cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19071530
title: Ripmeester et al rDNA.pzfx

description: BMP7 is a morphogen capable of counteracting the OA chondrocyte hypertrophic phenotype via NKX3-2. NKX3-2 represses expression of RUNX2, an important transcription factor for chondrocyte hypertrophy. Since RUNX2 has previously been described as an inhibitor for 47S pre-rRNA transcription, we hypothesized that BMP7 positively influences 47S pre-rRNA transcription through NKX3-2, resulting in increased protein translational capacity. Therefor SW1353 cells and human primary chondrocytes were exposed to BMP7 and rRNA (18S, 5.8S, 28S) expression was determined by RT-qPCR. NKX3-2 knockdown was achieved via transfection of a NKX3-2-specific siRNA duplex. Translational capacity was assessed by the SUNsET assay, and 47S pre-rRNA transcription was determined by transfection of a 47S gene promoter-reporter plasmid. BMP7 treatment increased protein translational capacity. This was associated by increased 18S and 5.8S rRNA and NKX3-2 mRNA expression, as well as increased 47S gene promotor activity. Knockdown of NKX3-2 led to increased expression of RUNX2, accompanied by decreased 47S gene promotor activity and rRNA expression, an effect BMP7 was unable to restore. Our data demonstrate that BMP7 positively influences protein translation capacity of SW1353 cells and chondrocytes. This is likely caused by an NKX3-2-dependent activation of 47S gene promotor activity. This finding connects morphogen-mediated changes in cellular differentiation to an aspect of ribosome biogenesis via key transcription factors central to determining the chondrocyte phenotype.<br>
DOI: 10.6084/m9.figshare.19071530.v1
title: Ripmeester et al rDNA.pzfx

description: BMP7 is a morphogen capable of counteracting the OA chondrocyte hypertrophic phenotype via NKX3-2. NKX3-2 represses expression of RUNX2, an important transcription factor for chondrocyte hypertrophy. Since RUNX2 has previously been described as an inhibitor for 47S pre-rRNA transcription, we hypothesized that BMP7 positively influences 47S pre-rRNA transcription through NKX3-2, resulting in increased protein translational capacity. Therefor SW1353 cells and human primary chondrocytes were exposed to BMP7 and rRNA (18S, 5.8S, 28S) expression was determined by RT-qPCR. NKX3-2 knockdown was achieved via transfection of a NKX3-2-specific siRNA duplex. Translational capacity was assessed by the SUNsET assay, and 47S pre-rRNA transcription was determined by transfection of a 47S gene promoter-reporter plasmid. BMP7 treatment increased protein translational capacity. This was associated by increased 18S and 5.8S rRNA and NKX3-2 mRNA expression, as well as increased 47S gene promotor activity. Knockdown of NKX3-2 led to increased expression of RUNX2, accompanied by decreased 47S gene promotor activity and rRNA expression, an effect BMP7 was unable to restore. Our data demonstrate that BMP7 positively influences protein translation capacity of SW1353 cells and chondrocytes. This is likely caused by an NKX3-2-dependent activation of 47S gene promotor activity. This finding connects morphogen-mediated changes in cellular differentiation to an aspect of ribosome biogenesis via key transcription factors central to determining the chondrocyte phenotype.<br>
DOI: 10.34740/kaggle/dsv/3097179
title: Mahanagar Yatayat Dataset
DOI: 10.5281/zenodo.5579622
title: Magnetic Bead Processing Enables Sensitive Ligation-based Detection of HIV Drug Resistance Mutations [Data Release]

description: Raw data files for the manuscript "Magnetic Bead Processing Enables Sensitive Ligation-based Detection of HIV Drug Resistance Mutations".
DOI: 10.5281/zenodo.5579621
title: Magnetic Bead Processing Enables Sensitive Ligation-based Detection of HIV Drug Resistance Mutations [Data Release]

description: Raw data files for the manuscript "Magnetic Bead Processing Enables Sensitive Ligation-based Detection of HIV Drug Resistance Mutations".
DOI: 10.6084/m9.figshare.16584567
title: Additional file 1 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 1.
DOI: 10.6084/m9.figshare.16584567.v1
title: Additional file 1 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 1.
DOI: 10.6084/m9.figshare.16584570
title: Additional file 2 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 2.
DOI: 10.6084/m9.figshare.16584570.v1
title: Additional file 2 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 2.
DOI: 10.6084/m9.figshare.16584573
title: Additional file 3 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 3.
DOI: 10.6084/m9.figshare.16584573.v1
title: Additional file 3 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 3.
DOI: 10.6084/m9.figshare.16584576
title: Additional file 4 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 4.
DOI: 10.6084/m9.figshare.16584576.v1
title: Additional file 4 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 4.
DOI: 10.6084/m9.figshare.16584579
title: Additional file 5 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 5.
DOI: 10.6084/m9.figshare.16584579.v1
title: Additional file 5 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 5.
DOI: 10.6084/m9.figshare.16584582
title: Additional file 6 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 6.
DOI: 10.6084/m9.figshare.16584582.v1
title: Additional file 6 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 6.
DOI: 10.6084/m9.figshare.8195975
title: Additional file 10: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S8. Primers used in this study. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.8195975.v1
title: Additional file 10: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S8. Primers used in this study. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.16584585
title: Additional file 7 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 7.
DOI: 10.6084/m9.figshare.16584585.v1
title: Additional file 7 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 7.
DOI: 10.6084/m9.figshare.16584588
title: Additional file 8 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 8.
DOI: 10.6084/m9.figshare.16584588.v1
title: Additional file 8 of Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

description: Additional file 8.
DOI: 10.6084/m9.figshare.8195981
title: Additional file 1: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S1. Summary statistics of sequencing data. Quality of sequencing reads, transcripts and unigenes are shown respectively. The number 1, 2 and 3 represent three replicate samples of each group. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.8195981.v1
title: Additional file 1: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S1. Summary statistics of sequencing data. Quality of sequencing reads, transcripts and unigenes are shown respectively. The number 1, 2 and 3 represent three replicate samples of each group. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.8195987
title: Additional file 2: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S2. Differentially expressed unigenes (DEUs) (Probability â Ľ0.8 and relative change â Ľ2) in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. Lists of DEUs include Unigene ID, Length, FPKM, log2 fold change, P value, up- or down-regulation and annotation. (XLSX 1172 kb)
DOI: 10.6084/m9.figshare.8195987.v1
title: Additional file 2: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S2. Differentially expressed unigenes (DEUs) (Probability â Ľ0.8 and relative change â Ľ2) in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. Lists of DEUs include Unigene ID, Length, FPKM, log2 fold change, P value, up- or down-regulation and annotation. (XLSX 1172 kb)
DOI: 10.6084/m9.figshare.21303200
title: Additional file 2 of Correlates of treatment engagement and client outcomes: results of a randomised controlled trial of nabiximols for the treatment of cannabis use disorder

description: Additional file 2.
DOI: 10.6084/m9.figshare.21303200.v1
title: Additional file 2 of Correlates of treatment engagement and client outcomes: results of a randomised controlled trial of nabiximols for the treatment of cannabis use disorder

description: Additional file 2.
DOI: 10.6084/m9.figshare.8196005
title: Additional file 5: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S3. Enriched KEGG pathways in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. KEGG pathway description, number of DEUs assigned to the corresponding pathway, P value, Q value, Pathway ID, KEGG function classification, annotated KO ID of DEUs and unigene ID assigned to the corresponding pathway are shown. (XLSX 153 kb)
DOI: 10.6084/m9.figshare.8196005.v1
title: Additional file 5: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S3. Enriched KEGG pathways in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. KEGG pathway description, number of DEUs assigned to the corresponding pathway, P value, Q value, Pathway ID, KEGG function classification, annotated KO ID of DEUs and unigene ID assigned to the corresponding pathway are shown. (XLSX 153 kb)
DOI: 10.6084/m9.figshare.8196008
title: Additional file 6: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S4. The common and unique differentially expressed unigenes (DEUs) in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. List of DEUs includes Unigene ID, FPKM, log2 fold change, up- or down-regulation and annotation. (XLSX 810 kb)
DOI: 10.6084/m9.figshare.8196008.v1
title: Additional file 6: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S4. The common and unique differentially expressed unigenes (DEUs) in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. List of DEUs includes Unigene ID, FPKM, log2 fold change, up- or down-regulation and annotation. (XLSX 810 kb)
DOI: 10.6084/m9.figshare.21303215
title: Additional file 1 of Revealing the characteristics of ZIKV infection through tissue-specific transcriptome sequencing analysis

description: Additional file 1.
DOI: 10.6084/m9.figshare.21303215.v1
title: Additional file 1 of Revealing the characteristics of ZIKV infection through tissue-specific transcriptome sequencing analysis

description: Additional file 1.
DOI: 10.6084/m9.figshare.8196017
title: Additional file 7: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S5. Enriched KEGG pathways of DEUs commonly up- and down-regulated in three clones and specifically up- and down-regulated in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. KEGG pathway description, number of DEUs assigned to the corresponding pathway, P value, Q value, Pathway ID, KEGG function classification, annotated KO ID of DEUs and unigene ID assigned to the corresponding pathway are shown. (XLSX 188 kb)
DOI: 10.6084/m9.figshare.8196017.v1
title: Additional file 7: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S5. Enriched KEGG pathways of DEUs commonly up- and down-regulated in three clones and specifically up- and down-regulated in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. KEGG pathway description, number of DEUs assigned to the corresponding pathway, P value, Q value, Pathway ID, KEGG function classification, annotated KO ID of DEUs and unigene ID assigned to the corresponding pathway are shown. (XLSX 188 kb)
DOI: 10.6084/m9.figshare.8196023
title: Additional file 8: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S6. Upâ /down-regulated DEUs annotated as IFN system genes, immunoglobulins and members of myosin superfamily in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. List of DEUs includes Unigene ID, FPKM, log2 fold change, up- or down-regulation and annotation. (XLSX 67 kb)
DOI: 10.6084/m9.figshare.8196023.v1
title: Additional file 8: of Differential expression of innate and adaptive immune genes in the survivors of three gibel carp gynogenetic clones after herpesvirus challenge

description: Table S6. Upâ /down-regulated DEUs annotated as IFN system genes, immunoglobulins and members of myosin superfamily in s-A+ vs c-A+, s-F vs c-F and s-H vs c-H. List of DEUs includes Unigene ID, FPKM, log2 fold change, up- or down-regulation and annotation. (XLSX 67 kb)
DOI: 10.5281/zenodo.10103217
title: Supplemental data from: "Depositional Facies and Sequence Stratigraphy of Kodiak butte, western Delta of Jezero crater, Mars"

description: Supplementary data for research article "Depositional Facies and Sequence Stratigraphy of Kodiak butte, western Delta of Jezero crater, Mars" submitted to the Journal of Geophysical Resercah: Planets, as part of the special collection "The Perseverance Rover's Exploration of the Western Fan Front, Jezero Crater, Mars".
DOI: 10.5281/zenodo.10103218
title: Supplemental data from: "Depositional Facies and Sequence Stratigraphy of Kodiak butte, western Delta of Jezero crater, Mars"

description: Supplementary data for research article "Depositional Facies and Sequence Stratigraphy of Kodiak butte, western Delta of Jezero crater, Mars" submitted to the Journal of Geophysical Resercah: Planets, as part of the special collection "The Perseverance Rover's Exploration of the Western Fan Front, Jezero Crater, Mars".
DOI: 10.5281/zenodo.10677910
title: Supplemental data from: "Depositional Facies and Sequence Stratigraphy of Kodiak butte, western Delta of Jezero crater, Mars"

description: Supplementary data for research article "Depositional Facies and Sequence Stratigraphy of Kodiak butte, western Delta of Jezero crater, Mars" submitted to the Journal of Geophysical Resercah: Planets, as part of the special collection "The Perseverance Rover's Exploration of the Western Fan Front, Jezero Crater, Mars".
DOI: 10.6084/m9.figshare.16584636
title: Additional file 1 of Overexpression of four MiTFL1 genes from mango delays the flowering time in transgenic Arabidopsis

description: Additional file 1 : Supplementary Table 1. Four TFL1 interacting protein through yeast two hybrid.
DOI: 10.15468/dl.7aepme
title: Occurrence Download

description: A dataset containing 628813 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cannabaceae"
 ]
}

 The dataset includes 628813 records from 3064 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0107848-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yfy3s3
title: Occurrence Download

description: A dataset containing 195775 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "GadmGid is CHN.4_1",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 195775 records from 338 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021937-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.8015041
title: Diabetes mellitus and frailty: secundary analysis of SABE Colombia - Dataset

description: This dataset is a subset of SABE Colombia database, a probational aging study developed in Colombia in 2015.
DOI: 10.5281/zenodo.8015040
title: Diabetes mellitus and frailty: secundary analysis of SABE Colombia - Dataset

description: This dataset is a subset of SABE Colombia database, a probational aging study developed in Colombia in 2015.
DOI: 10.5255/ukda-sn-856540
title: Imitate to Accumulate: The Relationship Between Syntactic Priming and Long-term Learning, 2019-2022

description: Children’s language closely reflects their recent and long-term experiences of language. Within conversations, children often repeat the words and sentence structures that they have just heard; their vocabulary and grammatical development tends to reflect the diversity and complexity of their caregivers’ language. But little is known about how children’s short-term language experiences contribute to their longer-term language learning. Syntactic priming effects may offer a promising explanation: growing evidence suggests such effects persist and accumulate to affect language use within the same interaction and even a week later. Accounts of syntactic priming as learning predict age-related differences in the magnitude of immediate priming and cumulative learning over multiple immediate experiences of syntactic structures which should lead to long-term changes in speakers’ representations of syntactic structures. This study investigates whether children’s behaviour at different stages of development supports these predictions. We ran two experiments examining the timecourse of experience-based effects in children at early and later stages of acquisition and a comparison adult group. Both experiments involve two testing sessions, consisting of a relatively large number of items (N=48), separated by one week. Experiment 1 assesses priming of noun phrase (NP) structures where participants take turns in describing target pictures with an experimenter who alternates between adjective-noun (AN: a blue cat) and noun-relative clause (RC: a cat that’s blue) primes. Experiment 2 tests verb phrase (VP) structures (specifically actives (a cat chased the dog) vs passives (the dog was chased by a cat)). We predicted that all groups will show immediate priming effects within sessions such that participants will produce more target structures after the same prime than after the alternative prime. We also predicted long-term effects of experience, such that participants will be more likely to produce target structures in Session 2 than Session 1. Moreover, we expected younger children to show larger immediate priming effects than older children or adults, leading to greater long-term learning effects for children at earlier stages of acquisition. Both experiments show patterns that are consistent with immediate priming effects at all ages, but though children are showing the largest effects, it is not necessarily only in the youngest age group. Contrary to expectations, the data suggest that there could be either no difference, or a decrease in priming across sessions.
DOI: 10.5281/zenodo.7967978
title: Overview of key residues for mAMCase activity.

description: This directory contains all files to analyze the aromatic, polar, catalytic, and ligand-binding residues as well as overall protein structure as presented in <strong>Supplemental Figure 5</strong> in the manuscript Díaz et al.<em> </em>(2023). Structure models were analyzed in PyMOL. Figures were compiled using Adobe Illustrator. Contact: Roberto Efraín Díaz, robertoefrain.diaz@ucsf.edu James Fraser, jfraser@fraserlab.com
description: {"references": ["D\u00edaz, Roberto Efra\u00edn et al. (2023). Structural characterization of ligand binding and pH-specific enzymatic activity of mouse Acidic Mammalian Chitinase."]}
DOI: 10.5281/zenodo.7967977
title: Overview of key residues for mAMCase activity.

description: This directory contains all files to analyze the aromatic, polar, catalytic, and ligand-binding residues as well as overall protein structure as presented in <strong>Supplemental Figure 5</strong> in the manuscript Díaz et al.<em> </em>(2023). Structure models were analyzed in PyMOL. Figures were compiled using Adobe Illustrator. Contact: Roberto Efraín Díaz, robertoefrain.diaz@ucsf.edu James Fraser, jfraser@fraserlab.com
description: {"references": ["D\u00edaz, Roberto Efra\u00edn et al. (2023). Structural characterization of ligand binding and pH-specific enzymatic activity of mouse Acidic Mammalian Chitinase."]}
DOI: 10.5281/zenodo.7516228
title: Supplementary data for the journal article "Quantifying the impact of 3D pore space morphology on diffusive mass transport in loam and sand"

description: Binarized cutouts (black=pore, white=soil) of 3D CT images of soil samples from loam and sand together with geometrical descriptors and diffusive properties computed on these cutouts. The geometrical descriptors include, among others, porosity, specific surface area, geodesic tortuosity, geometric tortuosity, constrictivity, mean chord length and mean of spherical contact distribution. Diffusion is quantified by the so-called M-factor which equals the ratio of the effective and intrinsic diffusivity. This data supplements the journal article "Quantifying the impact of 3D pore space morphology on diffusive mass transport in loam and sand". Additional information can be found there.
DOI: 10.5281/zenodo.7516227
title: Supplementary data for the journal article "Quantifying the impact of 3D pore space morphology on diffusive mass transport in loam and sand"

description: Binarized cutouts (black=pore, white=soil) of 3D CT images of soil samples from loam and sand together with geometrical descriptors and diffusive properties computed on these cutouts. The geometrical descriptors include, among others, porosity, specific surface area, geodesic tortuosity, geometric tortuosity, constrictivity, mean chord length and mean of spherical contact distribution. Diffusion is quantified by the so-called M-factor which equals the ratio of the effective and intrinsic diffusivity. This data supplements the journal article "Quantifying the impact of 3D pore space morphology on diffusive mass transport in loam and sand". Additional information can be found there.