cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12982259.v1
title: LC-MS/MS_data

description: Metabolic profile obtained from fecal samples of healthy (HF) and diarrheic (DF) post-weaning piglets by using LC-MS/MS approach at positive/negative mode.
DOI: 10.6084/m9.figshare.12982259
title: LC-MS/MS_data

description: Metabolic profile obtained from fecal samples of healthy (HF) and diarrheic (DF) post-weaning piglets by using LC-MS/MS approach at positive/negative mode.
DOI: 10.15468/wj82hr
title: Rediscovery of Mazus lanceifolius reveals a new genus and a new species in Mazaceae

description: This dataset contains the digitized treatments in Plazi based on the original journal article Xiang, Chun-Lei, Pan, Hong-Li, Min, Dao-Zhang, Zhang, Dai-Gui, Zhao, Fei, Liu, Bing, Li, Bo (2021): Rediscovery of Mazus lanceifolius reveals a new genus and a new species in Mazaceae. PhytoKeys 171: 1-24, DOI: http://dx.doi.org/10.3897/phytokeys.171.61926, URL: http://dx.doi.org/10.3897/phytokeys.171.61926
DOI: 10.15468/z4bhyr
title: Morphology and molecules support the new monotypic genus Fenghwaia (Rhamnaceae) from south China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Wang, Gang-Tao, Shu, Jiang-Ping, Jiang, Guo-Bin, Chen, Yu-Qiang, Wang, Rui-Jiang (2021): Morphology and molecules support the new monotypic genus Fenghwaia (Rhamnaceae) from south China. PhytoKeys 171: 25-35, DOI: http://dx.doi.org/10.3897/phytokeys.171.57277, URL: http://dx.doi.org/10.3897/phytokeys.171.57277
DOI: 10.5281/zenodo.4421980
title: Machine learning reactive mixing dataset-7

description: Reactive-mixing dataset-2.2 for machine learning analyses
description: For DIB article
DOI: 10.5281/zenodo.4421979
title: Machine learning reactive mixing dataset-7

description: Reactive-mixing dataset-2.2 for machine learning analyses
description: For DIB article
DOI: 10.5281/zenodo.4422055
title: A novel phosphoproteomic landscape evoked in response to type I interferon in the brain and in glial cells

description: Type I interferons (IFN-I) are key responders to central nervous system infection and injury. They mediate their effects primarily via transcriptional regulation of several hundred interferon-regulated genes. Using a mouse model for IFN-I-induced neurodegeneration, we identified widespread protein phosphorylation as a new mechanism by which IFN-I mediate their effects. Protein phosphorylation aligned with the clinical hallmarks and pathological outcome, including impaired development, motor dysfunction and seizures. <em>In vitro</em> experiments revealed extensive and rapid IFN-I-induced protein phosphorylation in microglia and astrocytes, the brain’s primary IFN-I-responding cells. Response to acute IFN-I stimulation was independent of gene expression and mediated by a small number of kinase families. The changes in the phosphoproteome affected a diverse range of cellular processes and functional analysis suggested that this response induced an immediate reactive state and prepared cells for subsequent transcriptional responses. Our studies reveal a hitherto unappreciated role for changes in the protein phosphorylation landscape in cellular responses to IFN-I and thus provide insights for novel diagnostic and therapeutic strategies for neurological diseases caused by IFN-I.
description: Running title: Protein phosphorylation regulates IFN-I responses
DOI: 10.5281/zenodo.4422054
title: A novel phosphoproteomic landscape evoked in response to type I interferon in the brain and in glial cells

description: Type I interferons (IFN-I) are key responders to central nervous system infection and injury. They mediate their effects primarily via transcriptional regulation of several hundred interferon-regulated genes. Using a mouse model for IFN-I-induced neurodegeneration, we identified widespread protein phosphorylation as a new mechanism by which IFN-I mediate their effects. Protein phosphorylation aligned with the clinical hallmarks and pathological outcome, including impaired development, motor dysfunction and seizures. <em>In vitro</em> experiments revealed extensive and rapid IFN-I-induced protein phosphorylation in microglia and astrocytes, the brain’s primary IFN-I-responding cells. Response to acute IFN-I stimulation was independent of gene expression and mediated by a small number of kinase families. The changes in the phosphoproteome affected a diverse range of cellular processes and functional analysis suggested that this response induced an immediate reactive state and prepared cells for subsequent transcriptional responses. Our studies reveal a hitherto unappreciated role for changes in the protein phosphorylation landscape in cellular responses to IFN-I and thus provide insights for novel diagnostic and therapeutic strategies for neurological diseases caused by IFN-I.
description: Running title: Protein phosphorylation regulates IFN-I responses
DOI: 10.5281/zenodo.4421407
title: Unique dynamics and exocytosis properties of GABAergic synaptic vesicles revealed by three-dimensional single vesicle tracking

description: This data set includes x, y, and z trajectories of all GABAergic synaptic vesicles that we used for the study. These GABAergic synaptic vesicles in inhibitory presynaptic terminals of living primary hippocampal neurons were labeled by single quantum dots (QDs) conjugated with anti-VGAT antibody under electrical stimulation, and were tracked three-dimensionally by using a dual-focus imaging in real-time. Each trajectory data indicates x, y, and z positions (nanometer-scale) over time from the start of imaging to the moment of vesicle fusion. The electrical stimulation to the neurons was applied for 120 s, starting from 20 s.
description: {"references": ["Park, C., Chen, X., Tian, C.-L., Park, G.N., Chenouard, N., Lee, H., Yeo, X.Y., Jung, S., Bi, G.-Q., Tsien, R.W., and Park, H. (In press). Unique dynamics and exocytosis properties of GABAergic synaptic vesicles revealed by three-dimensional single vesicle tracking, Proceedings of the National Academy of Sciences of the United States of America."]}
DOI: 10.5281/zenodo.4421406
title: Unique dynamics and exocytosis properties of GABAergic synaptic vesicles revealed by three-dimensional single vesicle tracking

description: This data set includes x, y, and z trajectories of all GABAergic synaptic vesicles that we used for the study. These GABAergic synaptic vesicles in inhibitory presynaptic terminals of living primary hippocampal neurons were labeled by single quantum dots (QDs) conjugated with anti-VGAT antibody under electrical stimulation, and were tracked three-dimensionally by using a dual-focus imaging in real-time. Each trajectory data indicates x, y, and z positions (nanometer-scale) over time from the start of imaging to the moment of vesicle fusion. The electrical stimulation to the neurons was applied for 120 s, starting from 20 s.
description: {"references": ["Park, C., Chen, X., Tian, C.-L., Park, G.N., Chenouard, N., Lee, H., Yeo, X.Y., Jung, S., Bi, G.-Q., Tsien, R.W., and Park, H. (In press). Unique dynamics and exocytosis properties of GABAergic synaptic vesicles revealed by three-dimensional single vesicle tracking, Proceedings of the National Academy of Sciences of the United States of America."]}
DOI: 10.6084/m9.figshare.13140464
title: SPAdes whole genome scaffolds assembled from Greenlandic Alaria esculenta (TTB000062)

description: Whole genome data was generated from a kelp specimen Alaria esculenta. Reads were assembled using SPAdes. Scaffolds from SPAdes assembly were further filtered for plastid sequences using BLAST+.<br>Ghost plastid annotations are included in .gb format.<br><br>Alignments used in hyphy analyses are also included. Alignments are by gene, with concatenated alignments based on functional group. Concatenated gene alignments were masked using Gblocks.
DOI: 10.6084/m9.figshare.13140464.v3
title: SPAdes whole genome scaffolds assembled from Greenlandic Alaria esculenta (TTB000062)

description: Whole genome data was generated from a kelp specimen Alaria esculenta. Reads were assembled using SPAdes. Scaffolds from SPAdes assembly were further filtered for plastid sequences using BLAST+.<br>Ghost plastid annotations are included in .gb format.<br><br>Alignments used in hyphy analyses are also included. Alignments are by gene, with concatenated alignments based on functional group. Concatenated gene alignments were masked using Gblocks.
DOI: 10.25919/q0a5-wx04
title: Parkes observations for project P1090 semester 2020OCTS_01

description: We propose to search for millisecond pulsars (MSPs) in an annular region around Blazar OJ 287, the most promising candidate to host a nano-Hz gravitational wave (GW) emitting supermassive black hole binary (SMBHB). We plan to use the Parkes multibeam receiver to search for MSPs in the sky region around OJ 287. The proposed survey area of 143 square degrees is expected to yield at least one and possibly three MSPs. The observing strategy ensures that detected MSPs will be most sensitive to GWs from the proposed SMBHB in OJ 287. The timing of such MPSs should allow us to probe the properties of OJ 287 in the GW window.
DOI: 10.6084/m9.figshare.13531465
title: Additional file 1 of First detection of a plasmid-encoded New-Delhi metallo-beta-lactamase-1 (NDM-1) producing Acinetobacter baumannii using whole genome sequencing, isolated in a clinical setting in Benin

description: Additional file 1. Alignment results for all detected antimicrobial resistance gene (NCBI-AMR).
DOI: 10.6084/m9.figshare.13531468.v1
title: Additional file 2 of First detection of a plasmid-encoded New-Delhi metallo-beta-lactamase-1 (NDM-1) producing Acinetobacter baumannii using whole genome sequencing, isolated in a clinical setting in Benin

description: Additional file 2. Virulence factor database (VFDB) of A.baumannii NDM-1.
DOI: 10.6084/m9.figshare.13531468
title: Additional file 2 of First detection of a plasmid-encoded New-Delhi metallo-beta-lactamase-1 (NDM-1) producing Acinetobacter baumannii using whole genome sequencing, isolated in a clinical setting in Benin

description: Additional file 2. Virulence factor database (VFDB) of A.baumannii NDM-1.
DOI: 10.6084/m9.figshare.13531465.v1
title: Additional file 1 of First detection of a plasmid-encoded New-Delhi metallo-beta-lactamase-1 (NDM-1) producing Acinetobacter baumannii using whole genome sequencing, isolated in a clinical setting in Benin

description: Additional file 1. Alignment results for all detected antimicrobial resistance gene (NCBI-AMR).
DOI: 10.6084/m9.figshare.13531525
title: Additional file 2 of Composition of the metabolomic bio-coronas isolated from Ocimum sanctum and Rubia tinctorum

description: Additional file 2: Table S2. List of significant metabolites enriched in bio-coronas of NPs isolated from madder roots. Names of the compounds, their chemical class according to the Human Metabolome Database (HMDB, http://www.hmdb.ca/ ) classification, and chemical class coding used for hierarchical clustering analysis shown in Fig. 2c are shown.
DOI: 10.6084/m9.figshare.13531522
title: Additional file 1 of Composition of the metabolomic bio-coronas isolated from Ocimum sanctum and Rubia tinctorum

description: Additional file 1: Table S1. List of significant metabolites enriched in bio-coronas of NPs isolated from Tulsi leaves. Names of the compounds, their chemical class according to the Human Metabolome Database (HMDB, http://www.hmdb.ca/ ) classification, and chemical class coding used for hierarchical clustering analysis shown in Fig. 1b are shown.
DOI: 10.6084/m9.figshare.13531525.v1
title: Additional file 2 of Composition of the metabolomic bio-coronas isolated from Ocimum sanctum and Rubia tinctorum

description: Additional file 2: Table S2. List of significant metabolites enriched in bio-coronas of NPs isolated from madder roots. Names of the compounds, their chemical class according to the Human Metabolome Database (HMDB, http://www.hmdb.ca/ ) classification, and chemical class coding used for hierarchical clustering analysis shown in Fig. 2c are shown.
DOI: 10.6084/m9.figshare.13531522.v1
title: Additional file 1 of Composition of the metabolomic bio-coronas isolated from Ocimum sanctum and Rubia tinctorum

description: Additional file 1: Table S1. List of significant metabolites enriched in bio-coronas of NPs isolated from Tulsi leaves. Names of the compounds, their chemical class according to the Human Metabolome Database (HMDB, http://www.hmdb.ca/ ) classification, and chemical class coding used for hierarchical clustering analysis shown in Fig. 1b are shown.
DOI: 10.6084/m9.figshare.13531555.v1
title: Additional file 1 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 1. (CSV 1 kb)
DOI: 10.6084/m9.figshare.13531555
title: Additional file 1 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 1. (CSV 1 kb)
DOI: 10.6084/m9.figshare.13531567
title: Additional file 5 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 5.
DOI: 10.6084/m9.figshare.13531564
title: Additional file 4 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 4.
DOI: 10.6084/m9.figshare.13531564.v1
title: Additional file 4 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 4.
DOI: 10.6084/m9.figshare.13531558.v1
title: Additional file 2 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 2. (CSV 10 kb)
DOI: 10.6084/m9.figshare.13531558
title: Additional file 2 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 2. (CSV 10 kb)
DOI: 10.6084/m9.figshare.13531570.v1
title: Additional file 6 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 6.
DOI: 10.6084/m9.figshare.13531567.v1
title: Additional file 5 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 5.
DOI: 10.6084/m9.figshare.13531570
title: Additional file 6 of Runs of homozygosity analysis of South African sheep breeds from various production systems investigated using OvineSNP50k data

description: Additional file 6.
DOI: 10.6084/m9.figshare.13531589.v1
title: Additional file 2 of A novel long intergenic non-coding RNA, Nostrill, regulates iNOS gene transcription and neurotoxicity in microglia

description: Additional file 2: Supplementary Table 1. Primers for RT-PCR.
DOI: 10.6084/m9.figshare.13531589
title: Additional file 2 of A novel long intergenic non-coding RNA, Nostrill, regulates iNOS gene transcription and neurotoxicity in microglia

description: Additional file 2: Supplementary Table 1. Primers for RT-PCR.
DOI: 10.6084/m9.figshare.13531625.v1
title: Additional file 2 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 2. Table S1: List of tomato begomovirus isolates used across all analyses.
DOI: 10.6084/m9.figshare.13531637.v1
title: Additional file 5 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 5. Table S3: Percentage nucleic acid similarities between full and individual genomic regions of Tomato leaf curl Arusha virus-like isolates from Kenya with DNA-A component of tomato begomoviruses.
DOI: 10.6084/m9.figshare.13531634
title: Additional file 4 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 4. Fig. S1: Schematic workflow for taxonomic profiling and virus identification from tomato leaf samples in Kenya.
DOI: 10.6084/m9.figshare.13531625
title: Additional file 2 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 2. Table S1: List of tomato begomovirus isolates used across all analyses.
DOI: 10.6084/m9.figshare.13531646.v1
title: Additional file 7 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 7. Table S4: Percentage amino acid sequence similarities between open reading frames of Tomato leaf curl Arusha virus-like isolates from Kenya with DNA-A component of tomato begomoviruses.
DOI: 10.6084/m9.figshare.13531649.v1
title: Additional file 8 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 8. File 2: Aligned begomoviruses used for recombination analyses.
DOI: 10.6084/m9.figshare.13531628.v1
title: Additional file 3 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 3. Table S2: Summary of de novo assembly and sequence reads characteristics.
DOI: 10.6084/m9.figshare.13531637
title: Additional file 5 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 5. Table S3: Percentage nucleic acid similarities between full and individual genomic regions of Tomato leaf curl Arusha virus-like isolates from Kenya with DNA-A component of tomato begomoviruses.
DOI: 10.6084/m9.figshare.13531646
title: Additional file 7 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 7. Table S4: Percentage amino acid sequence similarities between open reading frames of Tomato leaf curl Arusha virus-like isolates from Kenya with DNA-A component of tomato begomoviruses.
DOI: 10.6084/m9.figshare.13531649
title: Additional file 8 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 8. File 2: Aligned begomoviruses used for recombination analyses.
DOI: 10.6084/m9.figshare.13531628
title: Additional file 3 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 3. Table S2: Summary of de novo assembly and sequence reads characteristics.
DOI: 10.6084/m9.figshare.13531634.v1
title: Additional file 4 of Metagenomic analyses and genetic diversity of Tomato leaf curl Arusha virus affecting tomato plants in Kenya

description: Additional file 4. Fig. S1: Schematic workflow for taxonomic profiling and virus identification from tomato leaf samples in Kenya.
DOI: 10.15156/bio/sh1295318.09fu
title: SH1295318.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1295319.09fu
title: SH1295319.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1295320.09fu
title: SH1295320.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1295321.09fu
title: SH1295321.09FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.