cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11316209
title: MHTyper: a microhaplotype allele-calling pipeline for use with next generation sequencing data

description: Microhaplotypes have been reported for applications in different aspects of human forensics. Next generation sequencing (NGS) possesses several advantages in microhaplotype genotyping. Large amounts of NGS-based microhaplotype data has been accumulated, and bioinformatic software designed for microhaplotype NGS data analysis is in urgent need. In this work, we introduced MHTyper, a Linux/Unix pipeline designed for efficient microhaplotype allele-calling and sequencing depth statistics. We developed an NGS-based 30-plex microhaplotype panel and used MHTyper to analyse the data produced. The allele-calling accuracy of MHTyper was evaluated by manually comparing the MHTyper-reported genotypes with those visualized, along with the well-accepted bioinformatic software Integrative Genomics Viewer. No discordance was observed in all 150 pairs for comparison. These data supported that MHTyper could provide an efficient tool for NGS-based forensic microhaplotype data analysis.
DOI: 10.6084/m9.figshare.11316209.v1
title: MHTyper: a microhaplotype allele-calling pipeline for use with next generation sequencing data

description: Microhaplotypes have been reported for applications in different aspects of human forensics. Next generation sequencing (NGS) possesses several advantages in microhaplotype genotyping. Large amounts of NGS-based microhaplotype data has been accumulated, and bioinformatic software designed for microhaplotype NGS data analysis is in urgent need. In this work, we introduced MHTyper, a Linux/Unix pipeline designed for efficient microhaplotype allele-calling and sequencing depth statistics. We developed an NGS-based 30-plex microhaplotype panel and used MHTyper to analyse the data produced. The allele-calling accuracy of MHTyper was evaluated by manually comparing the MHTyper-reported genotypes with those visualized, along with the well-accepted bioinformatic software Integrative Genomics Viewer. No discordance was observed in all 150 pairs for comparison. These data supported that MHTyper could provide an efficient tool for NGS-based forensic microhaplotype data analysis.
DOI: 10.6084/m9.figshare.11316266
title: Tables 1-9

description: Table 1 Petrological descriptionTable 2 Major-element (wt.%) concentrations of Site 1431, Site 1433, Site 1434 volcanic rocks from the South China SeaTable 3 Trace-element (ppm) concentrations of Site 1431, Site 1433, Site 1434 volcanic rocks from the South China SeaTable 4 Major-element (wt.%) concentrations of Site 1434 volcanic glass from the South China SeaTable 5 Trace-element (ppm) concentrations of Site 1434 volcanic glass from the South China SeaTable 6 Major-element (wt.%) concentrations for the olivine-spinel pairs in the Site 1431 volcanic rocks from the South China SeaTable 7 Major-element (wt.%) concentrations of olivine for Site 1431 and Site 1433 volcanic rocks from the South China SeaTable 8 Major-element (wt.%) concentrations of pyroxene for Site 1431 and Site 1433 volcanic rocks from the South China SeaTable 9 Major-element (wt.%) concentrations of feldspar for Site 1433 volcanic rocks from the South China Sea<br>
DOI: 10.6084/m9.figshare.8168672
title: Tectonic affinity of the Khanka Massif in the easternmost Central Asian Orogenic Belt: evidence from detrital zircon geochronology of Permian sedimentary rocks

description: The tectonic affiliation of the Khanka Massif, in the easternmost section of the Central Asian Orogenic Belt (CAOB), is still a matter of debate. Here, we provide new constraints on the provenance and timing of deposition of Permian strata in the western margin of the Khanka Massif. The results, which include U–Pb dating of detrital zircon grains using laser ablation–inductively coupled plasma–mass spectrometry (LA-ICP-MS), provide evidence regarding the tectonic position of the Khanka Massif and its role in the late Palaeozoic evolution of the eastern CAOB. Detrital zircon grains from a sublitharenite (Pingyangzhen Formation), a litharenite (Liangzichuan Formation), and a metamorphic siltstone (Qinglongcun Group) yielded multiple age populations ranging from Neoproterozoic (~914 Ma) to Permian (~272 Ma). Combined with age constraints from overlying/late-stage igneous rocks and other magmatism of the Khanka Massif, we conclude that the dated strata were deposited during the early–middle Permian and were sourced from the Khanka Massif. A comparison between the detrital zircon age populations and the history of magmatic activity in the neighbouring areas suggests that the Khanka Massif was tectonically linked to the Songnen–Zhangguangcai Range Massif. Based on tectonic discrimination diagrams, we conclude that the western margin of the Khanka Massif was positioned in a convergent-boundary basin during the early–middle Permian. Strike-slip faulting along the Dunhua–Mishan Fault, in response to ridge subduction of the Paleo-Asian Ocean Plate, resulted in a north-eastward movement of the Khanka Massif. The occurrence of Precambrian detrital zircon grains (with ages of 1900–1700 and 900–700 Ma) implies the presence of an ancient basement within the Khanka Massif.
DOI: 10.17877/resolv-2024-lrgkievk
title: Electronic supporting information to Maste et al. - The Accuracy Limit of Chemical Shift Predictions for Species in Aqueous Solution

description: Snapshot and optimized structures with corresponding shielding constants, example inputs
DOI: 10.5281/zenodo.10669652
title: Public Database of Map Projection Interpretation Study Results

description: The Excel file contains the raw data records of the map projection interpretation study at the Eötvös Loránd University. The data collection lasted between 23.01.2017 - 13.04.2017. The file contains one sheet holding all 331 data records.
DOI: 10.5281/zenodo.10669653
title: Public Database of Map Projection Interpretation Study Results

description: The Excel file contains the raw data records of the map projection interpretation study at the Eötvös Loránd University. The data collection lasted between 23.01.2017 - 13.04.2017. The file contains one sheet holding all 331 data records.
DOI: 10.6084/m9.figshare.21275840.v1
title: Additional file 2 of Development and validation of an MRI-based radiomic model for predicting overall survival in nasopharyngeal carcinoma patients with local residual tumors after intensity-modulated radiotherapy

description: Additional file 2. Radscore and outcome for each patient
DOI: 10.6084/m9.figshare.24947962
title: Identification of Potential Differentially-Methylated/Expressed Genes in Chronic Obstructive Pulmonary Disease

description: Chronic obstructive pulmonary disease (COPD) is a chronic inflammatory lung disease that causes obstructed airflow from the lungs. DNA methylation can regulate gene expression. Understanding the potential molecular mechanism of COPD is of great importance. The aim of this study was to find differentially methylated/expressed genes in COPD. DNA methylation and gene expression profiles in COPD were downloaded from the dataset, followed by functional analysis of differentially-methylated/expressed genes. The potential diagnostic value of these differentially-methylated/expressed genes was determined by receiver operating characteristic (ROC) analysis. Expression validation of differentially-methylated/expressed genes was performed by <i>in vitro</i> experiment and extra online datasets. Totally, 81 hypermethylated-low expression genes and 121 hypomethylated-high expression genes were found in COPD. Among which, 9 core hypermethylated-low expression genes (CD247, CCR7, CD5, IKZF1, SLAMF1, IL2RB, CD3E, CD7 and IL7R) and 8 core hypomethylated-high expression genes (TREM1, AQP9, CD300LF, CLEC12A, NOD2, IRAK3, NLRP3 and LYZ) were identified in the protein-protein interaction (PPI) network. Moreover, these genes had a potential diagnostic utility for COPD. Some signaling pathways were identified in COPD, including T cell receptor signaling pathway, cytokine-cytokine receptor interaction, hematopoietic cell lineage, HTLV-I infection, endocytosis and Jak-STAT signaling pathway. In conclusion, differentially-methylated/expressed genes and involved signaling pathways are likely to be associated with the process of COPD.
DOI: 10.6084/m9.figshare.24947962.v1
title: Identification of Potential Differentially-Methylated/Expressed Genes in Chronic Obstructive Pulmonary Disease

description: Chronic obstructive pulmonary disease (COPD) is a chronic inflammatory lung disease that causes obstructed airflow from the lungs. DNA methylation can regulate gene expression. Understanding the potential molecular mechanism of COPD is of great importance. The aim of this study was to find differentially methylated/expressed genes in COPD. DNA methylation and gene expression profiles in COPD were downloaded from the dataset, followed by functional analysis of differentially-methylated/expressed genes. The potential diagnostic value of these differentially-methylated/expressed genes was determined by receiver operating characteristic (ROC) analysis. Expression validation of differentially-methylated/expressed genes was performed by <i>in vitro</i> experiment and extra online datasets. Totally, 81 hypermethylated-low expression genes and 121 hypomethylated-high expression genes were found in COPD. Among which, 9 core hypermethylated-low expression genes (CD247, CCR7, CD5, IKZF1, SLAMF1, IL2RB, CD3E, CD7 and IL7R) and 8 core hypomethylated-high expression genes (TREM1, AQP9, CD300LF, CLEC12A, NOD2, IRAK3, NLRP3 and LYZ) were identified in the protein-protein interaction (PPI) network. Moreover, these genes had a potential diagnostic utility for COPD. Some signaling pathways were identified in COPD, including T cell receptor signaling pathway, cytokine-cytokine receptor interaction, hematopoietic cell lineage, HTLV-I infection, endocytosis and Jak-STAT signaling pathway. In conclusion, differentially-methylated/expressed genes and involved signaling pathways are likely to be associated with the process of COPD.
DOI: 10.6084/m9.figshare.11316491
title: Improved similarity coefficient and clustering algorithm for cell formation in cellular manufacturing systems

description: Cell formation plays an important role in the design of cellular manufacturing systems. Among many methods utilized to solve the cell formation problem, the similarity coefficient method is the most widely used owing to its high flexibility and low computational requirement. However, generalized similarity coefficients ignore material flow, which is closely related to operation sequence and repeated operations. Moreover, most similarity coefficient-based clustering algorithms focus on the number of inter-cell movements but disregard distinction of the movement effort. To overcome these limitations, this study improves the generalized similarity coefficient method to form part families. In addition, a new clustering algorithm is presented to assign machines to cells with minimum intensity of material inter-cell movement, which depends on the frequency, production volume and difficulty level of inter-cell movement. Experimental results demonstrate that the proposed method has superior sensitivity and effectiveness for solving the cell formation problem.
DOI: 10.6084/m9.figshare.11316491.v1
title: Improved similarity coefficient and clustering algorithm for cell formation in cellular manufacturing systems

description: Cell formation plays an important role in the design of cellular manufacturing systems. Among many methods utilized to solve the cell formation problem, the similarity coefficient method is the most widely used owing to its high flexibility and low computational requirement. However, generalized similarity coefficients ignore material flow, which is closely related to operation sequence and repeated operations. Moreover, most similarity coefficient-based clustering algorithms focus on the number of inter-cell movements but disregard distinction of the movement effort. To overcome these limitations, this study improves the generalized similarity coefficient method to form part families. In addition, a new clustering algorithm is presented to assign machines to cells with minimum intensity of material inter-cell movement, which depends on the frequency, production volume and difficulty level of inter-cell movement. Experimental results demonstrate that the proposed method has superior sensitivity and effectiveness for solving the cell formation problem.
DOI: 10.6084/m9.figshare.21802344
title: In-situ Sr isotope disequilibrium in plagioclases from Late Cenozoic basalts in Leiqiong Area: Evidence for the role of the Hainan Plume and mantle metasomatism due to a paleo-subduction event

description:  Analytical Method, Geochemical Data, and Supplementary Figures generated in this study are included in the Supplementary I, Tables S1-S6, and Figures S1-S9
DOI: 10.6084/m9.figshare.7120118.v1
title: Additional file 1: of Muscle-specific regulation of right ventricular transcriptional responses to chronic hypoxia-induced hypertrophy by the muscle ring finger-1 (MuRF1) ubiquitin ligase in mice

description: Table S1. Differentially expressed genes in MuRF1â /â mice challenged with hypoxia (XLSX 59 kb)
DOI: 10.6084/m9.figshare.16557263
title: Additional file 7 of Differences in gene expression and variable splicing events of ovaries between large and small litter size in Chinese Xiang pigs

description: Additional file 7: Table S7. DEGs and DSGs related with reproduction of pigs.
DOI: 10.6084/m9.figshare.16557245
title: Additional file 1 of Differences in gene expression and variable splicing events of ovaries between large and small litter size in Chinese Xiang pigs

description: Additional file 1: Table S1. Primers for validation of DEGs and DSGs.
DOI: 10.6084/m9.figshare.16557260
title: Additional file 6 of Differences in gene expression and variable splicing events of ovaries between large and small litter size in Chinese Xiang pigs

description: Additional file 6: Table S6. Compare of DSGs between Xiang and Large White pigs.
DOI: 10.6084/m9.figshare.16557251
title: Additional file 3 of Differences in gene expression and variable splicing events of ovaries between large and small litter size in Chinese Xiang pigs

description: Additional file 3: Table S3. The KEGG and GO enrichment for DEGs and DSGs of Xiang pig and the compares with Yorkshire pig.
DOI: 10.6084/m9.figshare.16557254.v1
title: Additional file 4 of Differences in gene expression and variable splicing events of ovaries between large and small litter size in Chinese Xiang pigs

description: Additional file 4: Table S4. DEGs and DSGs between XS and XL groups.
DOI: 10.6084/m9.figshare.16557263.v1
title: Additional file 7 of Differences in gene expression and variable splicing events of ovaries between large and small litter size in Chinese Xiang pigs

description: Additional file 7: Table S7. DEGs and DSGs related with reproduction of pigs.
DOI: 10.6084/m9.figshare.16557248
title: Additional file 2 of Differences in gene expression and variable splicing events of ovaries between large and small litter size in Chinese Xiang pigs

description: Additional file 2: Table S2. The expressed genes in the ovaries of Xiang pig with large and small litter size.
DOI: 10.15468/dl.ekcpas
title: Occurrence Download

description: A dataset containing 47 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Spigelia aceifolia Woodson"
 ]
}

 The dataset includes 47 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0286482-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ybs7qd
title: Occurrence Download

description: A dataset containing 843 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sarcosphaera Auersw."
 ]
}

 The dataset includes 843 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001288-150221044754056/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9p446e
title: Occurrence Download

description: A dataset containing 861 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Manihot glaziovii Müll.Arg."
 ]
}

 The dataset includes 861 records from 102 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0268302-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4zbgut
title: Occurrence Download

description: A dataset containing 85 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Symphurus minor Ginsburg, 1951"
 ]
}

 The dataset includes 85 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032127-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ax17nh
title: Occurrence Download

description: A dataset containing 73 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Attagis gayi I.Geoffroy Saint-Hilaire & R.Lesson, 1831",
 "Country is Chile",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 73 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001288-150330110031120/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6ey34v
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Mungotictis Pocock, 1915"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016314-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2wcxus
title: Occurrence Download

description: A dataset containing 1575 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Living Specimen",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Specimen"
 ]
 },
 "Country is Mexico",
 "TaxonKey is Pinus oocarpa Schiede ex Schltdl."
 ]
}

 The dataset includes 1575 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0313249-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rouuxe
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bythitidae",
 "Country is India"
 ]
}

 The dataset includes 12 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001289-160822134323880/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jfte2u
title: Occurrence Download

description: A dataset containing 1462543 species occurrences available in GBIF matching the query:
{
 "ProjectId" : [
 "is one of (bid-af2017-0047-nac, bid-pa2016-0002-reg, bid-af2015-0035-nac, bid-af2015-0066-reg, bid-af2015-0038-nac, bid-af2015-0004-nac, bid-af2020-083-use, bid-af2015-0122-nac, bid-af2017-0226-nac, bid-af2015-0032-nac, bid-af2015-0065-nac, bid-af2017-0039-sma, bid-af2017-0251-sma, bid-ca2020-025-nac, bid-af2015-0025-nac, bid-ca2016-0006-reg, bid-af2017-0274-nac, bid-af2015-0134-reg, bid-af2015-0069-sma, bid-af2017-0210-nac, bid-af2015-0064-nac, bid-af2015-0115-reg, bid-af2017-0103-sma, bid-pa2016-0001-nac, bid-pa2016-0005-reg, bid-af2020-014-nac, bid-ca2016-0001-nac, bid-af2020-094-nac, bid-af2015-0117-sma, bid-af2017-0206-sma, bid-af2020-038-ins, bid-af2017-0258-sma, bid-af2020-140-reg, bid-ca2016-0015-nac, bid-af2017-0311-sma, bid-af2017-0052-sma, bid-af2017-0237-nac, bid-af2017-0168-sma, bid-af2017-0385-nac, bid-af2017-0151-sma, bid-af2015-0044-sma, bid-af2015-0042-nac, bid-af2020-145-use, bid-af2017-0050-sma, bid-af2017-0310-sma, bid-ca2016-0008-nac, bid-af2020-138-ins, bid-pa2016-0009-sma, bid-af2020-194-use, bid-af2020-099-nac, bid-ca2020-008-use, bid-af2017-0174-nac, bid-af2015-0114-sma, bid-af2017-0250-sma, bid-pa2020-006-nac, bid-af2017-0301-nac, bid-ca2016-0004-sma, bid-af2017-0023-sma, bid-ca2020-048-ins, bid-ca2016-0013-sma, bid-af2017-0306-nac, bid-af2020-169-use, bid-af2017-0113-nac, bid-af2020-122-nac, bid-af2015-0124-sma, bid-af2017-0316-sma, bid-af2020-009-ins, bid-af2020-128-nac, bid-ca2020-039-nac, bid-ca2020-031-nac, bid-af2015-0046-sma, bid-ca2020-056-ins, bid-af2020-022-nac, bid-ca2020-012-ins, bid-af2015-0045-sma, bid-af2020-029-use, bid-af2017-0265-sma, bid-pa2020-010-reg, bid-af2017-0386-nac, bid-af2015-0139-sma)"
 ]
}

 The dataset includes 1462543 records from 536 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0262346-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ns5qt4
title: Occurrence Download

description: A dataset containing 409 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Erigeron breviscapus (Vaniot) Hand.-Mazz."
 ]
}

 The dataset includes 409 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0318347-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4fcyns
title: Occurrence Download

description: A dataset containing 77 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Curcuma roscoeana Wall."
 ]
}

 The dataset includes 77 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001289-170627171947987/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2jpjn3
title: Occurrence Download

description: A dataset containing 26789 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cathartes melambrotus Wetmore, 1964"
 ]
}

 The dataset includes 26789 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0286491-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.059boj
title: Occurrence Download

description: A dataset containing 449 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nyctimene albiventer papuanus K.Andersen, 1910"
 ]
}

 The dataset includes 449 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001290-150422101436696/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.35yrzm
title: Occurrence Download

description: A dataset containing 3770 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN.21.2.5_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 3770 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0298058-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.