> representing the latter; (3) <i>K. scopulusa</i> is a contemporary of other mid–late Wuchiapingian dicynodontoids and the initial radiation of Dicynodontoidea is not preserved in the known fossil record.
DOI: 10.6084/m9.figshare.7355312
title: Additional file 1: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S1. The summary of the sequenced reads of different samples. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.22615724
title: Additional file 3 of Barriers and facilitators to physical activity for young adult women: a systematic review and thematic synthesis of qualitative literature

description: Additional file 3.
DOI: 10.6084/m9.figshare.22615724.v1
title: Additional file 3 of Barriers and facilitators to physical activity for young adult women: a systematic review and thematic synthesis of qualitative literature

description: Additional file 3.
DOI: 10.25387/g3.11549403.v1
title: Supplemental Material for Fritz et al., 2020

description: Figures S1 and S2 contain the permutation test resampling distributions used to identify statistically significant differences between nucleotide diversity estimates for amplicons of <i>cad-86C</i> 1b and 2b primer pairs. Figure S3 is a gel image showing the 5,539 bp <i>cad-86C</i> cDNA amplicons from the <i>H. zea</i> larval midguts. Table S1 contains the <i>cad-86C</i> 1b and 2b primer sequences. Table S2 contains the qRT-PCR primers for <i>cad-86C</i> and the α-Tubulin control. Table S3 contains the barcodes used for identification of <i>cad-86C</i> sequences from each individual. Table S4 contains a summary of the number of Illumina reads produced per individual, that remained after filtering, and coverage depth. Table S5 contains a summary of the genomic regions with low heterozygosity in GA-R and high genetic divergence between GA and GA-R. Table S6 contains a percent identity matrix for the <i>H. zea</i> CAD-86C with other cadherin proteins known to be involved in Bt resistance. Table S7 contains a summary of the PacBio sequencing reads produced for each <i>H. zea</i> individual, and the number of reads remaining after filtering. Table S8 contains haplotype frequency information for <i>cad-86C</i> cDNA sequences. File S1 describes the methods used to run msms. File S2 contains our ExoAP clean protocol. File S3 contains the cadherin sequences used for phylogenetic analysis. File S4 shows the cadherin protein sequences aligned by T-Coffee. <br>
DOI: 10.6084/m9.figshare.6830945
title: GraphData_Figure 3.docx

description: Data underlying Figure 3 of O'Neill et al 2018 Gates Open Research
DOI: 10.6084/m9.figshare.20461969.v1
title: Additional file 1 of Enhanced rare disease mapping for phenome-wide genetic association in the UK Biobank

description: Additional file 1: Table S1: ICD-10 code to Orpha code consensus mapping. Table S2: Sample sizes and demographics obtained for rare disorders. Table S4: Significantly comorbid rare disease pairs (Bonferroni adjustment). Table S5: Complex diseases significantly comorbid with rare diseases (Bonferroni adjustment). Table S7: Significant gene-level associations (FDR&lt;=0.05). Table S8: Significant variant-level associations (FDR&lt;=0.05).
DOI: 10.6084/m9.figshare.20461969
title: Additional file 1 of Enhanced rare disease mapping for phenome-wide genetic association in the UK Biobank

description: Additional file 1: Table S1: ICD-10 code to Orpha code consensus mapping. Table S2: Sample sizes and demographics obtained for rare disorders. Table S4: Significantly comorbid rare disease pairs (Bonferroni adjustment). Table S5: Complex diseases significantly comorbid with rare diseases (Bonferroni adjustment). Table S7: Significant gene-level associations (FDR&lt;=0.05). Table S8: Significant variant-level associations (FDR&lt;=0.05).
DOI: 10.6084/m9.figshare.14695335.v1
title: A Redescription of <i>Kunpania Scopulusa</i>, a Bidentalian Dicynodont (Therapsida, Anomodontia) from the ?Guadalupian of Northwestern China

description: Permian dicynodonts were discovered in strata exposed on the flanks of the Bogda Mountains (Xinjiang, China) in 1928. Nearly all known specimens were collected in the Guodikeng Formation (= upper Wutonggou low-order cycle); the single exception is the holotype of <i>Kunpania scopulusa</i>, which originated in the underlying Quanzijie Formation. The Quanzijie Formation is generally considered Capitanian in age, which would make <i>Kunpania</i> one of the oldest known bidentalian dicynodonts, but the type of <i>K. scopulusa</i> has received little attention. Here we redescribe <i>K. scopulusa</i> and investigate its phylogenetic relationships. <i>Kunpania scopulusa</i> is a valid species diagnosed by the absence of anterior palatal ridges; a robust crista oesophagea; a prominent lateral dentary shelf; a posteriorly curving projection on the angular; and a large, triangular attachment area for M. latissimus dorsi on the humerus. Our phylogenetic analysis recovered <i>K. scopulusa</i> as a stemward member of Dicynodontoidea and the sister taxon of the South African species <i>Sintocephalus alticeps.</i> Depending on the precise age of the uppermost Quanzijie Formation, three scenarios describe the potential phylogenetic implications of <i>K. scopulusa</i>: (1) bidentalian dicynodonts diversified before the end-Guadalupian extinction, with little of their early history preserved; (2) the main diversifications of cryptodont and dicynodontoid bidentalians occurred in the aftermath of the end-Guadalupian extinction, with <i>K. scopulusa</i> representing the latter; (3) <i>K. scopulusa</i> is a contemporary of other mid–late Wuchiapingian dicynodontoids and the initial radiation of Dicynodontoidea is not preserved in the known fossil record.
DOI: 10.6084/m9.figshare.14695335.v2
title: A redescription of <i>Kunpania scopulusa</i>, a bidentalian dicynodont (Therapsida, Anomodontia) from the ?Guadalupian of northwestern China

description: Permian dicynodonts were discovered in strata exposed on the flanks of the Bogda Mountains (Xinjiang, China) in 1928. Nearly all known specimens were collected in the Guodikeng Formation (= upper Wutonggou low-order cycle); the single exception is the holotype of <i>Kunpania scopulusa</i>, which originated in the underlying Quanzijie Formation. The Quanzijie Formation is generally considered Capitanian in age, which would make <i>Kunpania</i> one of the oldest known bidentalian dicynodonts, but the type of <i>K. scopulusa</i> has received little attention. Here we redescribe <i>K. scopulusa</i> and investigate its phylogenetic relationships. <i>Kunpania scopulusa</i> is a valid species diagnosed by the absence of anterior palatal ridges; a robust crista oesophagea; a prominent lateral dentary shelf; a posteriorly curving projection on the angular; and a large, triangular attachment area for M. latissimus dorsi on the humerus. Our phylogenetic analysis recovered <i>K. scopulusa</i> as a stemward member of Dicynodontoidea and the sister taxon of the South African species <i>Sintocephalus alticeps.</i> Depending on the precise age of the uppermost Quanzijie Formation, three scenarios describe the potential phylogenetic implications of <i>K. scopulusa</i>: (1) bidentalian dicynodonts diversified before the end-Guadalupian extinction, with little of their early history preserved; (2) the main diversifications of cryptodont and dicynodontoid bidentalians occurred in the aftermath of the end-Guadalupian extinction, with <i>K. scopulusa</i> representing the latter; (3) <i>K. scopulusa</i> is a contemporary of other mid–late Wuchiapingian dicynodontoids and the initial radiation of Dicynodontoidea is not preserved in the known fossil record.
DOI: 10.6084/m9.figshare.7355297
title: Additional file 10: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S6. The expression data (TPM value) of known and novel miRNAs and the location of clusters based on the K-means method in this study. (XLSX 42 kb)
DOI: 10.6084/m9.figshare.7355297.v1
title: Additional file 10: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S6. The expression data (TPM value) of known and novel miRNAs and the location of clusters based on the K-means method in this study. (XLSX 42 kb)
DOI: 10.6084/m9.figshare.7355303
title: Additional file 11: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S7. The primers of miRNAs and genes used for qRT-PCR verification. (XLS 10 kb)
DOI: 10.6084/m9.figshare.7355312.v1
title: Additional file 1: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S1. The summary of the sequenced reads of different samples. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.20462287
title: Additional file 1 of Comparison of ONT and CCS sequencing technologies on the polyploid genome of a medicinal plant showed that high error rate of ONT reads are not suitable for self-correction

description: Additional file 1: Table S1. Published allotetraploid genomes covered by short reads sequencing. Table S2. Blocks between nextdenovo assembly and chromosome-level hifiasm assembly. Tables S3. Discordance error in long reads mapped to different area of assemblies. Table S4. Postions with mismatch and gap of CCS-hifiasm assembly. Table S5. Discordance of CCS reads mapped to ONT-nextdenovo assembly. Table S6. Reads mapping and genome coverage
DOI: 10.6084/m9.figshare.7355333.v1
title: Additional file 3: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S3. The mature sequenced of all known and novel miRNAs. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.7355321
title: Additional file 2: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S2. The composition of each miRNA family identified in this study. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.12073905
title: Two Co(II) and Ni(II) coordination polymers: crystal structures and inhibitory activity on osteogenic sarcoma cells via inducing apoptosis

description: Solvothermal reactions of Co(OAc)<sub>2</sub>·4H<sub>2</sub>O or Ni(NO<sub>3</sub>)<sub>2</sub>·3H<sub>2</sub>O with 1,4-<i>bis</i>(benzimidazol-1-ylmethyl)-benzene (bmib) ligand and 1,4-terephthalic acid (H<sub>2</sub>bdc) afforded two 2-dimensional coordination polymers with the chemical formulae of [Co(bmib)(bdc)(H<sub>2</sub>O)<sub>2</sub>]<sub>n</sub> (<b>1</b>) and [Ni(bmib)(bdc)(H<sub>2</sub>O)<sub>2</sub>]<i><sub>n</sub></i> (<b>2</b>). Complexes <b>1</b> and <b>2</b> were characterized by elemental analysis and single-crystal X-ray diffraction. Furthermore, the anticancer activity of the complexes <b>1</b> and <b>2</b> was evaluated. Firstly, the CCK-8 assay was performed and MG63 osteogenic sarcoma cell proliferation was determined after complexes <b>1</b> and <b>2</b> treatment. Next, the Hoechst staining was performed to detect the morphological changes of treated MG63 cells. Subsequently, the western blot was conducted and the apoptotic related protein levels were determined.
DOI: 10.6084/m9.figshare.12073905.v1
title: Two Co(II) and Ni(II) coordination polymers: crystal structures and inhibitory activity on osteogenic sarcoma cells via inducing apoptosis

description: Solvothermal reactions of Co(OAc)<sub>2</sub>·4H<sub>2</sub>O or Ni(NO<sub>3</sub>)<sub>2</sub>·3H<sub>2</sub>O with 1,4-<i>bis</i>(benzimidazol-1-ylmethyl)-benzene (bmib) ligand and 1,4-terephthalic acid (H<sub>2</sub>bdc) afforded two 2-dimensional coordination polymers with the chemical formulae of [Co(bmib)(bdc)(H<sub>2</sub>O)<sub>2</sub>]<sub>n</sub> (<b>1</b>) and [Ni(bmib)(bdc)(H<sub>2</sub>O)<sub>2</sub>]<i><sub>n</sub></i> (<b>2</b>). Complexes <b>1</b> and <b>2</b> were characterized by elemental analysis and single-crystal X-ray diffraction. Furthermore, the anticancer activity of the complexes <b>1</b> and <b>2</b> was evaluated. Firstly, the CCK-8 assay was performed and MG63 osteogenic sarcoma cell proliferation was determined after complexes <b>1</b> and <b>2</b> treatment. Next, the Hoechst staining was performed to detect the morphological changes of treated MG63 cells. Subsequently, the western blot was conducted and the apoptotic related protein levels were determined.
DOI: 10.6084/m9.figshare.7355330
title: MOESM1 of Differential analysis of quantitative proteome and acetyl-proteome profiling between premenopausal and postmenopausal ovarian tissues

description: Additional file 1: Table S1. Global proteomic analysis of ovarian tissues from perimenopausal and postmenopausal women by LCâ MS/MS using TMT quantification.
DOI: 10.6084/m9.figshare.20462206
title: Additional file 1 of HYAL3 as a potential novel marker of BLCA patient prognosis

description: Additional file 1.
DOI: 10.6084/m9.figshare.20462206.v1
title: Additional file 1 of HYAL3 as a potential novel marker of BLCA patient prognosis

description: Additional file 1.
DOI: 10.6084/m9.figshare.7355330.v1
title: MOESM1 of Differential analysis of quantitative proteome and acetyl-proteome profiling between premenopausal and postmenopausal ovarian tissues

description: Additional file 1: Table S1. Global proteomic analysis of ovarian tissues from perimenopausal and postmenopausal women by LCâ MS/MS using TMT quantification.
DOI: 10.6084/m9.figshare.7355351.v1
title: MOESM3 of Differential analysis of quantitative proteome and acetyl-proteome profiling between premenopausal and postmenopausal ovarian tissues

description: Additional file 3: Table S3. Acetylated proteome analysis of ovarian tissues from perimenopausal and postmenopausal women by LCâ MS/MS using TMT quantification and antibody-affinity purification.
DOI: 10.6084/m9.figshare.7355303.v1
title: Additional file 11: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S7. The primers of miRNAs and genes used for qRT-PCR verification. (XLS 10 kb)
DOI: 10.6084/m9.figshare.7355360
title: MOESM4 of Differential analysis of quantitative proteome and acetyl-proteome profiling between premenopausal and postmenopausal ovarian tissues

description: Additional file 4: Table S4. Differential acetyl-protein expression in postmenopause and premenopause samples.
DOI: 10.6084/m9.figshare.7355321.v1
title: Additional file 2: of MicroRNA profiling analysis of developing berries for â Kyohoâ and its early-ripening mutant during berry ripening

description: Table S2. The composition of each miRNA family identified in this study. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.20462287.v1
title: Additional file 1 of Comparison of ONT and CCS sequencing technologies on the polyploid genome of a medicinal plant showed that high error rate of ONT reads are not suitable for self-correction

description: Additional file 1: Table S1. Published allotetraploid genomes covered by short reads sequencing. Table S2. Blocks between nextdenovo assembly and chromosome-level hifiasm assembly. Tables S3. Discordance error in long reads mapped to different area of assemblies. Table S4. Postions with mismatch and gap of CCS-hifiasm assembly. Table S5. Discordance of CCS reads mapped to ONT-nextdenovo assembly. Table S6. Reads mapping and genome coverage
DOI: 10.5061/dryad.n36st/2
title: BOLDTree

description: Taxon ID tree in the newick tree format
DOI: 10.5061/dryad.p9r4k/1
title: Photographic and measured body parameter data for Asian elephants

description: Sheet 1: Elephant chest girth and height estimated from photographs by four measurers Sheet 2: Body parameter measurements for Asian elephants
DOI: 10.5061/dryad.q9c54.2/10.2
title: 1_impute: R script for imputation of sediment data
DOI: 10.5061/dryad.q9c54.2/11.2
title: 2_prepare: R-script spatial subsetting and transformation
DOI: 10.5061/dryad.q9c54.2/12.2
title: 3_train: R-script model training

description: This script trains the ML algorithms on the basis of spatial and random cross-validation. It applies the caret machinery.
DOI: 10.5061/dryad.q9c54.2/8.2
title: tidal basins (geotif, epsg:3035)

description: 39 tidal basin of the Wadden Sea. They are used to split the Schleswig-Holstein training area data for spatial cross-validation.
DOI: 10.5061/dryad.q9c54.2/9.2
title: func_seagrass R script with libraries and helper functions
DOI: 10.5061/dryad.rc504/1
title: HVI_II_212_834_grp

description: Concatenated and aligned Nyctalus lasiopterus mitochodrial control regions HVI and HVIII, 437 and 397 bp long respectively. Total size 834 bp. 212 individuals.
DOI: 10.5061/dryad.rc504/2
title: MicrosCorrect_GENEPOP

description: Nyctalus lasiopetrus genotype file. Genepop format. 214 individuals, five populations. 11 microsatellite markers per individual.
DOI: 10.5061/dryad.rc504/3
title: MicrosCorrect_FSTAT-FSTAT

description: Nyctalus lasiopetrus genotype file. FSTAT format. 214 individuals, five populations. 11 microsatellite markers per individual.
DOI: 10.5061/dryad.rc504/4
title: MicrosCorrect_FSTAT-FSTAT-POPULATION NAMES

description: FSTAT genotype file population names.
DOI: 10.5061/dryad.rc504/5
title: DifferetiationCalc

description: R script for population differentiation and overall allelic richness calculation from uploaded Genepop and Fstat files containning 214 Nyctalus lasiopterus genotypes from 5 populations. Required packages: hierfstat; diveRsity.
DOI: 10.5061/dryad.t6096/1
title: Datasets_Transcriptome_And_microRNAome

description: Compressed datasets for Agilent_Human4X44K_v1 microarray transcriptome and Affymetrix miRNA V4 microarray microRNAome data. When unzipped, three folders will appear: Raw_Data, Processed_data and DEGs. Raw_Data folder contains raw datasets for Agilent and Affy chips. Processed_data folder contains Agilent and Affy datasets processed for downstream differentially expressed genes (DEG) analyses. DEGs folder contains mRNA (transcriptome) and miRNA (microRNAome) sub-directories containing DEG analyses for mRNAs and microRNAs.
DOI: 10.5061/dryad.t6096/2
title: GO terms described in Figure 3- Figure Supplement 1-2

description: Full list of gene ontology terms and corresponding genes from figure 3 supplement 1 and figure 3 supplement 2. Includes GO terms for age-downregulated genes in reprogrammed neurons (sheet 1), GO terms for age-upregulated genes in reprogrammed neurons (sheet 2), GO terms for predicted targets of miR-497-5p from list of downregulated genes (sheet 3), GO terms for predicted targets of miR-10a from the list of downregulated genes (sheet 4)
DOI: 10.5061/dryad.t6096/3
title: Zipped folder of DNA methylation data and annotation

description: This zipped package contains 4 files.• The file dat0NoobUpload.csv contains the "Noob" normalized beta values (i.e. the DNA methylation data) from the Illumina 450K array platform. We used the Noob normalization described in TJ Triche et al (2013) Nucleic Acids Res 41, e90. • The sample annotation file (datSampleNoobUpload.csv) reports the chronological age (Age) and the DNA methylation age (DNAmAge) which was calculated with the epigenetic clock method described in Horvath S (2013) Genome Biol. 2013 • The file datPairedData.csv reports the DNAm age estimates before and after conversion.
DOI: 10.5061/dryad.1255v/1
title: Hoge_Veluwe_Great_Tit_data

description: Life history data on great tits from Hoge Veluwe population, 1955-2013
DOI: 10.5061/dryad.1255v/2
title: Pruned_pedigree_Hoge_Veluwe

description: Pedigree for great tits Hoge Veluwe population
DOI: 10.5061/dryad.1255v/3
title: Vlieland_East_Great_Tit_data

description: Life history data for Vlieland East population 1955-2013
DOI: 10.5061/dryad.22dt8/2
title: BigFert-Biomass
DOI: 10.5061/dryad.22dt8/3
title: BigFert-Cover
DOI: 10.5061/dryad.22dt8/4
title: BigFert-Plant-Survival
DOI: 10.5061/dryad.22dt8/5
title: BigFert-Soils
DOI: 10.5061/dryad.22dt8/6
title: BigFert-Data-Descriptions

description: Description of remaining data files. Additional publication associated with these data : Seabloom, Eric W., et al. "Richness and composition of niche-assembled viral pathogen communities." PLoS One 8.2 (2013): e55675.
DOI: 10.5061/dryad.32tg8/1
title: raw.data.ELE-01046-2016