cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13145/bacdive24664.20251217.10
title: Vibrio ostreicida Prado et al. 2014

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0091770.10fu
title: SH0091770.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive24665.20241212.9.2
title: Vibrio ostreicida Prado et al. 2014

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive24665.20251217.10
title: Vibrio ostreicida Prado et al. 2014

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive24666.20250331.9.3
title: Waddlia chondrophila Rurangirwa et al. 1999

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive24666.20251217.10
title: Waddlia chondrophila Rurangirwa et al. 1999

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive24667.20250331.9.3
title: Williamsia sterculiae Fang et al. 2013 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.3535/y52-kgp-gkb
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/tbw-c7t-2qf
title: †Spirifer Sowerby, 1818

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/v8y-c98-xxd
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/7cy8ktcr6m
title: LDHU3_01.0380

description: Mitochondrial pyruvate carrier | MPC1; Leishmania donovani
DOI: 10.17632/zrtfry5fsd
title: Project: Preprint Observatory

description: Experiments with faster dissemination of research began in the 1960s, and in the 1990s first preprint servers emerged and became widely used in Physical Sciences and Economics. Since 2010, more than 30 new preprint servers have emerged and the number of deposited preprints has grown exponentially, with numerous journals now supporting posting of preprints and accepting preprints as submissions for journal peer review and publication. Research on preprints is, however, still scarce.

The goals of this project are:
1) Study preprint policies, submission requirements and addressing of transparency in reporting and research integrity topics of all know preprint servers that allow deposit of preprints to researchers regardless of their institutional affiliation or funding.    
2) Study comments deposited on preprint servers’ platforms and social media and their relation to peer review and information exchange. 
3) Study differences between preprint version(s) and version of record.
4) Living review of manuscript changes

Team Members (by first name alphabetical order):

Ana Jerončić,1 Gerben ter Riet,2,3 IJsbrand Jan Aalbersberg,4 John P.A. Ioannidis,5-9 Joseph Costello,10 Juan Pablo Alperin,11,12 Lauren A. Maggio,10 Lex Bouter,13,14 Mario Malički,5 Steve Goodman5-7

1 Department of Research in Biomedicine and Health, University of Split School of Medicine, Split, Croatia
2 Urban Vitality Centre of Expertise, Amsterdam University of Applied Sciences, Amsterdam, The Netherlands
3 Amsterdam UMC, University of Amsterdam, Department of Cardiology, Amsterdam, The Netherlands
4 Elsevier, Amsterdam, The Netherlands
5 Meta-Research Innovation Center at Stanford (METRICS), Stanford University, Stanford, CA, USA 
6 Department of Medicine, Stanford University School of Medicine, Stanford, California, USA
7 Department of Epidemiology and Population Health, Stanford University School of Medicine, Stanford, California, USA
8 Department of Biomedical Data Science, Stanford University School of Medicine, Stanford, California, USA
9 Department of Statistics, Stanford University School of Humanities and Sciences, Stanford, California, USA
10 Uniformed Services University of the Health Sciences, Bethesda, Maryland, USA
11 Scholarly Communications Lab, Simon Fraser University, Vancouver, British Columbia, Canada
12 School of Publishing, Simon Fraser University, Vancouver, British Columbia, Canada
13 Department of Philosophy, Faculty of Humanities, Vrije Universiteit, Amsterdam, The Netherlands
14 Amsterdam UMC, Vrije Universiteit, Department of Epidemiology and Statistics, Amsterdam, The Netherlands
DOI: 10.3535/0vq-sc8-nba
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/vs5-n5c-mb2
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/wh5dts5vzf
title: Data for: Price and income elasticities of oil demand in Mauritius: An empirical analysis using cointegration method

description: Data for - Price and income elasticities of oil demand in Mauritius: An empirical analysis using cointegration method
DOI: 10.3535/bmp-61j-lt1
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/y50-907-ty2
title: Glyptolepis sp.

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/4b47xv4bzn
title: CODE GUIDE - Sustainable Manufacturing – Strategic Choices from and for small and medium-sized Enterprises

description: A method from empirical social research was used, which is particularly suitable for analysing qualitative data. The method is presented in detail below and the origin and type of data analysed are presented in more detail. The aim of using Mayring's Qualitative Content Analysis is to accumulate structured information when analysing large amounts of data (text, reports, e.g.) in order to be able to draw up new theoretical considerations. In the sustainability reports of the Sustainability Code, 20 criteria are used to disclose aspects of sustainability-relevant information [*2]. These 20 criteria are divided into two subject areas. The Analysis focuses on criteria 1-4. Attached is the coding guideline.
DOI: 10.3535/emg-eps-j4z
title: Phyllocarida sp.

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/g4m-lv6-36e
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/6rhdbdkccc
title: Professor

description: Data related to the paper "Integrated analysis of the Brazilian nuclear energy system"
DOI: 10.17632/8g6x6frsdr
title: Lycopene Content in Hydroponically Cultivated and Grafted Tomato Varieties

description: Heirloom tomato varieties are in demand by consumers due to high antioxidant levels. However, these varieties are difficult to produce and are prone to disease and low yield. To overcome these problems, heirloom tomatoes may be grafted onto disease-resistant rootstocks and cultivated in hydroponic systems. However, it is unknown if the lycopene content of hydroponically grown tomatoes is affected by grafting. Heirloom (Black Krim and Green Zebra) and standard (Big Beef) varieties were grafted onto wild type (WT) or productive rootstocks (Arnold and Supernatural). Tomatoes were harvested at maturity, freeze-dried, ground into a powder, and stored at -20ºC until further analysis. Freeze-dried tomato powder (100 mg) was extracted by 1 mL hexane/acetone/ethanol (2:1:1, v/v/v) under shaking for 30 min at room temperature, after which 0.2 mL ddH2O was added and vigorously mixed. The polar and non-polar phases were separated by centrifugation at 3000 xg for 10 min, after which the non-polar phase containing lycopene was collected. The remaining plant material was extracted once more using 1 mL hexane/acetone/ethanol (2:1:1, v/v/v) as described above. The content of lycopene was determined by measuring the absorbance spectrophotometrically at 503 nm (εlycopene =1.72 × 105 M-1cm-1). Comparing self-grafted Big Beef, Black Krim, and Green Zebra showed lycopene contents of 9.97±2.02, 15.55±1.97, and 3.37±0.39 mg/kg dry weight (mean±std), respectively. The results were statistically significantly different between the three varieties reflecting the natural pigmentation in each. When comparing the effect of grafting onto non-WT rootstocks, surprisingly, Big Beef grafted onto Supernatural demonstrated significantly higher lycopene content (17.25±0.24 mg/kg dry weight) compared to both WT (9.97±2.02 mg/kg dry weight) and Arnold (8.09±1.39 mg/kg dry weight) rootstocks. Similar effects were not observed for the grafted heirloom varieties, for which the lycopene content was determined to be 15.55±1.97, 16.29±2.93, 19.14±3.21 mg/kg dry weight for Black Krim grafted onto WT, Arnold, and Supernatural, respectively, and 3.37±0.39, 3.52±0.15, 3.03±0.03 mg/kg dry weight for Green Zebra grafted onto WT, Arnold, and Supernatural, respectively.
DOI: 10.3535/27c-38l-3j3
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/a7a-jzm-9hg
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/pk4ttvsm9b
title: SME Finance Gap

description: 119 articles on SME Finance Gap as per the Scopus Database Search Enquiry conducted.
DOI: 10.3535/xl2-bd8-79c
title: †Siphonotreta Verneuil, 1845

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.28311545.v1
title: Data and R codes for Ecological similarities and dissimilarities between donor and recipient regions shape global plant naturalizations

description: Data and code for Fan et al. Ecological similarities and dissimilarities between donor and recipient regions shape global plant naturalizations
DOI: 10.15468/dl.48m8ae
title: Occurrence Download

description: A dataset listing the 183 species recorded in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Machine Observation)",
 "Country is United States of America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Carnivora",
 "Year 2014-2024"
 ]
}

 The dataset's 183 records were derived from 89 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009622-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/x524ptd2p9
title: Data for: Conditions required for multiple reuses of solvents in indirect carbonation

description: Raw data for the TGA results in Table 1, Fig. 7 and Fig. 8 are attached to the supporting information with the following file names: SI-Table 1 SI-Fig. 7 SI-Fig. 8
DOI: 10.3535/chk-40y-exh
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/z6a-55p-anf
title: Brachiopoda Duméril, 1805

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.964793.v1
title: Investigation of Hellenic families with microscopic hematuria reveals the frequency of collagen IV mutations and evidence for activation of the unfolded protein response

description: Familial hematuria(s) comprise a genetically heterogeneous group of conditions which include heritable glomerulopathies, such as Alport Syndrome (AS) and thin basement membrane nephropathy (TBMN). AS is rare and is caused by X-linked COL4A5 or autosomal recessive COL4A3/A4 mutations (ARAS), while TBMN is frequent with an estimated population prevalence of 1%. About 40% of TBMN is caused by heterozygous COL4A3/A4 mutations. Genetics studies in the Hellenic population revealed that 12-16% of families with microscopic hematuria harbor mutations in the COL4A3/A4 genes. Specifically, 9 mutations were found in the COL4A3/A4/A5 genes of 15 Greek families and 10 mutations in 30 Greek-Cypriot families. Focusing on 228 TBMN patients of Greek-Cypriot ancestry with known COL4 mutations, shows that by the age of 70-years nearly half of patients develop chronic renal failure and 30% reach end-stage kidney disease (ESKD). These findings clearly challenge the formerly thought benign nature of TBMN. In our cohort, although at later age at onset, twice as many patients reach ESKD because of TBMN than patients with AS. Two founder mutations in COL4A3 (G1334E & G871C) account for 84% of all patients. Mutation G1334E was found in 174 patients of 15 families. We have evidence that the adverse outcome of a subset of TBMN patients is attributed to co-inheritance of modifier genes with negative impact. One such modifier is the podocin variant NPHS2-R229Q, while we are in the process of searching for more, taking advantage of our genetically more homogeneous population. Functional studies showed that mutant COL4 chains expressed in podocytes are preferentially retained in the cells, compared to WT chains. Also, mutant chains differentially triggered activation of the unfolded protein response (UPR) pathway. Importantly, UPR activation was shown in biopsies of patients with TBMN who carried mutation G1334E, as well as in homozygous knockin mice presenting with AS-like nephritis. The UPR maladaptive activation is part of an intracellular phenotype that probably contributes to disease development. If so, it may prove to be a target for novel therapies through the use of chemical chaperones.
DOI: 10.3535/91m-bf4-7n8
title: sedimentary rocks

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/jmg-1qy-ht8
title: sedimentary rocks

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.4896836.v2
title: RNA-binding protein RBM14 regulates dissociation and association of non-homologous end joining proteins

description: Defects in the DNA damage response (DDR) are associated with multiple diseases, including cancers and neurodegenerative disorders. Emerging evidence indicates involvement of RNA-binding proteins (RBPs) in DDR. However, functions of RBPs in the DDR pathway remain elusive. We have shown previously that the RNA-binding protein RBM14 is required for non-homologous end joining (NHEJ). Here we show that RBM14 is required for efficient recruitment of XRCC4 and XLF to chromatin and the release of KU proteins from chromatin upon DNA damage. Failure of this process leads to accumulation of double-strand breaks (DSBs) in cells. Thus RBM14 plays crucial role in regulation of NHEJ upon DNA damage.
DOI: 10.3535/1y5-10s-qky
title: rocks

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/s7j-qaz-v3a
title: sedimentary rocks

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.27038293.v2
title: Exploring ethical surveillance of physical activity behaviors: a smart platform study operationalizing digital citizen science

description: This data supports the study exploring ethical surveillance of physical activity behaviors: a smart platform study operationalizing digital citizen science.
DOI: 10.17632/8jkpv5n7sb
title: SecDec-3.0: Numerical evaluation of multi-scale integrals beyond one loop

description: Abstract SecDec is a program which can be used for the factorization of dimensionally regulated poles from parametric integrals, in particular multi-loop integrals, and the subsequent numerical evaluation of the finite coefficients. Here we present version 3.0 of the program, which has major improvements compared to version 2: it is faster, contains new decomposition strategies, an improved user interface and various other new features which extend the range of applicability. Title of program: SecDec 3.0 Catalogue Id: AEIR_v3_0 Nature of problem Extraction of ultraviolet and infrared singularities from parametric integrals appearing in higher order perturbative calculations in gauge theories. Numerical integration in the presence of integrable singularities (e.g. kinematic thresholds). Versions of this program held in the CPC repository in Mendeley Data AEIR_v1_0; SecDec; 10.1016/j.cpc.2011.03.026 AEIR_v2_0; SecDec 2.0; 10.1016/j.cpc.2012.09.020 AEIR_v2_1; SecDec 2.1; 10.1016/j.cpc.2013.05.022 AEIR_v3_0; SecDec 3.0; 10.1016/j.cpc.2015.05.022 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018)
DOI: 10.17632/fnxhfvkphf
title: Uniquities of Rectal Foreign Body

description: Rectal foreign bodies often pose a challenging diagnostic and management dilemma that begins at the initial evaluation in the emergency room and continues till the post-extraction period. Objects can be inserted in to the rectum for diagnostic or therapeutic purposes, self-treatment of anorectal disease, during criminal assault or accidents, or for sexual purposes. Numerous objects, including various fruits and vegetables, nails, light bulbs, bottles, body spray cans have been described as retained rectal foreign bodies. Patients with rectal foreign bodies are embarrassed and often reluctant to state the true nature of their emergency room visit. As a result, they may present with a chief complaint of rectal pain or abdominal pain, bright red blood per rectum, inability to have a bowel movement, and rectal mucous leakage.[1] A systematic approach to the diagnosis and management of rectal foreign bodies is essential. The objective of this study is to present 2 unusual cases of accidental rectal foreign bodies in adults and case specific clinical presentation and surgical management. Case Series involving two unique cases of rectal foreign body received in emergency room of Sri Ramachandra Institute of Higher Education and Research and the surgical management of those cases. The social stigma surrounding self-introduced rectal foreign bodies leads to delay in seeking treatment. Rectal foreign bodies have a good chance of causing bowel perforation and hence post foreign body removal observation is vital to detect and prevent life threatening complications of perforation. If there is any doubt of perforation, a computed tomography scan with rectal contrast or rectal enema with watersoluble contrast can detect this potentially life-threatening complication. The use of minimally invasive operative techniques for impacted rectosigmoid foreign bodies has been described which is a combination of laparoscopic downward milking of the object followed by per anal extraction but it is recommended only for smooth foreign bodies and if successful, avoids the need for a full laparotomy and provides the benefit of early discharge from the hospital.[2] The presentation of rectal foreign bodies is at most times unpredictable due to the uniqueness of each case and surgical management should be customised according to the circumstance.
DOI: 10.3535/ft6-c6n-7d6
title: ores

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/wbt-jd7-czp
title: sedimentary rocks

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/a9j-hq4-7xw
title: ores

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/grs-5rx-2rs
title: Vivianite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.6084/m9.figshare.12950924.v1
title: Hanguana ddRAD alignment with outgroups and reference

description: A consensus read of ddRADseq sequences of Hanguana spp., together with aligned data from various spp. of Hanguana and ourgroup taxa (Arecaceae, Zingiberaceae, Pontederiaceae and Commelinaceae)
DOI: 10.17632/49b3p7wtgm
title: Does audio and video recorded feedback improve surgical performance: a randomized controlled trial

description: Deidentified dataset of OB/GYN residents. 
Residents underwent initial assessment of simulated laparoscopic vaginal cuff closure scored with GOALS+. Residents then received single, proctored session with expert MIGS surgeon. Residents randomized to receive access to audio/video recording of proctored session or video only recording. Learners were then assessed approximately 1 week after proctored session with same vaginal cuff closure model (GOALS+).
DOI: 10.3535/epn-l0x-8b9
title: Ichnofossils

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/vlq-34z-18k
title: Belomorite

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/3p2ctv5dgk
title: LINF_100006500

description: protein of unknown function - conserved
Leishmania infantum
DOI: 10.3535/15p-08m-x5m
title: sedimentary rocks

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.3535/mvw-1qt-fp8
title: sedimentary rocks

description: Digital Specimen for the physical specimen hosted at Tallinn University of Technology.
DOI: 10.17632/crz8f9k9gy
title: M. 3243A&gt;G induced mitochondrial dysfunction impairs human neuronal development and reduces neuronal network activity and synchronicity

description: This dataset is composed of the Source Data files containing the raw data used to generate the main- and supplementary figures of the Cell Reports paper "M. 3243A&gt;G induced mitochondrial dysfunction impairs human neuronal development and reduces neuronal network activity and synchronicity".