cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc27q088
title: CCDC 2076729: Experimental Crystal Structure Determination

description: Related Article: Songül Şahin, Necmi Dege|2021|Polyhedron|205|115320|doi:10.1016/j.poly.2021.115320
DOI: 10.5281/zenodo.5034890
title: Impacts of biomass burning in peninsular Southeast Asia on the PM2.5 and ozone formation in southern China during springtime – A case study

description: Abstract: Biomass burning (BB) affects fine particulate matter (PM<sub>2.5</sub>) and ozone (O<sub>3</sub>) formations by emitting their gaseous precursors and primary aerosols. Impacts of BB in peninsular Southeast Asia (BB-PSEA) are evaluated on the PM<sub>2.5</sub> and O<sub>3</sub> formations in southern China, using a source-oriented WRF-Chem model to simulate an air pollution episode from 21 to 25 March 2015. The source-oriented model separates the emission from the BB-PSEA and other sources and is able to evaluate the effect of aerosol-radiation interactions (ARI) and aerosol-photolysis interactions (API) from the BB-PSEA. Comparisons with observations reveal that the model performs well in simulating the air pollution episode. Sensitivity experiments show that BB-PSEA increases PM<sub>2.5</sub> concentrations by 39.3 μg m<sup>-3</sup> (68.0%) in Yunnan Province (YNP) and 8.4 μg m<sup>-3</sup> (24.1%) in other downwind areas (ODA) in southern China (including the provinces of Guizhou, Guangxi, Hunan, Guangdong, Jiangxi, Fujian, and Zhejiang) on the regional average. The PM<sub>2.5</sub> enhancement is mainly contributed by primary aerosols in YNP but by secondary aerosols in the ODA. The BB-PSEA increases O<sub>3</sub> concentrations of 18.1 μg m<sup>-3 </sup>(19.4%) in YNP and decreases O<sub>3 </sub>concentrations in the ODA by 3.7 μg m<sup>-3</sup> (5.3%). The O<sub>3</sub> increase in YNP is contributed by the gaseous emissions of the BB-PSEA, and the O<sub>3</sub> decrease in the ODA is caused by the effects of ARI and API of the BB-PSEA. The NH<sub>3</sub> emissions from the BB-PSEA plays a key role in enhancing secondary inorganic aerosols in southern China, and also determine the PM<sub>2.5</sub> increase in the ODA.
DOI: 10.5281/zenodo.5034888
title: Ceyx melanurus SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5034887
title: Ceyx melanurus SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5034895
title: Doryrhamphus excisus SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5034894
title: Doryrhamphus excisus SPAdes preassembly

description: .
DOI: 10.6084/m9.figshare.14843037
title: LabPtPTm21125km 7-channel DP-16QAM WDM transmission using quantum random source

description: 1125km 7-channel DP-16QAM WDM transmission using quantum random source
DOI: 10.6084/m9.figshare.14843037.v1
title: LabPtPTm2

description: 1125km 7-channel DP-16QAM WDM transmission using quantum random source
DOI: 10.6084/m9.figshare.14852994
title: Perceived personalization, trust, and news diversity of personalized news services and their effect on users’ continuance intention

description: Dataset associated with the paper 'Perceived personalization, trust, and news diversity of personalized news services and their effect on users’ continuance intention'.
DOI: 10.6084/m9.figshare.14852994.v1
title: Perceived personalization, trust, and news diversity of personalized news services and their effect on users’ continuance intention

description: Dataset associated with the paper 'Perceived personalization, trust, and news diversity of personalized news services and their effect on users’ continuance intention'.
DOI: 10.5519/qd.aor73wgu
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (188 records)
DOI: 10.5281/zenodo.5034912
title: Metabolic pathway prediction using non-negative matrix factorization with improved precision

description: We include samples of various data types used in the work "Metabolic pathway prediction using non-negative matrix factorization with improved precision" More information about the software package and instructions are provided in hallamlab/triUMPF
DOI: 10.5281/zenodo.3711137
title: Metabolic pathway prediction using non-negative matrix factorization with improved precision

description: We include samples of various data types used in the work "Metabolic pathway prediction using non-negative matrix factorization with improved precision" More information about the software package and instructions are provided in hallamlab/triUMPF
DOI: 10.6084/m9.figshare.14853617.v1
title: Additional file 6 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 6: Table S7. Pearson correlation between cell type-specific EWAS loci and reference loci for cell type deconvolution.
DOI: 10.6084/m9.figshare.14853614.v1
title: Additional file 5 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 5: Table S6. Significant findings of interaction effects under the alternative interaction detection framework.
DOI: 10.6084/m9.figshare.14853611.v1
title: Additional file 4 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 4: Table S5. Cell type-specific CpG methylation significantly associated with 3-year-old body mass index z-score.
DOI: 10.6084/m9.figshare.14853608.v1
title: Additional file 3 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 3: Table S4. Gene Ontology enrichment based on target genes harboring CpG with cell type-specific differential methylation associated with gestational diabetes mellitus.
DOI: 10.6084/m9.figshare.14853605.v1
title: Additional file 2 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 2: Table S3. Cell type-specific CpG methylation significantly associated with gestational diabetes mellitus.
DOI: 10.6084/m9.figshare.14853548.v1
title: Additional file 7 of LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival

description: Additional file 7: Table S3. Correlation of expression changes and APA changes in TCGA and ENCODE data. A positive correlation indicates that an increase in gene expression was associated with an increase in ψ. Put another way, a positive correlation indicates that increased gene expression was associated with increased distal polyA site usage, while a negative correlation indicates that increased gene expression was associated with increased proximal polyA site usage. Spearman correlation coefficients were calculated across all sample pairs (tumor and matched control in TCGA data, RBP knockdown and control knockdown in ENCODE data) in which the gene was expressed (TPM &gt; 5). If a gene was not expressed in any sample pair, the correlation is noted as NA.
DOI: 10.6084/m9.figshare.14853545.v1
title: Additional file 6 of LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival

description: Additional file 6: Table S2. Delta ψ values (defined as RBP knockdown - control knockdown) for all RBP knockdowns in the ENCODE K562 data. Only genes with significant FDR values (less than 0.05) are shown. Delta ψ for genes that did not meet this threshold are indicated as NA.
DOI: 10.6084/m9.figshare.14853542.v1
title: Additional file 5 of LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival

description: Additional file 5: Table S1. Delta ψ values (defined as RBP knockdown - control knockdown) for all RBP knockdowns in the ENCODE HepG2 data. Only genes with significant FDR values (less than 0.05) are shown. Delta ψ for genes that did not meet this threshold are indicated as NA.
DOI: 10.6084/m9.figshare.14853458.v1
title: Additional file 6 of Large-scale literature mining to assess the relation between anti-cancer drugs and cancer types

description: Additional file 6: Text file with cancer type synonyms used for the literature search.
DOI: 10.6084/m9.figshare.14853443.v1
title: Additional file 1 of Large-scale literature mining to assess the relation between anti-cancer drugs and cancer types

description: Additional file 1:Zipped archive of the co-occurence graphs for all tumor types. Each co-occurrence graph contains all compounds in the context of the corresponding cancer type. Two compounds are connected if they show a highly significant co-occurrence with a − log10 p-value $$&gt; 50$$ &gt; 50 . The color reflects the target pathway of the compound (extracted from the GDSC database (RRID:SCR_011956)).
DOI: 10.6084/m9.figshare.14853438.v1
title: Additional file 7 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 7. Table S3: Identifiers and positions of contigs used to create the COMGENOME dataset.
DOI: 10.6084/m9.figshare.14853435.v1
title: Additional file 6 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 6. Table S2B: Identifiers and positions of contigs used to create the testing set.
DOI: 10.6084/m9.figshare.14853432.v1
title: Additional file 5 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 5. Table S2A: Identifiers and positions of contigs used to create the balanced training set.
DOI: 10.6084/m9.figshare.14853429.v1
title: Additional file 4 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 4. Table S1: Empirical distribution of contig sizes used to cut complete genomes into contigs.
DOI: 10.6084/m9.figshare.14853426.v1
title: Additional file 3 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 3. List S2: Identifiers of contigs used to create the METAGENOME dataset.
DOI: 10.6084/m9.figshare.14853423.v1
title: Additional file 2 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 2. List S1: Identifiers of contigs used to create the CONTIG dataset.
DOI: 10.6084/m9.figshare.14853407.v1
title: Additional file 1 of The characterization of key physiological traits of medicinal cannabis (Cannabis sativa L.) as a tool for precision breeding

description: Additional file 1: Table S1 Correlation coefficient and P-values demonstrating the association between physiological traits.
DOI: 10.6084/m9.figshare.14853380.v1
title: Additional file 7 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 7.
DOI: 10.6084/m9.figshare.14853377.v1
title: Additional file 6 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 6.
DOI: 10.6084/m9.figshare.14853374.v1
title: Additional file 5 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 5.
DOI: 10.6084/m9.figshare.14853371.v1
title: Additional file 4 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 4.
DOI: 10.6084/m9.figshare.14853368.v1
title: Additional file 3 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 3.
DOI: 10.6084/m9.figshare.14853365.v1
title: Additional file 2 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 2.
DOI: 10.6084/m9.figshare.14853362.v1
title: Additional file 1 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 1.
DOI: 10.6084/m9.figshare.13150943
title: Taxon-threat-impact dataset

description: Here we compile the first complete, validated, and consistent taxon-specific threat and threat impact dataset for all 1,795 nationally listed threatened plants and animals in Australia. The dataset utilises the IUCN methods to identify threat types, their relative impacts, as well as defining eight broad-level threats and 48 sub-category threats to help inform conservation actions needed within Australia.
DOI: 10.5281/zenodo.5033307
title: ThermoCodegen Fo-SiO2 database

description: ThermoCodegen v0.6.7 generated thermodynamic database for the Forsterite-SiO2 binary system developed by Lucy Tweed, 2021 This system is described by a custom <strong>Thermodynamic Database</strong> consisting of four phases, constructed from five endmembers. The first phase is silicate <strong>Liquid</strong> constructed as an assymetric regular solution between two endmembers: Forsterite (Mg<sub>2</sub>SiO<sub>4</sub><sup>lq</sup>) Qz4 (Si<sub>2</sub>O<sub>4</sub><sup>lq</sup>) where Mg<sub>2</sub>SiO<sub>4</sub><sup>lq</sup> is the forsteritic xMelts model and Qz4 is an endmember constructed from two moles of an xMelts SiO<sub>2</sub><sup>lq</sup> model. The next three phases are pure phases each constructed from a single endmember Olivine (endmember: Forsterite, Mg<sub>2</sub>SiO<sub>4</sub><sup>ol</sup>) Opx (endmember: Orthoenstatite, MgSiO<sub>3</sub><sup>opx</sup>) pQz (endmember: polymorphic SiO<sub>2</sub>, SiO<sub>2</sub><sup>qz</sup>) where pQz is constructed from a single polymorphic endmember (see below). All of the mineral endmembers are from (Berman, 1988)
DOI: 10.5281/zenodo.5033306
title: ThermoCodegen Fo-SiO2 database

description: ThermoCodegen v0.6.7 generated thermodynamic database for the Forsterite-SiO2 binary system developed by Lucy Tweed, 2021 This system is described by a custom <strong>Thermodynamic Database</strong> consisting of four phases, constructed from five endmembers. The first phase is silicate <strong>Liquid</strong> constructed as an assymetric regular solution between two endmembers: Forsterite (Mg<sub>2</sub>SiO<sub>4</sub><sup>lq</sup>) Qz4 (Si<sub>2</sub>O<sub>4</sub><sup>lq</sup>) where Mg<sub>2</sub>SiO<sub>4</sub><sup>lq</sup> is the forsteritic xMelts model and Qz4 is an endmember constructed from two moles of an xMelts SiO<sub>2</sub><sup>lq</sup> model. The next three phases are pure phases each constructed from a single endmember Olivine (endmember: Forsterite, Mg<sub>2</sub>SiO<sub>4</sub><sup>ol</sup>) Opx (endmember: Orthoenstatite, MgSiO<sub>3</sub><sup>opx</sup>) pQz (endmember: polymorphic SiO<sub>2</sub>, SiO<sub>2</sub><sup>qz</sup>) where pQz is constructed from a single polymorphic endmember (see below). All of the mineral endmembers are from (Berman, 1988)
DOI: 10.6084/m9.figshare.14853203.v1
title: Additional file 5 of Construction of a high-density linkage map and graphical representation of the arrangement of transcriptome-based unigene markers on the chromosomes of onion, Allium cepa L.

description: Additional file 5.
DOI: 10.6084/m9.figshare.14853200.v1
title: Additional file 4 of Construction of a high-density linkage map and graphical representation of the arrangement of transcriptome-based unigene markers on the chromosomes of onion, Allium cepa L.

description: Additional file 4.
DOI: 10.6084/m9.figshare.14853197.v1
title: Additional file 3 of Construction of a high-density linkage map and graphical representation of the arrangement of transcriptome-based unigene markers on the chromosomes of onion, Allium cepa L.

description: Additional file 3.
DOI: 10.6084/m9.figshare.14853194.v1
title: Additional file 2 of Construction of a high-density linkage map and graphical representation of the arrangement of transcriptome-based unigene markers on the chromosomes of onion, Allium cepa L.

description: Additional file 2.
DOI: 10.6084/m9.figshare.14853191.v1
title: Additional file 1 of Construction of a high-density linkage map and graphical representation of the arrangement of transcriptome-based unigene markers on the chromosomes of onion, Allium cepa L.

description: Additional file 1.
DOI: 10.6084/m9.figshare.14853066.v1
title: Additional file 1 of Genome-wide identification of AP2/EREBP in Fragaria vesca and expression pattern analysis of the FvDREB subfamily under drought stress

description: Additional file 1. The details information of AP2/EPEBP and DREB contain gene name, gene ID, homologous, synteny, segmental duplication, promoter analysis, primer sequence and transcriptome data.
DOI: 10.6084/m9.figshare.14853617
title: Additional file 6 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 6: Table S7. Pearson correlation between cell type-specific EWAS loci and reference loci for cell type deconvolution.
DOI: 10.6084/m9.figshare.14853614
title: Additional file 5 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 5: Table S6. Significant findings of interaction effects under the alternative interaction detection framework.
DOI: 10.6084/m9.figshare.14853611
title: Additional file 4 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 4: Table S5. Cell type-specific CpG methylation significantly associated with 3-year-old body mass index z-score.
DOI: 10.6084/m9.figshare.14853608
title: Additional file 3 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 3: Table S4. Gene Ontology enrichment based on target genes harboring CpG with cell type-specific differential methylation associated with gestational diabetes mellitus.
DOI: 10.6084/m9.figshare.14853605
title: Additional file 2 of Detecting cord blood cell type-specific epigenetic associations with gestational diabetes mellitus and early childhood growth

description: Additional file 2: Table S3. Cell type-specific CpG methylation significantly associated with gestational diabetes mellitus.
DOI: 10.6084/m9.figshare.14853548
title: Additional file 7 of LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival

description: Additional file 7: Table S3. Correlation of expression changes and APA changes in TCGA and ENCODE data. A positive correlation indicates that an increase in gene expression was associated with an increase in ψ. Put another way, a positive correlation indicates that increased gene expression was associated with increased distal polyA site usage, while a negative correlation indicates that increased gene expression was associated with increased proximal polyA site usage. Spearman correlation coefficients were calculated across all sample pairs (tumor and matched control in TCGA data, RBP knockdown and control knockdown in ENCODE data) in which the gene was expressed (TPM &gt; 5). If a gene was not expressed in any sample pair, the correlation is noted as NA.
DOI: 10.6084/m9.figshare.14853545
title: Additional file 6 of LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival

description: Additional file 6: Table S2. Delta ψ values (defined as RBP knockdown - control knockdown) for all RBP knockdowns in the ENCODE K562 data. Only genes with significant FDR values (less than 0.05) are shown. Delta ψ for genes that did not meet this threshold are indicated as NA.
DOI: 10.6084/m9.figshare.14853542
title: Additional file 5 of LABRAT reveals association of alternative polyadenylation with transcript localization, RNA binding protein expression, transcription speed, and cancer survival

description: Additional file 5: Table S1. Delta ψ values (defined as RBP knockdown - control knockdown) for all RBP knockdowns in the ENCODE HepG2 data. Only genes with significant FDR values (less than 0.05) are shown. Delta ψ for genes that did not meet this threshold are indicated as NA.
DOI: 10.6084/m9.figshare.14853458
title: Additional file 6 of Large-scale literature mining to assess the relation between anti-cancer drugs and cancer types

description: Additional file 6: Text file with cancer type synonyms used for the literature search.
DOI: 10.6084/m9.figshare.14853443
title: Additional file 1 of Large-scale literature mining to assess the relation between anti-cancer drugs and cancer types

description: Additional file 1:Zipped archive of the co-occurence graphs for all tumor types. Each co-occurrence graph contains all compounds in the context of the corresponding cancer type. Two compounds are connected if they show a highly significant co-occurrence with a − log10 p-value $$&gt; 50$$ &gt; 50 . The color reflects the target pathway of the compound (extracted from the GDSC database (RRID:SCR_011956)).
DOI: 10.6084/m9.figshare.14853438
title: Additional file 7 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 7. Table S3: Identifiers and positions of contigs used to create the COMGENOME dataset.
DOI: 10.6084/m9.figshare.14853435
title: Additional file 6 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 6. Table S2B: Identifiers and positions of contigs used to create the testing set.
DOI: 10.6084/m9.figshare.14853432
title: Additional file 5 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 5. Table S2A: Identifiers and positions of contigs used to create the balanced training set.
DOI: 10.6084/m9.figshare.14853429
title: Additional file 4 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 4. Table S1: Empirical distribution of contig sizes used to cut complete genomes into contigs.
DOI: 10.6084/m9.figshare.14853426
title: Additional file 3 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 3. List S2: Identifiers of contigs used to create the METAGENOME dataset.
DOI: 10.6084/m9.figshare.14853423
title: Additional file 2 of PlasForest: a homology-based random forest classifier for plasmid detection in genomic datasets

description: Additional file 2. List S1: Identifiers of contigs used to create the CONTIG dataset.
DOI: 10.6084/m9.figshare.14853407
title: Additional file 1 of The characterization of key physiological traits of medicinal cannabis (Cannabis sativa L.) as a tool for precision breeding

description: Additional file 1: Table S1 Correlation coefficient and P-values demonstrating the association between physiological traits.
DOI: 10.6084/m9.figshare.14853380
title: Additional file 7 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 7.
DOI: 10.6084/m9.figshare.14853377
title: Additional file 6 of Identification and monitoring of mutations in circulating cell-free tumor DNA in hepatocellular carcinoma treated with lenvatinib

description: Additional file 6.