cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7314227
title: Supplementary Material for: A New Physiologic Mouse Model of One Anastomosis Gastric Bypass

description: <b><i>Background:</i></b> One anastomosis gastric bypass (OAGB) is a modern metabolic operation that has been demonstrated to be a rapid, safe, and effective procedure. As for other bariatric operations, the mechanisms and long-term effects of this procedure remain largely unknown and are difficult to address in human studies. Here, we present a new physiologic mouse model for mechanistic and long-term investigations. <b><i>Methods:</i></b> Six-week-old C57Bl/6 mice were fed a high-fat diet for 12 weeks and scheduled for OAGB or sham operation. Mice were observed for 2 weeks after the operation, and weight and metabolic condition were monitored. <b><i>Results:</i></b> Six mice were used to adapt the surgical technique. Afterwards, another 7 mice were scheduled for OAGB without further complications. The newly established OAGB procedure resulted in significant weight loss and improvement of glucose metabolism 2 weeks after the operation. <b><i>Conclusions:</i></b> The operation presented here is an easy-to-learn and physiologic mouse model of OAGB that can be used for further studies in mice.
DOI: 10.7284/126560
title: INS (Inertial Navigation System) data collected during research cruise RR1702 using a iXSea Phins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7314227.v1
title: Supplementary Material for: A New Physiologic Mouse Model of One Anastomosis Gastric Bypass

description: <b><i>Background:</i></b> One anastomosis gastric bypass (OAGB) is a modern metabolic operation that has been demonstrated to be a rapid, safe, and effective procedure. As for other bariatric operations, the mechanisms and long-term effects of this procedure remain largely unknown and are difficult to address in human studies. Here, we present a new physiologic mouse model for mechanistic and long-term investigations. <b><i>Methods:</i></b> Six-week-old C57Bl/6 mice were fed a high-fat diet for 12 weeks and scheduled for OAGB or sham operation. Mice were observed for 2 weeks after the operation, and weight and metabolic condition were monitored. <b><i>Results:</i></b> Six mice were used to adapt the surgical technique. Afterwards, another 7 mice were scheduled for OAGB without further complications. The newly established OAGB procedure resulted in significant weight loss and improvement of glucose metabolism 2 weeks after the operation. <b><i>Conclusions:</i></b> The operation presented here is an easy-to-learn and physiologic mouse model of OAGB that can be used for further studies in mice.
DOI: 10.6084/m9.figshare.7314182
title: CHOICE Exome-seq VCF files

description: We sequenced 245 treatment naive Chinese NSCLC patients using Exome-seq and RNA-seq. The mutation profile (n=241) was compared with TCGA results. The relationship between the immune cell composition in TME and tumor genomic alteration was investigated using the immune cell signatures.
DOI: 10.7284/126565
title: INS (Inertial Navigation System) data collected during research cruise RR1702 using a Kongsberg Seapath 320+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126553
title: Meteorological Station data collected during research cruise RR1702 using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126556
title: Multibeam Echosounder data collected during research cruise RR1702 using a Kongsberg EM122 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126559
title: Winch data collected during research cruise RR1702 using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126563
title: Winch data collected during research cruise RR1702 using a Markey DUSH-5 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126578
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise RR1703 using a Hawaii UHDAS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885835
title: Additional file 2 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 2. contains all data, mined from public databases or extracted from primary literature, which was used in Random Forest and Multiple correspondence analyses. In this excel file all category definitions can be explored or even altered and reanalyzed. Sheet three of this excel file contains instructions and references.
DOI: 10.6084/m9.figshare.12885838.v1
title: Additional file 3 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 3. contains R script with all the information needed to recreate our Random Forest analyses. (R 14 kb)
DOI: 10.6084/m9.figshare.12885838
title: Additional file 3 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 3. contains R script with all the information needed to recreate our Random Forest analyses. (R 14 kb)
DOI: 10.7284/126579
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1703 using a Furuno GP-150 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885841
title: Additional file 4 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 4. contains R script with all the information needed to recreate our Multiple correspondence analyses. (R 52 kb)
DOI: 10.6084/m9.figshare.12885841.v1
title: Additional file 4 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 4. contains R script with all the information needed to recreate our Multiple correspondence analyses. (R 52 kb)
DOI: 10.6084/m9.figshare.12885844
title: Additional file 5 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 5. contains R script with all the information needed to recreate our Spearman’s rank correlation. (R 1 kb)
DOI: 10.6084/m9.figshare.12885844.v1
title: Additional file 5 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 5. contains R script with all the information needed to recreate our Spearman’s rank correlation. (R 1 kb)
DOI: 10.6084/m9.figshare.12885835.v1
title: Additional file 2 of Machine learning approaches identify male body size as the most accurate predictor of species richness

description: Additional file 2. contains all data, mined from public databases or extracted from primary literature, which was used in Random Forest and Multiple correspondence analyses. In this excel file all category definitions can be explored or even altered and reanalyzed. Sheet three of this excel file contains instructions and references.
DOI: 10.7284/126581
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1703 using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885842
title: Additional file 2 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 2 Supplementary Table S1. Comparison of our benchmark with other benchmark analyses involving imputation methods. (XLSX 11KB)
DOI: 10.6084/m9.figshare.12885848.v1
title: Additional file 4 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 4 Supplementary Table S3. Summary of all datasets used in each evaluation of this benchmark. The table includes the names, protocols, source (GEO accession numbers or links to download) and cell details of each dataset. (XLSX 16 KB)
DOI: 10.6084/m9.figshare.12885851.v1
title: Additional file 5 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 5 Supplementary Table S4. Summary of all scRNA-seq imputation methods used in each evaluation of this benchmark. The table includes the name of the method, input, output, pre-processing steps for each method that we applied, the programming language, assumptions about the method, the download date, software version number, and link to software package. (XLSX 15KB)
DOI: 10.6084/m9.figshare.12885842.v1
title: Additional file 2 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 2 Supplementary Table S1. Comparison of our benchmark with other benchmark analyses involving imputation methods. (XLSX 11KB)
DOI: 10.6084/m9.figshare.12885848
title: Additional file 4 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 4 Supplementary Table S3. Summary of all datasets used in each evaluation of this benchmark. The table includes the names, protocols, source (GEO accession numbers or links to download) and cell details of each dataset. (XLSX 16 KB)
DOI: 10.6084/m9.figshare.12885851
title: Additional file 5 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 5 Supplementary Table S4. Summary of all scRNA-seq imputation methods used in each evaluation of this benchmark. The table includes the name of the method, input, output, pre-processing steps for each method that we applied, the programming language, assumptions about the method, the download date, software version number, and link to software package. (XLSX 15KB)
DOI: 10.7284/126587
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1703 using a Trimble SPS351 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885845
title: Additional file 3 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 3 Supplementary Table S2. Table of the Spearman correlation coefficients (SCC) shown in Fig. 2d, h filled circles between the number of cells and the correlation scores. We used the Spearman correlation coefficients (SCC) of an imputation method (values in heatmap Fig. 2d) and the number of cells in the columns as inputs to calculate the Spearman correlation between the number of cells and the scores. (CSV 1 KB)
DOI: 10.6084/m9.figshare.12885854.v1
title: Additional file 6 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 6 Supplementary Table S5. Values of all three efficient measures in time, memory and scalability using all four datasets. The table include the computation time and memory of four datasets with 103,5×103,5×104,105 cells for all imputation methods. Scalability is the coefficient of the cell number of each dataset in the linear model where the number of cells on the log10-scale is fitted against the computation time. (CSV 3 KB)
DOI: 10.7284/126585
title: HDSS (Hydrographic Doppler Sonar System) data collected during research cruise RR1703 using a SIO HDSS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885845.v1
title: Additional file 3 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 3 Supplementary Table S2. Table of the Spearman correlation coefficients (SCC) shown in Fig. 2d, h filled circles between the number of cells and the correlation scores. We used the Spearman correlation coefficients (SCC) of an imputation method (values in heatmap Fig. 2d) and the number of cells in the columns as inputs to calculate the Spearman correlation between the number of cells and the scores. (CSV 1 KB)
DOI: 10.7284/126584
title: INS (Inertial Navigation System) data collected during research cruise RR1703 using a iXSea Phins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885854
title: Additional file 6 of A systematic evaluation of single-cell RNA-sequencing imputation methods

description: Additional file 6 Supplementary Table S5. Values of all three efficient measures in time, memory and scalability using all four datasets. The table include the computation time and memory of four datasets with 103,5×103,5×104,105 cells for all imputation methods. Scalability is the coefficient of the cell number of each dataset in the linear model where the number of cells on the log10-scale is fitted against the computation time. (CSV 3 KB)
DOI: 10.7284/126588
title: INS (Inertial Navigation System) data collected during research cruise RR1703 using a Kongsberg Seapath 320+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126577
title: Meteorological Station data collected during research cruise RR1703 using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885874.v1
title: Additional file 13 of Dissecting the genetic basis of wheat blast resistance in the Brazilian wheat cultivar BR 18-Terena

description: Additional file 13. Genotype and phenotype datasets for both the Anahuac 75 × BR 18 and BR 18 × BRS 179 F6 RIL populations.
DOI: 10.7284/126580
title: Multibeam Echosounder data collected during research cruise RR1703 using a Kongsberg EM122 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7314101
title: Additional file 4: of Genomic analysis of the Phalaenopsis pathogen Dickeya sp. PA1, representing the emerging species Dickeya fangzhongdai

description: A functional prediction of the genes encoded by each GI predicted in the PA1 genome. Twenty GIs were predicted from the PA1 genome. Genomic regions indicate the exact genomic positions of each GI. Locus tags indicate genes encoded within the genome sequences of each GI. The predicted COG functions indicate the functional annotation based on the COG database. PK/NRP clusters were predicted within GI13, GI14 and GI20, including B6N31_13175â B6N31_13415, B6N31_15010â B6N31_15240, B6N31_21480â B6N31_21670. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.12885874
title: Additional file 13 of Dissecting the genetic basis of wheat blast resistance in the Brazilian wheat cultivar BR 18-Terena

description: Additional file 13. Genotype and phenotype datasets for both the Anahuac 75 × BR 18 and BR 18 × BRS 179 F6 RIL populations.
DOI: 10.7284/126583
title: Winch data collected during research cruise RR1703 using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7314101.v1
title: Additional file 4: of Genomic analysis of the Phalaenopsis pathogen Dickeya sp. PA1, representing the emerging species Dickeya fangzhongdai

description: A functional prediction of the genes encoded by each GI predicted in the PA1 genome. Twenty GIs were predicted from the PA1 genome. Genomic regions indicate the exact genomic positions of each GI. Locus tags indicate genes encoded within the genome sequences of each GI. The predicted COG functions indicate the functional annotation based on the COG database. PK/NRP clusters were predicted within GI13, GI14 and GI20, including B6N31_13175â B6N31_13415, B6N31_15010â B6N31_15240, B6N31_21480â B6N31_21670. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.12885901.v1
title: Additional file 9 of Dissecting the genetic basis of wheat blast resistance in the Brazilian wheat cultivar BR 18-Terena

description: Additional file 9. Haplotype data for 100 Brazilian cultivars at the 1A, 2B, 4A and 5A QTL regions.
DOI: 10.7284/126586
title: Winch data collected during research cruise RR1703 using a Markey DUSH-5 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126606
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise RR1705 using a Hawaii UHDAS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885901
title: Additional file 9 of Dissecting the genetic basis of wheat blast resistance in the Brazilian wheat cultivar BR 18-Terena

description: Additional file 9. Haplotype data for 100 Brazilian cultivars at the 1A, 2B, 4A and 5A QTL regions.
DOI: 10.7284/126614
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise RR1705 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126618
title: Expendable Probe data collected during research cruise RR1705 using a Turo Quoll instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126607
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1705 using a Furuno GP-150 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7314077
title: Additional file 2: of Genomic analysis of the Phalaenopsis pathogen Dickeya sp. PA1, representing the emerging species Dickeya fangzhongdai

description: Calculation of isDDH between the genome sequences of D. fangzhongdai PA1 and other Dickeya strains. The GGDC web service ( http://ggdc.dsmz.de/ggdc.php ) uses three specific distance formulas (formulas 1â 3) to calculate single genome-to-genome distance values; formula 2 is recommended for incomplete genomes. (XLSX 13 kb)
DOI: 10.7284/126609
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1705 using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7314077.v1
title: Additional file 2: of Genomic analysis of the Phalaenopsis pathogen Dickeya sp. PA1, representing the emerging species Dickeya fangzhongdai

description: Calculation of isDDH between the genome sequences of D. fangzhongdai PA1 and other Dickeya strains. The GGDC web service ( http://ggdc.dsmz.de/ggdc.php ) uses three specific distance formulas (formulas 1â 3) to calculate single genome-to-genome distance values; formula 2 is recommended for incomplete genomes. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.7314071
title: Additional file 1: of Evolution and functional characterization of pectate lyase PEL12, a member of a highly expanded Clonostachys rosea polysaccharide lyase 1 family

description: Table S1. PL1 genes in to date available Sordariomycetes genomes together with plant pathogenic Leotiomycetes Botrytis cinerea and Sclerotinia sclerotiorum. For the presentation reasons the orthologues from Sordariomycetes, B. cinerea and S. sclerotiorum are assigned to one of the 17 C. rosea PL1 genes based on the highest E-value. Genome references: [24, 35, 36, 75â 101]. Table S2. PCR and qPCR primers used in this study. PE annotate primer efficiency. attB and attBr site sequences are shown in lowercase. (XLSX 19 kb)
DOI: 10.7284/126616
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1705 using a Trimble SPS351 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7314071.v1
title: Additional file 1: of Evolution and functional characterization of pectate lyase PEL12, a member of a highly expanded Clonostachys rosea polysaccharide lyase 1 family

description: Table S1. PL1 genes in to date available Sordariomycetes genomes together with plant pathogenic Leotiomycetes Botrytis cinerea and Sclerotinia sclerotiorum. For the presentation reasons the orthologues from Sordariomycetes, B. cinerea and S. sclerotiorum are assigned to one of the 17 C. rosea PL1 genes based on the highest E-value. Genome references: [24, 35, 36, 75â 101]. Table S2. PCR and qPCR primers used in this study. PE annotate primer efficiency. attB and attBr site sequences are shown in lowercase. (XLSX 19 kb)
DOI: 10.7284/126613
title: HDSS (Hydrographic Doppler Sonar System) data collected during research cruise RR1705 using a SIO HDSS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126612
title: INS (Inertial Navigation System) data collected during research cruise RR1705 using a iXSea Phins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126617
title: INS (Inertial Navigation System) data collected during research cruise RR1705 using a Kongsberg Seapath 320+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126605
title: Meteorological Station data collected during research cruise RR1705 using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885962.v1
title: Additional file 1 of The receptor binding domain of SARS-CoV-2 spike protein is the result of an ancestral recombination between the bat-CoV RaTG13 and the pangolin-CoV MP789

description: Additional file 1: Table S1. Information of the sequences of SARS-Cov-2 and other CoVs used in this study. Accession number, isolate, origin, date of collection, host, host common name, sequence size and data source of the Spike gene sequences used in this study.
DOI: 10.6084/m9.figshare.12885962
title: Additional file 1 of The receptor binding domain of SARS-CoV-2 spike protein is the result of an ancestral recombination between the bat-CoV RaTG13 and the pangolin-CoV MP789

description: Additional file 1: Table S1. Information of the sequences of SARS-Cov-2 and other CoVs used in this study. Accession number, isolate, origin, date of collection, host, host common name, sequence size and data source of the Spike gene sequences used in this study.
DOI: 10.7284/126608
title: Multibeam Echosounder data collected during research cruise RR1705 using a Kongsberg EM122 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126611
title: Winch data collected during research cruise RR1705 using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/126615
title: Winch data collected during research cruise RR1705 using a Markey DUSH-5 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition