cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5633299.v1
title: PINK1-PRKN/PARK2 pathway of mitophagy is activated to protect against Renal ischemia-reperfusion injury

description: Damaged or dysfunctional mitochondria are toxic to the cell by producing reactive oxygen species and releasing cell death factors. Therefore, timely removal of these organelles is critical to cellular homeostasis and viability. Mitophagy is the mechanism of selective degradation of mitochondria via autophagy. The significance of mitophagy in kidney diseases, including ischemic acute kidney injury (AKI), has yet to be established, and the involved pathway of mitophagy remains poorly understood. Here, we show that mitophagy is induced in renal proximal tubular cells in both <i>in vitro</i> and in <i>vivo</i> models of ischemic AKI. Mitophagy under these conditions is abrogated by <i>Pink1</i> and <i>Park2</i> deficiency, supporting a critical role of the PINK1-PARK2 pathway in tubular cell mitophagy. Moreover, ischemic AKI is aggravated in <i>pink1</i> and <i>park2</i> single- as well as double-knockout mice. Mechanistically, <i>Pink1</i> and <i>Park2</i> deficiency enhances mitochondrial damage, reactive oxygen species production, and inflammatory response. Taken together, these results indicate that PINK1-PARK2-mediated mitophagy plays an important role in mitochondrial quality control, tubular cell survival, and renal function during AKI.
DOI: 10.6084/m9.figshare.12619958
title: 200SlowEvol_Gene_Matrices.zip

description: Individual gene matrices of the 200 slowest evolving loci retrieved from “Matrix B” in Lozano-Fernandez et al. (2019) published in Howard et al. (2020).
DOI: 10.6084/m9.figshare.12619958.v2
title: 200SlowEvol_Gene_Matrices.zip

description: Individual gene matrices of the 200 slowest evolving loci retrieved from “Matrix B” in Lozano-Fernandez et al. (2019) published in Howard et al. (2020).
DOI: 10.6084/m9.figshare.12619958.v1
title: 200SlowEvol_Gene_Matrices.zip

description: Individual gene matrices of the 200 slowest evolving loci from “Matrix B” in Lozano-Fernandez et al. (2019) published in Howard et al. (2020).
DOI: 10.6084/m9.figshare.12619982
title: 200SlowEvol_Gene_Trees_LG+F+G.zip

description: Gene trees of the 200 slowly evolving loci inferred with LG + F + G model in IQ-TREE.
DOI: 10.6084/m9.figshare.12619982.v1
title: 200SlowEvol_Gene_Trees_LG+F+G.zip

description: Gene trees of the 200 slowly evolving loci inferred with LG + F + G model in IQ-TREE.
DOI: 10.6084/m9.figshare.5632894.v1
title: Book3.xlsx

description: For 5G ICIC paper<br><br>
DOI: 10.6084/m9.figshare.5632873
title: Thermal biology mediates responses of amphibians and reptiles to habitat modification

description: Data archive from: Nowakowski et al. 2017. Thermal biology mediates responses of amphibians and reptiles to habitat modification. Ecology Letters.
DOI: 10.6084/m9.figshare.5632873.v1
title: Thermal biology mediates responses of amphibians and reptiles to habitat modification

description: Data archive from: Nowakowski et al. 2017. Thermal biology mediates responses of amphibians and reptiles to habitat modification. Ecology Letters.
DOI: 10.6084/m9.figshare.12619997
title: Supermatrices.zip

description: Molecular supermatrices: 200-slowest evolving loci retrieved from “Matrix B” in Lozano-Fernandez et al. (2019); 62 protein-coding gene matrix from Regier et al. (2010) and updated version from Noah et al. (2020); 500 slowest-evolving loci matrix from Sharma et al. (2014)
DOI: 10.6084/m9.figshare.5632672
title: Appendix 2

description: Lease accounting<br>
DOI: 10.6084/m9.figshare.5632672.v1
title: Appendix 2

description: Lease accounting<br>
DOI: 10.6084/m9.figshare.5632669
title: Appendix 1

description: Leasing discount rates<br>
DOI: 10.6084/m9.figshare.5632669.v1
title: Appendix 1

description: Leasing discount rates<br>
DOI: 10.6084/m9.figshare.5632654
title: Data and figures Revill et al PLOS ONE submission.xlsx

description: Data underlying Figure 1 on the manuscript "Reflecting the real value of health care resources in modelling and cost-effectiveness studies - the example of viral load informed differentiated care", by Paul Revill, Simon Walker, Valentina Cambiano, Andrew Phillips, Mark Sculpher.
DOI: 10.6084/m9.figshare.5632654.v1
title: Data and figures Revill et al PLOS ONE submission.xlsx

description: Data underlying Figure 1 on the manuscript "Reflecting the real value of health care resources in modelling and cost-effectiveness studies - the example of viral load informed differentiated care", by Paul Revill, Simon Walker, Valentina Cambiano, Andrew Phillips, Mark Sculpher.
DOI: 10.18750/icethickness.2015.r2018
title: Swiss Glacier Ice Thickness (release 2018)

description: Ice thickness measurements performed on Swiss glaciers between 1999 and 2015 by various observers. All observations are based on ground penetrating radar (different systems and frequencies). The dataset contains all available observations and is delivered as ASCII files for the individual glaciers.
DOI: 10.6084/m9.figshare.12619994
title: PhyloBayes_Timetree_Output.zip

description: Results of PhyloBayes divergence time estimation
DOI: 10.6084/m9.figshare.5632633
title: Fungal Infections in Acute Myeloid Leukemia

description: 在接受誘導化療的患者中，我們建議確定發生IFI的高風險人群，這將導致有針對性的預防。<br>
DOI: 10.6084/m9.figshare.12619985
title: PhyloBayes_CAT_Output.zip

description: Outputs from the CAT analyses in PhyloBayes of different matrices.
DOI: 10.6084/m9.figshare.5632627
title: data underlying report on monitoring the transition to open access, december 2017

description: data underlying the report on monitoring the transition to open access, december 2017. Data relates to open access options available to authors, the take-up of those options, the usage of open access articles, the costs to universities and funders of APCs and subscriptions, and the financial impacts on learned societies<br>
DOI: 10.6084/m9.figshare.5632627.v1
title: data underlying report on monitoring the transition to open access, december 2017

description: data underlying the report on monitoring the transition to open access, december 2017. Data relates to open access options available to authors, the take-up of those options, the usage of open access articles, the costs to universities and funders of APCs and subscriptions, and the financial impacts on learned societies<br>
DOI: 10.6084/m9.figshare.12619985.v1
title: PhyloBayes_CAT_Output.zip

description: Outputs from the CAT analyses in PhyloBayes of different matrices.
DOI: 10.5281/zenodo.4009109
title: Near-optimal robust bilevel linear instances

description: This repository contains the bilevel instances used in the paper Near-Optimal Robust Bilevel Optimization (https://arxiv.org/abs/1908.04040). They come in four groups, small, medium, large and mips instances, with different numbers of variables and constraints as described in the paper. The MIPS instances are constructed from the MIPS/RANDOM instances from https://coral.ise.lehigh.edu/data-sets/bilevel-instances/ The /data folder contains instances in JLD format, the DataReader folder contains a Julia project for reading the data.
DOI: 10.6084/m9.figshare.5632540.v3
title: Thirty days post-operative complications after Sleeve Gastrectomy, Gastric Bypass and Mini Gastric Bypass/one Anastomosis Gastric Bypass. Analysis of the Italian Society for Bariatric Surgery and Metabolic Disorders (S.I.C.OB.) database of 7 years time frame

description: <b>Background:</b> To date, the scientific community has mainly focused on outcomes of obesity surgery such as weight loss and resolution of associated complications. Adverse post-operative events and reoperation rates have been poorly reported even if they are a marker of surgical safety and therefore of great importance in guiding patients and surgeons in the choice of the more suitable operation. <b>Methods:</b> This retrospective multicenter observational study is based on the data extracted from the Italian Society of Bariatric Surgery and Metabolic Disorders (S.I.C.OB.) database, which covers almost all the bariatric operations performed in Italy. We analysed the 30 days post-operative complications occurring, in the period from 2009 to 2015, after Roux-en-Y Gastric Bypass (RYGB), Sleeve Gastrectomy (SG) and Mini Gastric Bypass/One Anastomosis Gastric Bypass (MGB/OAGB) qualitatively, quantitatively and on the basis of the Clavien-Dindo classification of surgical complications. Complications following surgeries were tested using the 95% confidence interval. Statistical analysis was performed with Statistical Analysis System (SAS).
DOI: 10.18750/icethickness.2018.r2018
title: Swiss Glacier Ice Thickness (release 2018)

description: Ice thickness measurements performed on Swiss glaciers between 1999 and 2015 by various observers. All observations are based on ground penetrating radar (different systems and frequencies). The dataset contains all available observations and is delivered as ASCII files for the individual glaciers.
DOI: 10.6084/m9.figshare.12620000
title: Trees_Supermatrices.zip

description: Results from the Maximum Likelihood and Bayesian inference of multiple molecular datasets
DOI: 10.6084/m9.figshare.12620000.v2
title: Trees_Supermatrices.zip

description: Results from the Maximum Likelihood and Bayesian inference of multiple molecular datasets
DOI: 10.6084/m9.figshare.12620000.v1
title: Trees_Supermatrices.zip

description: Results from the Maximum Likelihood and Bayesian inference of multiple molecular datasets
DOI: 10.18112/openneuro.ds003105.v1.0.1
title: Fetal Tissue Annotation Challenge FeTA Dataset
DOI: 10.6084/m9.figshare.12896447
title: Supplementary Material for: How to Reduce the Potential Harmful Effects of Light on Blastocyst Development during IVF

description: <b><i>Purpose:</i></b> Earlier findings revealed the damaging effect of visible light on zygotes and gametes. The aim of our study is to eliminate or significantly reduce the potentially harmful effects of light exposure during in vitro fertilization (IVF) or intracytoplasmic sperm injection (ICSI) and to investigate the effect of light protection on embryo development and implantation. <b><i>Materials and Methods:</i></b> To protect sperm cells, oocytes, and embryos from the potential harmful effects of light exposure during laboratory procedures, we created a dark environment for the cells and applied red filters on laboratory lamps and UV or infrared filters in the microscopes in order to eliminate white light exposure of the cells throughout all work stages. <b><i>Results:</i></b> The fertilization rate was significantly (<i>p</i> = 0.011) higher in light-protected ICSI cycles. Blastocyst development rates (blastocyst/embryo) were significantly (<i>p</i> &lt; 0.001) higher in light-protected embryos than in those manipulated in conventional light conditions both in IVF (20.9% difference) and ICSI (38.6% difference). Numbers of clinical pregnancies/transfers of ICSI fertilized day 5 blastocysts were also significantly (<i>p</i> = 0.040) higher in light-protected conditions. <b><i>Conclusions:</i></b> These data show that light protection has a positive effect on fertilization rate and increases the blastocyst development as well as the number of clinical pregnancies/transfers. Implementation of this light protection method in IVF centers may improve the success rate while maintaining maximal embryo safety.
DOI: 10.6084/m9.figshare.12896447.v1
title: Supplementary Material for: How to Reduce the Potential Harmful Effects of Light on Blastocyst Development during IVF

description: <b><i>Purpose:</i></b> Earlier findings revealed the damaging effect of visible light on zygotes and gametes. The aim of our study is to eliminate or significantly reduce the potentially harmful effects of light exposure during in vitro fertilization (IVF) or intracytoplasmic sperm injection (ICSI) and to investigate the effect of light protection on embryo development and implantation. <b><i>Materials and Methods:</i></b> To protect sperm cells, oocytes, and embryos from the potential harmful effects of light exposure during laboratory procedures, we created a dark environment for the cells and applied red filters on laboratory lamps and UV or infrared filters in the microscopes in order to eliminate white light exposure of the cells throughout all work stages. <b><i>Results:</i></b> The fertilization rate was significantly (<i>p</i> = 0.011) higher in light-protected ICSI cycles. Blastocyst development rates (blastocyst/embryo) were significantly (<i>p</i> &lt; 0.001) higher in light-protected embryos than in those manipulated in conventional light conditions both in IVF (20.9% difference) and ICSI (38.6% difference). Numbers of clinical pregnancies/transfers of ICSI fertilized day 5 blastocysts were also significantly (<i>p</i> = 0.040) higher in light-protected conditions. <b><i>Conclusions:</i></b> These data show that light protection has a positive effect on fertilization rate and increases the blastocyst development as well as the number of clinical pregnancies/transfers. Implementation of this light protection method in IVF centers may improve the success rate while maintaining maximal embryo safety.
DOI: 10.5281/zenodo.4009199
title: Tokamak mesh for XGCm/PUMIpic

description: 192 PUMIPic picparts of an unstructured 2D tokamak cross-section mesh. See README.md for additional info.
DOI: 10.7284/135897
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AT42-11 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/135894
title: Gyrocompass data collected during research cruise AT42-11 using a Sperry MK-37 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.5281/zenodo.4009195
title: Features of research data policies of Earth science and biodiversity academic society journals

description: Dataset related to Hübner (2020) Earth science and biodiversity journals can improve support for data publication. Preprint: https://doi.org/10.23689/fidgeo-3818 This study reviews research data policies and author instructions of 31 journals from the Earth sciences and from biodiversity that are published by German learned societies or research institutions. The statements on data publishing of the journal´s data policies / author guidelines were matched to 14 pre-defined features of journal research data policies from Hrynaszkiewicz, I. et al. (2020) Developing a Research Data Policy Framework for All Journals and Publishers. Data Science Journal, 19: 5, pp. 1–15. https://doi.org/10.5334/dsj-2020-005.
DOI: 10.5281/zenodo.4009194
title: Features of research data policies of Earth science and biodiversity academic society journals

description: Dataset related to Hübner (2020) Earth science and biodiversity journals can improve support for data publication. Preprint: https://doi.org/10.23689/fidgeo-3818 This study reviews research data policies and author instructions of 31 journals from the Earth sciences and from biodiversity that are published by German learned societies or research institutions. The statements on data publishing of the journal´s data policies / author guidelines were matched to 14 pre-defined features of journal research data policies from Hrynaszkiewicz, I. et al. (2020) Developing a Research Data Policy Framework for All Journals and Publishers. Data Science Journal, 19: 5, pp. 1–15. https://doi.org/10.5334/dsj-2020-005.
DOI: 10.21335/nmdc-646962623
title: Variability of the marine CO2 system, dissolved inorganic nutrients and stable oxygen isotopic ratio (δ18O) in Kaldfjorden in northern Norway from 2016 to 2018

description: Marine CO2 system data, total alkalinity (AT) and total dissolved inorganic carbon (CT) were collected from the full water column in Kaldfjorden at 3 stations, one per transect (inner, middle, outer) across the fjord. Sampling was performed quasi-monthly between September 2017 and September 2018. Additional sporadic sampling was carried out from September 2016 to September 2017. The seawater samples were collected from a handheld Niskin bottle (smaller vessels) and CTD-Rosette system (larger vessels) following standard procedures and analyzed at Institute of Marine Research (IMR), Tromsø, Norway after the sampling events following the method described in Dickson et al. (2007). CT was determined using gas extraction of acidified samples followed by coulometric titration and photometric detection using a Versatile Instrument for the Determination of Titration carbonate (VINDTA 3D, Marianda, Germany). AT was determined by potentiometric titration with 0.1 N hydrochloric acid using a Versatile Instrument for the Determination of Titration Alkalinity (VINDTA 3S, Marianda, Germany). Routine analyses of Certified Reference Materials (CRM, provided by A. G. Dickson, Scripps Institution of Oceanography, United States) ensured the accuracy of the measurements, which was better than ±2 µmol kg-1 for CT and AT. Description of the analytical methods can be found as a summary in the data file, as well as in the submitted manuscript Jones et al. 2020. Water samples for analysis of major nutrients (NO2, NO3, Si(OH)4, PO4) were preserved with 250 µL chloroform until post-cruise analysis following standard methods (Grasshoff et al., 2009) at the chemical laboratory at IMR, Bergen. Three replicates were analyzed for each sample. Samples for determination of the ratio of the stable oxygen isotope of seawater (δ18O) were transferred into 20 mL vials and stored in the dark at 4 °C until analysis using a Thermo Fisher Scientific Delta V Advantage mass spectrometer with Gasbench II. Data were standardised relative to Vienna Standard Mean Ocean Water (VSMOW) for δ18O (‰) with a reproducibility of replicate analyses of ±0.04‰. This study is a contribution to the project "Impact of massive Winter Herring Abundances on the KaLdfjorden Environment (WHALE; grant number 201914747042018), which was funded by the flagship "Effects of climate change on sea and coastal ecology in the north" and the flagship “Ocean acidification and effects in northern waters” of the FRAM - High North Research Centre for Climate and the Environment.
DOI: 10.6084/m9.figshare.12896507
title: Supplementary Material for: Do Different Methods Yield Equivalent Estimations of Brain Size in Birds?

description: The ratio of brain size to body size (relative brain size) is often used as a measure of relative investment in the brain in ecological and evolutionary studies on a wide range of animal groups. In birds, a variety of methods have been used to measure the brain size part of this ratio, including endocranial volume, fixed brain mass, and fresh brain mass. It is still unclear, however, whether these methods yield the same results. Using data obtained from fresh corpses and from published sources, this study shows that endocranial volume, mass of fixed brain tissue, and fresh mass provide equivalent estimations of brain size for 48 bird families, in 19 orders. We found, however, that the various methods yield significantly different brain size estimates for hummingbirds (Trochilidae). For hummingbirds, fixed brain mass tends to underestimate brain size due to reduced tissue density, whereas endocranial volume overestimates brain size because it includes a larger volume than that occupied by the brain.
DOI: 10.5281/zenodo.4009206
title: Strf Capture - Satnogs station 1000 - 2020-08-31 - 2245e6

description: strf capture from satnogs station 1000 of almost 2 hours RF data centered at 2245e6 with bandwidth 2e6. Parabolic dish pointing to Az 240 / El 25 Capture using USRP B210
DOI: 10.5281/zenodo.4009205
title: Strf Capture - Satnogs station 1000 - 2020-08-31 - 2245e6

description: strf capture from satnogs station 1000 of almost 2 hours RF data centered at 2245e6 with bandwidth 2e6. Parabolic dish pointing to Az 240 / El 25 Capture using USRP B210
DOI: 10.6084/m9.figshare.9741203
title: SLmodeling_Duchemin_ElecSuppMat.xlsx

description: This xls document provides data from a scoping review on sick leave modeling methodologies.<br>
DOI: 10.4119/unibi/2945539
title: Data Publication: Tactile, Force and Torque Data of Robotic Lid Closing

description: This archive contains 51 sequences of a shadow motor hand with tactile fingertips that executes a "closing lid" motion on top of a tactile sensor board, stored as rosbag files.
DOI: 10.6084/m9.figshare.12805880
title: the complete mitochondrial genome of Longlegged Spiny Lobster panulirus longipes (A. Milne Edwards, 1868) sequencing cleandata

description: the complete mitochondrial genome of Longlegged Spiny Lobster panulirus longipes (A. Milne Edwards, 1868) sequencing cleandata
DOI: 10.6084/m9.figshare.12805880.v1
title: the complete mitochondrial genome of Longlegged Spiny Lobster panulirus longipes (A. Milne Edwards, 1868) sequencing cleandata

description: the complete mitochondrial genome of Longlegged Spiny Lobster panulirus longipes (A. Milne Edwards, 1868) sequencing cleandata
DOI: 10.6084/m9.figshare.12452615.v2
title: Data used to quantify the life cycle cost, primary energy and greenhouse gas emissions of a net zero life cycle primary energy and greenhouse gas emissions apartment building in a Mediterranean climate

description: This datasets contains all relevant data used to calculate the life cycle cost, primary energy use, and greenhouse gas emissions of a net zero life cycle primary energy and greenhouse gas emissions apartment building in Sehaileh, Lebanon.<br>These data include:<br>→The detailed bill of material quantities of the base case;<br>→The detailed bill of assemblies quantities of the base case;<br>→The detailed life cycle cost calculations for each measure and the net zero life cycle primary energy and greenhouse gas emissions building;<br>→The detailed calculations related to the sensitivity analysis; and<br>→Other relevant data and information.
DOI: 10.6084/m9.figshare.12896177.v1
title: Palaeontology meets metacommunity ecology: the Maastrichtian dinosaur fossil record of North America as a case study.

description: Raw dataset. Dinosaur occurrence matrices for the Maastrichtian of North America were retrieved from the Palaeobiology Database on May 2020, using the taxon name ‘<i>Dinosauria</i>’ and a time span of 72.1 – 66.0 Ma. The following items were assembled for each collection: species composition, formation name, mid age, reference ID, depositional environment and geographical palaeocoordinates.
DOI: 10.6084/m9.figshare.12896177
title: Palaeontology meets metacommunity ecology: the Maastrichtian dinosaur fossil record of North America as a case study.

description: Raw dataset. Dinosaur occurrence matrices for the Maastrichtian of North America were retrieved from the Palaeobiology Database on May 2020, using the taxon name ‘<i>Dinosauria</i>’ and a time span of 72.1 – 66.0 Ma. The following items were assembled for each collection: species composition, formation name, mid age, reference ID, depositional environment and geographical palaeocoordinates.
DOI: 10.5517/cc6489w
title: CCDC 182847: Experimental Crystal Structure Determination

description: Related Article: V.A.Al'fonsov, G.A.Bakaleinik, A.T.Gubaidullin, V.E.Kataev, G.I.Kovylyaeva, A.I.Konovalov, I.A.Litvinov, I.Yu.Strobykina, O.V.Andreeva, M.G.Korochkina, D.V.Beskrovnyi|2001|Zh.Obshch.Khim.|71|1374|
DOI: 10.5281/zenodo.4009240
title: SWAT 55 survey and dataset

description: Recruiting people to take part is an important part of a research study. Researchers need to understand what makes people decide whether or not to take part in research. In this survey, we wished to find out the reasons why carers of people with chronic conditions, as a discrete group of the general public, might decide to take part in a research study as well as the challenges (difficulties or problems) they think they might face by taking part.<em> </em>The survey asked participants to rate a series of reasons and challenges based on how important they think these are in making decision to take part, or not, in a research study.