cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5500607
title: Taxonomic and functional diversity of the microbiome in a jet fuel contaminated site as revealed by combined application of in situ microcosms with metagenomic analysis

description: Natural attenuation represents all processes that govern contaminant mass removal, which mainly occurs via microbial degradation in the environment. Although this process is intrinsic its rate and efficiency depend on multiple factors. This study aimed to characterize the microbial taxonomic and functional diversity in different aquifer sediments collected in the saturated zone and <em>in situ</em> microcosms (BACTRAP®s) amended with hydrocarbons (<sup>13</sup>C-labeled and non-labeled benzene, toluene and naphthalene) using 16S rRNA gene and “<em>shotgun</em>” Illumina high throughput sequencing at a jet-fuel contaminated site. The BACTRAP®s were installed to assess hydrocarbon metabolism by native bacteria. Results indicated that Proteobacteria, Actinobacteria and Firmicutes were the most dominant phyla (~98%) in the aquifer sediment samples. Meanwhile, in the benzene- and toluene-amended BACTRAP®s the phyla Firmicutes and Proteobacteria accounted for about 90% of total community. In the naphthalene-amended BACTRAP®, members of the SR-FBR-L83 family (Order Ignavibacteriales) accounted for almost 80% of bacterial community. Functional annotation of metagenomes showed that only the sediment sample located at the source zone border and with the lowest BTEX concentration, has metabolic potential to degrade hydrocarbons aerobically. On the other hand, <em>in situ</em> BACTRAP®s allowed enrichment of hydrocarbon-degrading bacteria. Metagenomic data suggest that fumarate addition is the main mechanism for hydrocarbon activation of toluene. Also, indications for methylation, hydroxylation and carboxylation as activation mechanisms for benzene anaerobic conversion were found. After 120 days of exposure in the contaminated groundwater, the isotopic analysis of fatty acids extracted from BACTRAP®s demonstrated the assimilation of isotopic labeled compounds in the cells of microbes expressed by strong isotopic enrichment. We propose that the microbiota in this jet-fuel contaminated site has metabolic potential to degrade benzene and toluene by a syntrophic process, between members of the families Geobacteraceae and Peptococcaceae (genus <em>Pelotomaculum</em>), coupled to nitrate, iron and/or sulfate reduction.
DOI: 10.25827/tdpq-m606
title: The Tijeras Pueblo (LA 581) Archaeofaunal Project
DOI: 10.5281/zenodo.5500473
title: perturbation-transcriptomics

description: For perturbation transcriptomics project
DOI: 10.5281/zenodo.5500472
title: perturbation-transcriptomics

description: For perturbation transcriptomics project
DOI: 10.5281/zenodo.5500094
title: Suppl. files to: Cellular and molecular targets of nucleotide-tagged trithiola-to-bridged arene ruthenium complexes in the protozoan para-sites Toxoplasma gondii and Trypanosoma brucei

description: These are supplementary files for the manuscript entitled: Cellular and molecular targets of nucleotide-tagged trithiolato-bridged arene ruthenium complexes in the protozoan parasites <em>Toxoplasma gondii</em>and <em>Trypanosoma brucei</em> submitted to International Journal of Molecular Sciences by: <strong>Nicoleta Anghel<sup>1¥</sup>, Joachim Müller<sup>1¥*</sup>, Mauro Serricchio<sup> 2</sup>, Jennifer Jelk <sup>2</sup>, Peter Bütikofer<sup>2</sup>, Ghalia Boubaker<sup>1</sup>, Dennis Imhof<sup>1</sup>, Jessica Ramseier<sup>1</sup>, Oksana Desiatkina<sup>3</sup>, Emilia Păunescu<sup>3</sup>, Sophie Braga-Lagache<sup>4</sup>, Manfred Heller<sup>4</sup>, Julien Furrer<sup>3</sup>, Andrew Hemphill<sup>1*</sup></strong>
DOI: 10.5281/zenodo.5500093
title: Suppl. files to: Cellular and molecular targets of nucleotide-tagged trithiola-to-bridged arene ruthenium complexes in the protozoan para-sites Toxoplasma gondii and Trypanosoma brucei

description: These are supplementary files for the manuscript entitled: Cellular and molecular targets of nucleotide-tagged trithiolato-bridged arene ruthenium complexes in the protozoan parasites <em>Toxoplasma gondii</em>and <em>Trypanosoma brucei</em> submitted to International Journal of Molecular Sciences by: <strong>Nicoleta Anghel<sup>1¥</sup>, Joachim Müller<sup>1¥*</sup>, Mauro Serricchio<sup> 2</sup>, Jennifer Jelk <sup>2</sup>, Peter Bütikofer<sup>2</sup>, Ghalia Boubaker<sup>1</sup>, Dennis Imhof<sup>1</sup>, Jessica Ramseier<sup>1</sup>, Oksana Desiatkina<sup>3</sup>, Emilia Păunescu<sup>3</sup>, Sophie Braga-Lagache<sup>4</sup>, Manfred Heller<sup>4</sup>, Julien Furrer<sup>3</sup>, Andrew Hemphill<sup>1*</sup></strong>
DOI: 10.5281/zenodo.5498502
title: Obsevational data

description: Obervational data used for evlautaing modol results in a Meiyu case
DOI: 10.5281/zenodo.5498501
title: Obsevational data

description: Obervational data used for evlautaing modol results in a Meiyu case
DOI: 10.17909/t9-s6s7-qt10
title: XUV disk of NGC 3344: Star formation and connection to ISM
DOI: 10.6084/m9.figshare.16606406
title: Suppl. Material "The proteomic signature of recombinant Growth Hormone in recreational athletes"

description: Supplemental <br>
DOI: 10.5281/zenodo.5495802
title: Pollock: Fishing for Cell States

description: Pretrained modules for Pollock: Fishing for Cell States
DOI: 10.5281/zenodo.5500644
title: BIBO_GM_BP_10y

description: BIBO_GM_BP_10y
DOI: 10.5281/zenodo.5500643
title: BIBO_GM_BP_10y

description: BIBO_GM_BP_10y
DOI: 10.5281/zenodo.5500487
title: Actinopyga echinites decontaminated FSCR

description: .
DOI: 10.5281/zenodo.5500486
title: Actinopyga echinites decontaminated FSCR

description: .
DOI: 10.6084/m9.figshare.16606442
title: fish_assemblages.xlsx

description: Data sheet containing fish abundance data from underwater video recordings and metadata relating to the videos.Videos were filmed for 45 minutes, with species recorded and verified by two independent observers within a 20-minute window of deployment. Relative abundance of species measured as MaxN (maximum number of individuals of one species in a video frame at one time). Columns contain species abundance and row video ID. Column BT to BY contain metadata for each video, time, time group, video number, number of species and total relative abundance.
DOI: 10.17632/np7g9398t7.2
title: PhD Project 

description: PhD stuff
DOI: 10.17632/vhbg22hyyj.1
title: An Examination of the Relationship Between Emotional-Behavoural Problems and Childhood Trauma and Demographic Factors of Students in the Healthcare Sector

description: FORMS AND FINDINGS
DOI: 10.17632/sckg5ygndm.1
title: Hyperglycemia in Acute COVID-19 is Characterized by Insulin Resistance and Adipose Tissue Infectivity by SARS-CoV-2. Reiterer et al.

description: Supplemental Data Files referenced in "Hyperglycemia in Acute COVID-19 is Characterized by Insulin Resistance and Adipose Tissue Infectivity by SARS-CoV-2" by Reiterer et al.
DOI: 10.17632/2x65btsysm.3
title: Terminal Modification, Sequence, Length, and PIWI-Protein Identity Determine piRNA Stability

description: Original autoradiography, microscopy, and Western blotting images from "Terminal Modification, Sequence, Length, and PIWI-Protein Identity Determine piRNA Stability".

Filenames correspond to Figure numbers.
DOI: 10.6084/m9.figshare.3761562.v1977
title: Online Labour Index: Measuring the Online Gig Economy for Policy and Research

description: Data repository for the data underlying the Online Labour Index. See http://ilabour.oii.ox.ac.uk online-labour-index/ for details.
DOI: 10.17632/tbvb5t4xh6.1
title: A New Perspective on Minimally Invasive Endodontics: A Systematic Review

description: This review evaluated minimally invasive approaches in endodontics.
DOI: 10.17632/ztmjtxt2yf.2
title: Supporting material: The bacterial phylum Planctomycetes as novel source for bioactive small molecules

description: Supplementary Table 1. AntiSMASH results for all characterized strains belonging to the phylum Planctomycetes 
Supplementary Table 2. Putative polyketide synthase-encoding genes in the phylum Planctomycetes
Supplementary Table 3. Giant genes (>15 kb) found in planctomycetal genomes
DOI: 10.17632/gj6pgn3hgg.1
title: Crystal structure and equation of state of ferromagnesian jeffbenite,  (Mg, Fe2+)2(Mg, Fe3+)3Si3O12

description: High-pressure crystal structure and equation of state of ferromagnesian jeffbenite: implications for stability in the transition zone and uppermost lower mantle
DOI: 10.17632/rx478cbpm5.1
title: MatCalib: A Matlab software package for Bayesian calibration of radiocarbon ages subject to temporal order constraints

description: Radiocarbon ages must be calibrated due to the remarkable fluctuations of the atmospheric radiocarbon level. However, the map from the radiocarbon age domain to the calendar age domain is not one-on-one, providing that the calibration curve is not an injective function. The traditional method only calibrates the radiocarbon age individually, without considering their temporal/stratigraphical ordering. Bayesian radiocarbon age modeling is advantageous over the traditional method in several aspects. First, it can provide a more precise age estimate than the individual calibration by applying some constrains known a priori. Second, it may provide age estimates for an archaeological feature or a geological event that is unable to be dated directly. Third, it represents an adaptable method of statistical inference. According to Bayes’ theorem, the prior information can be formulated mathematically and integrated into the process of inference, which can be easily implemented using the Markov chain Monte Carlo method. Here, a hierarchical Bayesian model with a minimum level of structural complexity is presented. It provides users with a flexible and powerful framework to assemble radiocarbon ages into a sequence along a one-dimensional continuum so that it best reveals their temporal ordering, thereby yielding a more precise timing. The accompanying Matlab software package not only complements the existing MatCal package designed to calibrate radiocarbon ages individually, but also serves as an alternative to the online tools of radiocarbon age calibration such as OxCal and BCal.
DOI: 10.17632/9v8dx262r2.1
title: Risks of Glaucoma among Individuals with Psoriasis: A Population-based Cohort Study

description: Supplementary table and figures, including ICD-9-CM codes of potential confounders, Kaplan-Meier analysis of all-cause glaucoma, open-angle glaucoma, and angle-closure glaucoma.
DOI: 10.17632/2n9r622g8d.1
title: Identification of novel phage resistance mechanisms in Campylobacter jejuni by comparative genomics (Appendix)

description: Fully assembled and RASTtk annotated capsular polysaccharide (CPS) loci (.gbk files) of selected MLST ST-21 and ST-45 Campylobacter jejuni CAMSA strains
DOI: 10.17632/grwvf7skhk.1
title: Distinct human Langerhans cell subsets orchestrate reciprocal functions and require different developmental regulation

description: Langerhans cells (LCs) play a pivotal role in skin homeostasis, and the heterogeneity of LCs has long been considered. In this study we have identified two steady-state (LC1 and LC2) and two activated LC subsets in the epidermis of human skin and in LCs derived from CD34+ hemopoietic stem cells (HSC-LCs), by utilizing single-cell RNA sequencing and mass cytometry. Analysis of HSC-LCs at multiple time-points during differentiation revealed that EGR1 and Notch signaling were among the top pathways regulating the bifurcation of LC1 and LC2. LC1 were characterized as classical LCs, mainly related to innate immunity and antigen processing. LC2 were similar to monocytes or myeloid dendritic cells, involving in immune responses and leukocyte activation. LC1 remained stable under inflammatory microenvironment, whereas LC2 were prone to being activated and demonstrated elevated expression of immuno-suppressive molecules. We revealed distinct human LC subsets that require different developmental regulation and orchestrate reciprocal functions.
The original code of single-cell RNA sequencing data analysis in this report has been deposited here.
DOI: 10.17909/t9-gw19-6w51
title: HST Observations for "The Discovery of a Kiloparsec-scale Quasar Pair at z=5.66"

description: HST ACS/WFC F850LP imaging of a close quasar pair at z=5.66, J2037-4537.
DOI: 10.17632/txrsx25wc6.1
title: Data for MS#2021WR030212R

description: The data used in the manuscript (Relating Soil-Root Hydraulic Resistance Variation with Stomatal Regulation in Soil-Plant Water Transport Simulation) submitted to Water Resources Research.
DOI: 10.17632/y8v4j9yhvn.1
title: Lineament analysis

description: Esta charla fue organizada por el GEIPPE de la Universidad Nacional Mayor de San Marcos, Perú.

Se explica el concepto de una forma más económica de realizar las prospecciones usando los lineamientos. Este método es efectivo para cualquier tipo de depósito controlado o formado por estructuras.
DOI: 10.5281/zenodo.5500648
title: Aphredoderus sayanus TJN_244 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5500647
title: Aphredoderus sayanus TJN_244 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5259994
title: Migrating Tides in the Stratosphere from COSMIC Radio Occultation Data

description: These analyses of the migrating tides in temperature, microwave refractivity, and geopotential in the Earth’s stratosphere are analyzed using GPS radio occultation (RO) data obtained by the COSMIC constellation of six satellites in orbit planes separated by 30° in ascending node. The tides are analyzed monthly, beginning with November 2006 and ending with December 2016. The radio occultation retrievals used as input to the analyses are obtained from the Climate Data Record v1 of the EUMETSAT Radio Occultation Meteorology Satellite Application Facility (ROM SAF; romsaf.org). The reference model that is used for the sake of comparison are the 3-, 6-, 9-, and 12-hr forecasts of the ERA-Interim reanalysis project.
DOI: 10.5281/zenodo.5259993
title: Migrating Tides in the Stratosphere from COSMIC Radio Occultation Data

description: These analyses of the migrating tides in temperature, microwave refractivity, and geopotential in the Earth’s stratosphere are analyzed using GPS radio occultation (RO) data obtained by the COSMIC constellation of six satellites in orbit planes separated by 30° in ascending node. The tides are analyzed monthly, beginning with November 2006 and ending with December 2016. The radio occultation retrievals used as input to the analyses are obtained from the Climate Data Record v1 of the EUMETSAT Radio Occultation Meteorology Satellite Application Facility (ROM SAF; romsaf.org). The reference model that is used for the sake of comparison are the 3-, 6-, 9-, and 12-hr forecasts of the ERA-Interim reanalysis project.
DOI: 10.5517/ccdc.csd.cc21q11w
title: CCDC 1898007: Experimental Crystal Structure Determination

description: Related Article: Somayeh Tarasi, Ali Ramazani, Ali Morsali, Mao-Lin Hu|2021|Inorg.Chem.|60|13588|doi:10.1021/acs.inorgchem.1c01894
DOI: 10.5517/ccdc.csd.cc24bjkl
title: CCDC 1976329: Experimental Crystal Structure Determination

description: Related Article: Liqiang Yin, Murong Xu, Ye Wang, Huihui Xie, Yang Yuan, Chengyu Wang, Yuan-Ye Jiang, Yanzhong Li|2021|J.Org.Chem.|86|12158|doi:10.1021/acs.joc.1c01496
DOI: 10.6084/m9.figshare.16606631
title: HRM (1).sav

description: For the paper
DOI: 10.6084/m9.figshare.16606631.v1
title: HRM (1).sav

description: For the paper
DOI: 10.6084/m9.figshare.16606640
title: Supplementary Table S1.pdf

description: Supplementary Table S1 of the manuscript DOI: 10.3168/jds.2021-20633
DOI: 10.7294/14547273
title: Non-migrating diurnal tides in effective neutral temperature and column O/N2 ratio from TIE-GCM

description: Files containing the non-migrating diurnal tidal amplitudes and phases in effective neutral temperature and column O/N<sub>2</sub> ratio as a function of latitude (degrees) during October and January simulated by the TIE-GCM model. O/N<sub>2 </sub>amplitudes are reported as percent relative to the zonal mean. Temperature amplitudes are in units of Kelvin. Phases are reported as the universal time of maximum at 0º longitude. An additional file is provided reporting the contribution function as a function of altitude (km) for nadir viewing (emission angle equal to 0º) and solar zenith angle equal to 70º. The contribution function, provided by Computational Physics, Inc., weights the neutral temperature profiles used to derive the tides. The vertical column O/N2 ratio is computed relative to a standard reference N<sub>2</sub><sub> </sub>depth of 10<sup>17</sup> cm<sup>-2</sup> .
DOI: 10.18112/openneuro.ds003730.v1.0.1
title: In vivo T1w MRI of a TDP-43 knock-in mouse model of ALS-FTD
DOI: 10.5967/j94r-xh36
title: Automated, Multistep Continuous-Flow Synthesis of 2,6-Dideoxy and 3-Amino-2,3,6-trideoxy Monosaccharide Building Blocks
DOI: 10.5517/ccdc.csd.cc27hlmz
title: CCDC 2070571: Experimental Crystal Structure Determination

description: Related Article: Kensuke Hanida, Jinseok Kim, Norihito Fukui, Yusuke Tsutsui, Shu Seki, Dongho Kim, Hiroshi Shinokubo|2021|Angew.Chem.,Int.Ed.|60|20765|doi:10.1002/anie.202109003
DOI: 10.5517/ccdc.csd.cc27hln0
title: CCDC 2070572: Experimental Crystal Structure Determination

description: Related Article: Kensuke Hanida, Jinseok Kim, Norihito Fukui, Yusuke Tsutsui, Shu Seki, Dongho Kim, Hiroshi Shinokubo|2021|Angew.Chem.,Int.Ed.|60|20765|doi:10.1002/anie.202109003
DOI: 10.5517/ccdc.csd.cc27yxx1
title: CCDC 2084344: Experimental Crystal Structure Determination

description: Related Article: Yothin Chimupala, Nippich Kaeosamut, Saranphong Yimklan|2021|Cryst.Growth Des.|21|5373|doi:10.1021/acs.cgd.1c00658
DOI: 10.6084/m9.figshare.16606700
title: Data_MarchenaG_DeLaVegaI_BDAAdoption.xlsx

description: Data collected from a survey conducted with 265 members of higher education institutions in Latin America between the months of May and August 2021
DOI: 10.25548/17-e9ke
title: IGF and receptor expression in developing kidney

description: Expression of insulin like growth factors and their receptors in developing kidney from mouse and human.
DOI: 10.5967/jczg-aa22
title: Topographic roughness on forest floors: A theoretical approach for quantifying hillslope sediment flux from tree throw
DOI: 10.6084/m9.figshare.16606703
title: Supporting

description: test<br>
DOI: 10.6084/m9.figshare.16606703.v2
title: Supporting

description: test<br>
DOI: 10.6084/m9.figshare.16606703.v1
title: Supporting raw data and scripts for manuscript "Temperature and barometric pressure affect the activity intensity and movement of an endangered thermoconforming lizard"

description: JOURNAL PUBLICATION CITATION: Daniel Ariano-Sánchez, Rasmus M. Mortensen, Rory P. Wilson, Peder Bjureke, Stefanie Reinhardt and Frank Rosell. 2021. Temperature and barometric pressure affect the activity intensity and movement of an endangered thermoconforming lizard. <em>Ecosphere.</em> <em>------------</em> Raw data in RDS format and R codes of movement paths and step-selection function analyses ------------- CleanDBALMM.R – R script of the LMM for VeDBA from obtained from the daily diaries in the backpack system. CleanGPSHeloderma.R – R script for calculation of step-lengths, bearings and turning angles from the GPS data of the Guatemalan Beaded Lizards tracked, including the LMM and circular-linear regressions. CleanSSF.R – R script of the step-selection functions. DBAHeloderma.rds – Raw data of the Guatemalan Beaded Lizard movement obtained from the daily diaries in the backpack system. GPSData.rds - Raw data of the Guatemalan Beaded Lizard movement obtained from GPS tags. ssf3.rds – Dataset for the step-section functions.
DOI: 10.6084/m9.figshare.16606721
title: Dataset.xlsx

description: Individual data points.
DOI: 10.6084/m9.figshare.16602017
title: Datos Espaciales Información Raster

description: Información física empleada para la caracterización de las subcuentas y Unidades de Respuesta Hidrológica (HRU), para ámbito de modelamiento hidrológico del Perú (SWAT).
DOI: 10.6084/m9.figshare.16602017.v2
title: Datos Espaciales Información Raster

description: Información física empleada para la caracterización de las subcuentas y Unidades de Respuesta Hidrológica (HRU), para ámbito de modelamiento hidrológico del Perú (SWAT).
DOI: 10.6084/m9.figshare.16602017.v1
title: Datos Espaciales Raster

description: Información física empleada para la caracterización de las subcuentas y Unidades de Respuesta Hidrológica (HRU), para ámbito de modelamiento hidrológico del Perú (SWAT).
DOI: 10.5281/zenodo.5500727
title: Public resources about PHYVV and TMV detection in Jalapeño pepper plants using CNNs

description: This repository contains a dataset of Jalapeño pepper leaves which where divided into three classes labeles as "healthy", "PHYVV-infected" and "TMV-infected. In addition, the folder labeled as model contains all the information of the artificial intelligence model that was utilized to classify between the aforementioned classes.
DOI: 10.5281/zenodo.5500726
title: Public resources about PHYVV and TMV detection in Jalapeño pepper plants using CNNs

description: This repository contains a dataset of Jalapeño pepper leaves which where divided into three classes labeles as "healthy", "PHYVV-infected" and "TMV-infected. In addition, the folder labeled as model contains all the information of the artificial intelligence model that was utilized to classify between the aforementioned classes.
DOI: 10.5281/zenodo.5500678
title: SEED-G: Simulated EEG Data Generator for testing connectivity algorithms

description: SEED-G toolbox was developed in MATLAB environment (tested on version R2017a and R2020b) and released on the GitHub page https://github.com/aanzolin/SEED-G-toolbox (accessed date 12 April 2021). It is organized in the following subfolders: <strong>main</strong>: it is the core of the toolbox and contains all the functions for the generation of EEG data according to a predefined ground-truth network. <strong>dependencies</strong>: containing parts of other toolboxes required to successfully run SEED-G functions. The links to the full packages can be found in the documentation on the GitHub page. The additional packages are Brain Connectivity Toolbox (BCT) [40], FieldTrip [41], Multivariate Granger Causality Toolbox (MVGC) [24], and AsympPDC Package (PDC_AsympSt) [42,43]. Additionally, the implemented forward model is solved according to the New York Head (NYH) model, whose parameters are contained in the structure available on the ICBM-NY platform [28]. <strong>real data</strong>: containing real EEG data acquired from one healthy subject during resting state at scalp level (‘EEG_real_sources.mat’) and its reconstructed version in source domain (‘sLOR_cortical_sources.mat’). These signals can be employed to extract the AR components to be included in the model to generate data with the same spectral properties of the real ones. <strong>demo</strong>: containing examples of MATLAB scripts to be used to learn the different functionalities of the toolbox. For example, the code ‘run_generation.m’ allows to specify the directory containing the real sources and each specific input of the function ‘simulatedData_generation.m’. <strong>auxiliary functions</strong>: containing either original MATLAB functions or modified version of free available functions.
description: {"references": ["https://doi.org/10.3390/s21113632"]}