cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11813907.v1
title: Additional file 2 of Poor clinical outcome in metastatic melanoma is associated with a microRNA-modulated immunosuppressive tumor microenvironment

description: Additional file 2. Negatively correlated MTG pairs. MTG pairs identified with a negative Pearson correlation coefficient of − 0.4 or less are listed. We also included information about the differential expression test, such as log fold change (LFC) and adjusted p-values (G3 related to G2) and about the survival log-rank test, such as hazard ratio (HR), confidence interval (CI) and p-value, for both target genes and miRNA that present impact on overall survival (High versus Low). We also indicate if the miRNAs were identified as circulating according to the miRandola database and putative cell of origin of the genes listed. MTG: miRNA-target gene. LFC: Log Fold Change. HR: Hazard Ratio. CI: Confidence Interval.
DOI: 10.6084/m9.figshare.11813595
title: Supplementary Silver Carp and Gizzard Shad Stable Isotope Data

description: All specimens were handled and euthanized according to the Murray State University Institutional Animal Care and Use Committee (IACUC) protocol number 2014-008. Fish from all five sites were collected by boat electrofishing with a MLES infinity control box, twin booms, and umbrella array droppers 68.6 m, 10.1 cm bar mesh monofilament gill nets. On June 29th of 2016, Silver Carp and Gizzard Shad were collected from the Ohio River, Clarks River, and downstream of Kentucky Dam on the Tennessee River. These same species were collected from the Illinois River on June 30th of 2016. Lastly, Silver Carp and Gizzard Shad were collected from Kentucky Lake throughout the month of June, 2015. All fish were sacrificed for biological sample collection. We measured total length (mm), and extracted a dorsal muscle tissue sample for stable isotope analysis using a 10 mm stainless steel biopsy punch. After extraction, all dorsal muscle plugs were placed into Whirl-Pak bags then immediately placed on ice and frozen for later processing. <br>White dorsal muscle tissue samples taken for stable isotope analysis from Silver Carp and Gizzard Shad were oven dried at 50˚C for a minimum of 48 hours and ground into a fine powder with a mortar and pestle. After grinding, the samples were placed back into the drying oven for an additional 48 hours to ensure the sample was thoroughly dry. Once dry, the powder was evenly mixed and 0.31- 0.34 milligrams of fish tissue was loaded into Costech pressed 3.5x5 mm tin capsules. Ground samples were analyzed using a Costech Elemental Combustion System 4010 along with a Thermo Delta V Plus Isotope Ratio Mass Spectrometer to obtain isotopic ratios of the samples. The analytical precision of δ13C and δ15N was ±0.06 per mil relative to the standards Vienna Pee Dee Belemnite (VPDB) and air (AIR) for carbon and nitrogen, respectively.
DOI: 10.6084/m9.figshare.11813439
title: Diabetes_Project_Dataset.xlsx

description: Dataset from retrospective review of patients with diabetes in a short-term medical mission clinic. Please note confidential personal health information such as date of birth, date of death, and exact age over 89 years have been removed.
DOI: 10.6084/m9.figshare.11812116
title: The environmental consequences of a weakening US-China crop trade relationship

description: Figure 2, 3 4 of the paper "The environmental consequences of a weakening US-China crop trade relationship"
DOI: 10.6084/m9.figshare.11812116.v1
title: The environmental consequences of a weakening US-China crop trade relationship

description: Figure 2, 3 4 of the paper "The environmental consequences of a weakening US-China crop trade relationship"
DOI: 10.6084/m9.figshare.11812029
title: Data for Keiser et al 2016 - Animal Behaviour.xlsx

description: This file contains the raw data for Keiser et al 2016, Animal Behaviour. This experiment tested the effects of increased cuticular bacterial load on the influence of putative keystone individuals on colonies' collective behaviors.
DOI: 10.6084/m9.figshare.11812029.v1
title: Data for Keiser et al 2016 - Animal Behaviour.xlsx

description: This file contains the raw data for Keiser et al 2016, Animal Behaviour. This experiment tested the effects of increased cuticular bacterial load on the influence of putative keystone individuals on colonies' collective behaviors.
DOI: 10.6084/m9.figshare.11811771
title: slab symmetry, p = 1e6, w = 1e-4

description: slab symmetry, p = 1e6, w = 1e-4
DOI: 10.6084/m9.figshare.11811771.v1
title: slab symmetry, p = 1e6, w = 1e-4

description: slab symmetry, p = 1e6, w = 1e-4
DOI: 10.6084/m9.figshare.11811765
title: Eutrophication, biodiversity loss, and species invasions modify the relationship between host and parasite richness during host community assembly

description: Data and code supporting the manuscript, Eutrophication, biodiversity loss, and species invasions modify the relationship between host and parasite richness during host community assembly
DOI: 10.6084/m9.figshare.11811765.v1
title: Eutrophication, biodiversity loss, and species invasions modify the relationship between host and parasite richness during host community assembly

description: Data and code supporting the manuscript, Eutrophication, biodiversity loss, and species invasions modify the relationship between host and parasite richness during host community assembly
DOI: 10.6084/m9.figshare.11811669
title: PL0SS.3

description: Data from simulation PL0SS.3 from Almeida & Nemmen 2020.
DOI: 10.6084/m9.figshare.11811669.v1
title: PL0SS.3

description: Data from simulation PL0SS.3 from Almeida & Nemmen 2020.
DOI: 10.6084/m9.figshare.11811567
title: SUPP_TABLE.xlsx

description: Conservation of bipartite nuclear localization sequence in 50 vertebrates<br>
DOI: 10.6084/m9.figshare.11811567.v1
title: SUPP_TABLE.xlsx

description: Conservation of bipartite nuclear localization sequence in 50 vertebrates<br>
DOI: 10.6084/m9.figshare.11809470
title: Berkeley Multimodal Human Action Database (MHAD)

description: Data.rar: generated synthetic MI motion data corresponding to each MoCap sample in separate fileData.npy: generated synthetic MI motion dataset in one numpy file
DOI: 10.6084/m9.figshare.11809326
title: Biological Motion Library (BML)

description: Data.rar: generated synthetic MI motion data corresponding to each MoCap sample in separate fileData.npy: generated synthetic MI motion dataset in one numpy file
DOI: 10.6084/m9.figshare.11809245
title: Literature compilation of volatile <i>N</i>-nitrosamines in processed meat and poultry products - an update

description: A compilation of volatile <i>N</i>-nitrosamine levels in processed (e.g., cured, canned, smoked) meat and poultry products is presented. Over 1800 samples of processed meat products including bacon, ham, salami, sausage, and various other processed meat and poultry products have been examined for the presence of eight volatile <i>N</i>-nitrosamines. The database compiled from the literature is based on 25 references published for the period of 1985 to 2018 from 14 countries. <i>N</i>-nitrosodimethylamine (NDMA), <i>N</i>-nitrosopiperidine (NPIP), and <i>N</i>-nitrosopyrrolidine (NPYR), are the most frequently identified volatile <i>N</i>-nitrosamines occurring in processed meat and poultry products. N-nitrosodiethylamine (NDEA), and <i>N</i>-nitrosodibutylamine (NDBA) are also frequently observed to a lesser extent. The processed meat and poultry products with the highest levels of volatile <i>N</i>-nitrosamines were pork (fried, fat only eaten), poultry (fried), poultry (spiced, grilled), and bacon (fried).
DOI: 10.6084/m9.figshare.11809242
title: Dataset: Tracking the assembly of nested parasite communities

description: Data from Moss et al. <i>Tracking the assembly of nested parasite communities: using beta-diversity to understand variation in parasite richness and composition over time and scale. </i>
DOI: 10.6084/m9.figshare.11809245.v1
title: Literature compilation of volatile <i>N</i>-nitrosamines in processed meat and poultry products - an update

description: A compilation of volatile <i>N</i>-nitrosamine levels in processed (e.g., cured, canned, smoked) meat and poultry products is presented. Over 1800 samples of processed meat products including bacon, ham, salami, sausage, and various other processed meat and poultry products have been examined for the presence of eight volatile <i>N</i>-nitrosamines. The database compiled from the literature is based on 25 references published for the period of 1985 to 2018 from 14 countries. <i>N</i>-nitrosodimethylamine (NDMA), <i>N</i>-nitrosopiperidine (NPIP), and <i>N</i>-nitrosopyrrolidine (NPYR), are the most frequently identified volatile <i>N</i>-nitrosamines occurring in processed meat and poultry products. N-nitrosodiethylamine (NDEA), and <i>N</i>-nitrosodibutylamine (NDBA) are also frequently observed to a lesser extent. The processed meat and poultry products with the highest levels of volatile <i>N</i>-nitrosamines were pork (fried, fat only eaten), poultry (fried), poultry (spiced, grilled), and bacon (fried).
DOI: 10.6084/m9.figshare.11809242.v2
title: Dataset: Tracking the assembly of nested parasite communities

description: Data from Moss et al. <i>Tracking the assembly of nested parasite communities: using beta-diversity to understand variation in parasite richness and composition over time and scale. </i>
DOI: 10.6084/m9.figshare.11809242.v1
title: Dataset: Tracking the assembly of nested parasite communities

description: Data from Moss et al. <i>Tracking the assembly of nested parasite communities: using beta-diversity to understand variation in parasite richness and composition over time and scale. </i>
DOI: 10.6084/m9.figshare.11808972
title: (PART 5 OF 5) 9 molecular dynamics simulations (500ps 3 x 3 replicates) of coronavirus 2019-nCoV protease unrefined crystal structure in complex with 3 different conformations of lopinavir.

description: See part 1.<br>Part 5 of 5:XHD_LC3c
DOI: 10.6084/m9.figshare.11808966
title: (PART 4 OF 5) 9 molecular dynamics simulations (500ps 3 x 3 replicates) of coronavirus 2019-nCoV protease unrefined crystal structure in complex with 3 different conformations of lopinavir.

description: See part 1.<br>Part 4 of 5:XHD_LC3a<br>XHD_LC3b
DOI: 10.6084/m9.figshare.11808966.v1
title: (PART 4 OF 5) 9 molecular dynamics simulations (500ps 3 x 3 replicates) of coronavirus 2019-nCoV protease unrefined crystal structure in complex with 3 different conformations of lopinavir.

description: See part 1.<br>Part 4 of 5:XHD_LC3a<br>XHD_LC3b
DOI: 10.6084/m9.figshare.11808843
title: (PART 3 OF 5) 9 molecular dynamics simulations (500ps 3 x 3 replicates) of coronavirus 2019-nCoV protease unrefined crystal structure in complex with 3 different conformations of lopinavir.

description: See part 1.<br>Part 3 of 5:XHD_LC2b<br>XHD_LC2c
DOI: 10.6084/m9.figshare.11808840
title: Govaert-et-al_JVS_data.txt

description: Data used for the article "Edge influence on understorey plan communities depends on forest management".<br>
DOI: 10.6084/m9.figshare.11808765
title: (PART 2 OF 5) 9 molecular dynamics simulations (500ps 3 x 3 replicates) of coronavirus 2019-nCoV protease unrefined crystal structure in complex with 3 different conformations of lopinavir.

description: See part 1.<br>Part 2 of 5:XHD_LC1c<br>XHD_LC2a
DOI: 10.6084/m9.figshare.11808570
title: Daily rainfall data(1957-2015) in Chaohu City,China

description: These data are provided by the Water Resources Department of Anhui Province, China.They can provide data support for the hydrologic analysis and simulation of urban drainage system in Chaohu city.<br>
DOI: 10.6084/m9.figshare.11808570.v1
title: Daily rainfall data(1957-2015) in Chaohu City,China

description: These data are provided by the Water Resources Department of Anhui Province, China.They can provide data support for the hydrologic analysis and simulation of urban drainage system in Chaohu city.<br>
DOI: 10.6084/m9.figshare.11808396
title: (PART 1 OF 5) 9 molecular dynamics simulations (500ps 3 x 3 replicates) of coronavirus 2019-nCoV protease unrefined crystal structure in complex with 3 different conformations of lopinavir.

description: Molecular dynamics simulations (500 ps MD at 310 K) of the unrefined crystal structure by Prof. Yang group from ShanghaiTech of novel coronavirus 2019-nCoV protease Mpro in complex with the ligand lopinavir (see note below). The starting positions of the ligand (LP1, LP2, LP3) derive from docking experiments.The suffixes (a, b, c) on the filenames represent the replicates of the same MD simulation using random initial velocities.<br>The archives contain also an heatmap representing the protein-ligand contact frequencies. Green-boxed occurrences in the heatmap represent hydrogen bond occurrences during the simulation.<br>Note: The refined crystal structure of the protease of our partner Prof. Yang group from ShanghaiTech is oficially released: https://www.rcsb.org/structure/6LU7<br><br>Part 1 of 5:XHD_LC1a<br>XHD_LC1b+ images of the 3 docked starting positions<br>
DOI: 10.6084/m9.figshare.11808363
title: Supplementary Material for: Development of a Novel One-Step Automated Rapid in situ Hybridization for Anaplastic Lymphoma Kinase Rearrangement Using Non-Contact Alternating-Current Electric-Field Mixing

description: Echinoderm microtubule-associated protein-like 4 and anaplastic lymphoma kinase (<i>ALK</i>) fusion gene rearrangement is a key driver mutation in non-small cell lung cancer (NSCLC). Although Break-Apart <i>ALK</i> fluorescence in situ hybridization (FISH) is a reliable diagnostic method for detecting <i>ALK</i> gene rearrangement, it is also costly and time-consuming to use as a routine screening test. Our aim was to evaluate the clinical utility of a novel one-step, automated, rapid FISH (Auto-RaFISH) method developed to facilitate hybridization. This method takes advantage of the non-contact mixing effect of an alternating-current electric field. Ten representative specimens from 85 patients diagnosed at multiple centers with primary lung cancer with identified <i>ALK</i>-FISH status were collected. The specimens were all tested using FISH, RaFISH, and Auto-RaFISH. With both RaFISH protocols, the <i>ALK</i> test was completed within 4.5 h, as compared to the 20 h needed for the standard protocol. We found 100% agreement between the standard FISH, RaFISH, and new Auto-RaFISH based on the <i>ALK</i> status, and all methods stained equally well. These findings suggest that Auto-RaFISH could potentially serve as an automated clinical tool for prompt determination of <i>ALK</i> status in NSCLC.
DOI: 10.6084/m9.figshare.11808300
title: Supplementary Material for: Single-Operator Pancreatoscopy for Diagnosis, Evaluation, and Staging of Mixed-Type Intraductal Papillary Mucinous Neoplasm

description: Medicine
DOI: 10.6084/m9.figshare.11808300.v1
title: Supplementary Material for: Single-Operator Pancreatoscopy for Diagnosis, Evaluation, and Staging of Mixed-Type Intraductal Papillary Mucinous Neoplasm

description: Medicine
DOI: 10.6084/m9.figshare.11808252
title: Phyloseq objects with datasets for the article "Response of the human gut and saliva microbiome to urbanization in Cameroon"

description: Phyloseq objects containing data used for analysis in Lokmer et al. (2020): Response of the human gut and saliva microbiome to urbanization in Cameroon, Sci Rep. Details can be found in Methods section of the article.<br>cameroon_2017_urbanization_wholeDS_phyloseq.RDS- list of phyloseq objects containing otu tables for ASVs, 85-99% opticlust and 85-99% bdtt OTUs and a genus otu table (RDP database based taxonomy)- all fecal and saliva microbiomes included- missing data in the metadata were imputed with missForest (original metadata can be found in Supplementary Table 1)<br>cameroon_2017_urbanization_ruralUrban_phyloseq.RDS- list of phyloseq objects containing otu tables for ASVs, 85-99% opticlust and 85-99% bdtt OTUs and a genus otu table (RDP database based taxonomy)<br>- fecal and saliva microbiomes of rural and urban samples only<br>- missing data in the metadata were imputed with missForest (original metadata can be found in Supplementary Table 1)<br>cameroon_2017_urbanization_wholeDS_PERFectFiltered_phyloseq.RDS<br>cameroon_2017_urbanization_ruralUrban_PERFectFiltered_phyloseq.RDS<br><br>- same as above, only the fecal and saliva microbiomes are in separate phyloseq objects as they were separately filtered for beta diversity analysis<br>
DOI: 10.6084/m9.figshare.11808255
title: Biogeography and adaptation in the Kuril Islands, Northeast Asia

description: The Circumpolar North is generally recognized as a challenging environment to inhabit and yet, we know relatively little about how people managed their welfare in these places. Here, we add to the understanding of maritime hunter-gatherers in the subarctic North Pacific through a comparative approach that synthesizes biogeographic and archaeological data from the Kuril Islands. We conclude that our faunal, ceramic and lithic evidence support expectations from biogeography as assemblages from low biodiversity and insular regions show limited diet breadth, more locally produced pottery and a conservation of lithic resources. However, we highlight that these ecological factors did not strictly determine the occupation history of the archipelago as radiocarbon data suggests all regions experienced similar demographic fluctuations regardless of their biogeography. These results imply additional pressures influenced the strategic use and settlement of the Kuril Islands and the need for increased chronological resolution to disentangle these complex historical factors.
DOI: 10.6084/m9.figshare.11808255.v1
title: Biogeography and adaptation in the Kuril Islands, Northeast Asia

description: The Circumpolar North is generally recognized as a challenging environment to inhabit and yet, we know relatively little about how people managed their welfare in these places. Here, we add to the understanding of maritime hunter-gatherers in the subarctic North Pacific through a comparative approach that synthesizes biogeographic and archaeological data from the Kuril Islands. We conclude that our faunal, ceramic and lithic evidence support expectations from biogeography as assemblages from low biodiversity and insular regions show limited diet breadth, more locally produced pottery and a conservation of lithic resources. However, we highlight that these ecological factors did not strictly determine the occupation history of the archipelago as radiocarbon data suggests all regions experienced similar demographic fluctuations regardless of their biogeography. These results imply additional pressures influenced the strategic use and settlement of the Kuril Islands and the need for increased chronological resolution to disentangle these complex historical factors.
DOI: 10.6084/m9.figshare.11808252.v1
title: Phyloseq objects with datasets for the article "Response of the human gut and saliva microbiome to urbanization in Cameroon"

description: Phyloseq objects containing data used for analysis in Lokmer et al. (2020): Response of the human gut and saliva microbiome to urbanization in Cameroon, Sci Rep. Details can be found in Methods section of the article.<br>cameroon_2017_urbanization_wholeDS_phyloseq.RDS- list of phyloseq objects containing otu tables for ASVs, 85-99% opticlust and 85-99% bdtt OTUs and a genus otu table (RDP database based taxonomy)- all fecal and saliva microbiomes included- missing data in the metadata were imputed with missForest (original metadata can be found in Supplementary Table 1)<br>cameroon_2017_urbanization_ruralUrban_phyloseq.RDS- list of phyloseq objects containing otu tables for ASVs, 85-99% opticlust and 85-99% bdtt OTUs and a genus otu table (RDP database based taxonomy)<br>- fecal and saliva microbiomes of rural and urban samples only<br>- missing data in the metadata were imputed with missForest (original metadata can be found in Supplementary Table 1)<br>cameroon_2017_urbanization_wholeDS_PERFectFiltered_phyloseq.RDS<br>cameroon_2017_urbanization_ruralUrban_PERFectFiltered_phyloseq.RDS<br><br>- same as above, only the fecal and saliva microbiomes are in separate phyloseq objects as they were separately filtered for beta diversity analysis<br>
DOI: 10.6084/m9.figshare.11808237
title: Full supplementary tables for the article "Response of the human gut and saliva microbiome to urbanization in Cameroon"

description: Supplementary tables for Lokmer et al. (2020): "Response of the human gut and saliva microbiome to urbanization in Cameroon", Sci Rep.The only difference to the tables available on the journal's site is that Table S3 contains additional data for different OTU cutoffs.<br>
DOI: 10.6084/m9.figshare.11808237.v1
title: Full supplementary tables for the article "Response of the human gut and saliva microbiome to urbanization in Cameroon"

description: Supplementary tables for Lokmer et al. (2020): "Response of the human gut and saliva microbiome to urbanization in Cameroon", Sci Rep.The only difference to the tables available on the journal's site is that Table S3 contains additional data for different OTU cutoffs.<br>
DOI: 10.6084/m9.figshare.11808153
title: Lutein and biodiesel sequential production from microalga using an environmentally friendly approach

description: The use of microalgae as a raw material to extract pigments and biodiesel is an economical and environmental challenge due to the costs and toxicity of the chemical used, as well as the time and energy consumed in the production chain. Thus, the objective of this work was to develop an environmentally friendly sequential process to obtain lutein and biodiesel from <i>Choricystis minor</i> var. <i>minor</i> microalga. To overcome these challenges, the wet biomass of this microalga was dried in the sun, and lutein was obtained in an optimized extraction using methanolic solution containing potassium hydroxide, followed by the extraction of fatty acids and conversion into biodiesel using methanolic solution with phosphoric acid. The optimum conditions for lutein extraction were 0.3 mL of methanolic solution with 8% potassium hydroxide, at 60 °C for 1 hour. Then, the residual biomass was used to produce biodiesel by acid catalysis, with addition of 0.8 mL of methanolic solution containing 10% phosphoric acid at 100 °C for 1 hour. This approach obtained 1 kg of lutein and 10.83 kg of biodiesel from 75.75 kg of dry biomass of microalga. From the economical point of view, biodiesel is a less valuable coproduct of the lutein production chain.