cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28831904.v2
title: Supplementary Tables and Figures

description: Supplementary Tables associated with the manuscript titled "<b>Assemblies of long-read metagenomes suffer from diverse errors</b>" by Florian Trigodet et al.A reprodudicle bioinformatics workflow for this work and more information is available at the URL https://merenlab.org/data/benchmarking-long-read-assemblers/.
DOI: 10.6084/m9.figshare.5772021.v1
title: Dependence of E-H transition in argon ICP discharges for treatment of organic molecules

description: ABSTRACT Plasma surface cleaning is an alternative process that aims at the fully removal of organic contaminants on several kinds of materials. Despite its advantages, there are still lacks on the comprehension of the complex relations between plasma-generated species and organic molecules during plasma cleaning. In the present work, a linear alkane (hexatriacontane - C36H74), used as a contaminant model, was exposed to an Argon radiofrequency (RF) inductively coupled plasma (ICP). The by-products from degradation were monitored by optical emission spectroscopy (OES) and residual gas analysis (RGA), to identify the influence of sample positioning on E and H discharge modes regions. The exposition to H-mode discharge resulted in more intense and profuse emissions of C-H and C2 systems. RGA results show similar byproducts from degradation in both modes; however, the intensity from treatment in H-mode is largely greater. It was also observed that plasma etching in H-mode is enough to melt the sample, while E-type discharge leaves the surface of the sample apparently unchanged.
DOI: 10.6084/m9.figshare.24408292.v1
title: Matlab MAT-file containing model output data used to create Fig 7-9.The data are arranged as a vector (:,[Time,A2_soma,BC,GC],cell_x,cell_y)

description: Output data of the model simulations
DOI: 10.6084/m9.figshare.29107817.v1
title: Data relating to: <b>Bacteria isolated from biodiverse Mediterranean island habitats yield a large array of biopesticidal metabolites against mosquito larvae</b>

description: All results pertaining to the screening of over 700 bacterial isolates taken from terrestrial habitats in Crete, Greece. Eventually through high throughput screening of live cells, 38 were selected for intensive interrogation as potential biopesticides using <i>Culex pipiens molestus </i>as the model mosquito larvae for trials. Sonicates, alongside polar and non-polar preferential extractions, were used to interrogate the efficacy of the isolates, with three key organisms providing highly potent larvicidal action.
DOI: 10.6084/m9.figshare.18864926.v1
title: Additional file 2 of Genome-scale analysis of genetic regulatory elements in Streptomyces avermitilis MA-4680 using transcript boundary information

description: Additional file 2: Table S1. List of transcription start sites (TSSs) identified in this study.
DOI: 10.6084/m9.figshare.22233238.v1
title: Prioritizing areas for ecological restoration: a participatory approach based on cost-effectiveness

description: Landscape-scale prioritization models are powerful decision-making tools in ecological restoration. Yet, they often fail to integrate multi-stakeholder perspectives and socio-ecological criteria. We designed a new methodology to identify high-priority areas for landscape-scale restoration. This participatory cost-effectiveness analysis model is based on execution and maintenance costs and the potential increase in the supply of multiple ecosystem services. We tested the model in a 181,000 ha heavily anthropized semiarid landscape in southeastern Spain. Restoring the whole area would cost 221 million EUR and enhance the supply of ecosystem services by 39%. The cost-effectiveness of restoring pine forest and abandoned and irrigated crops were higher than restoring other Landscape Units. Restoring the least degraded sites was more cost-effective than the most degraded areas or randomly selecting sites, even when potential recovery was incomplete. The cost-effectiveness of restoration actions depends on the type of ecosystem and degradation state. Visualizing the outcomes of alternative restoration scenarios needs participatory prioritization maps based on financial costs and the potential supply of ecosystem services. We propose a participatory prioritization protocol that is flexible and adaptable and can help government agencies, environmental managers, investors, consultancies, and NGOs plan restoration actions at the landscape scale and optimize the effectiveness of restoration programs.
DOI: 10.6084/m9.figshare.28738217.v1
title: Data for <b>Biodiversity and management as central players in the network of relationships underlying forest resilience</b> - Global Change Biology

description: Global change is threatening the integrity of forest ecosystems worldwide, amplifying the need for resilience-based management to ensure their conservation and sustain the services they provide. Yet, current efforts are still limited by the lack of implementation of clear frameworks for operationalizing resilience in decision-making processes. To overcome this limitation, we aim to identify reliable and effective drivers of forest resilience, considering their synergies and trade-offs. From a comprehensive review of 367 scientific articles addressing resilience in forests globally, we identified factors shaping forest resilience. We recognized them into two categories that influence forest responses to disturbances: resilience predictors, which can be modified through management, and codrivers, which are measurable but largely unmanageable (e.g., climate). We then performed network analyses based on predictors and codrivers underlying forest resilience. In total, we recognized 5,332 such relationships linking predictors or codrivers with forest attributes resilience. Our findings support the central role of biodiversity, with mixed, non-planted, or functionally diverse forests promoting resilience across all contexts and biomes. While management also enhanced resilience, the success of specific interventions was highly context-dependent, suggesting that its application requires a careful analysis of trade-offs. Specifically, practices like cutting and prescribed burning generally enhanced resilience in terms of tree growth, plant diversity, landscape vegetation cover, and stand structure. In contrast, pest and herbivore control reduced the resilience of plant taxonomic diversity while offering only minimal gains for other variables. Even long-term restoration projects showed clear trade-offs in the resilience of different forest attributes, highlighting the need for careful consideration of these effects in practical management decisions. Overall, we emphasize that a reduced number of predictors can be used to effectively promote forest resilience across most attributes. Particularly, enhancing biodiversity and implementing targeted management strategies when biodiversity is impoverished emerge as powerful tools to promote forest resilience.
DOI: 10.17632/4s6sy4b4nf
title: Harmonic interlayer potential with no higher-order contributions.

description: Perl script for creating a table-style inter-atomic potential for using in lammps scripts. Contains the potential file itself as well. While the inter-atomic potential is not exactly harmonic, it results in a perfectly harmonic interaction between crystallographic layers in FCC crystal.
DOI: 10.6084/m9.figshare.17019242.v1
title: Data_Resilience_Survey.xlsx

description: From manuscript, "Influence of Protective Factors and Resilience on a Person's Experience of Interactions with the Police: A Survey"
DOI: 10.6084/m9.figshare.29115722.v1
title: Supplementary Material for: Case-Series of a Previously Undescribed Ulcerative Variant of Hidradenitis Suppurativa

description: Introduction: Hidradenitis suppurativa (HS) is an auto-inflammatory disease characterized by recurrent painful nodules, abscesses, tunnels and scarring, commonly seen in intertriginous body surfaces; however, an additional ulcerative phenotype has not been described and represents a specific clinical phenotype of the disease requiring special therapeutic considerations. Case Presentation: We report 4 patients with a previously undescribed, ulcerative phenotype of HS that did not respond to standard treatment but were healed with surgery. These lesions present as large, deep-dermal, erythematous, well-defined ulcers that are exquisitely tender. Conclusion: This phenotype necessitates recognition by the clinician, as a rapid path to combined pharmacologic and surgical management is crucial for the patient.
DOI: 10.6084/m9.figshare.7016747.v3
title: In-silico model input data

description: Input data to execute the simulations using FEB3 (<i>Phoebe</i>).
DOI: 10.17028/rd.lboro.12017007.v1
title: Data files associated with “Stereotype Threat, Gender and Mathematics Attainment: A Replication of Stricker & Ward”

description: Data and analysis files associated with the manuscript “Stereotype Threat, Gender and Mathematics Attainment: A Replication of Stricker & Ward”.<br>Files are in JASP format: https://jasp-stats.org/<br>The main analysis is in All_1169_Participants.jasp, subgroup analyses in the other two files.<br>For non-JASP users, the data are also in All_1169_Participants.txt, and the results are in html files.<br>The multilevel model was conducted in R, and the script is included here.<br>Key variables:<br>Form: A=(name and gender before), B=(name and gender after) answering the questions.<br>GenderFemale: 1 if female, 0 if male.<br>The first digit of the ID indicates the school - they are all in England and have the following characteristics:<br>1. Non-selective Coed State school (Academy)2. Selective Girls State school (Academy)3. Non-selective Coed State school (Academy)4. Selective Coed State school (Academy)5. Selective Coed State school (Academy)<br>OfficialScore: the score awarded to each student by the UKMT.
DOI: 10.17632/tmp5ry5sz8
title: Intrinsic Adaptive Plasticity in Mouse and Human Sensory Neurons

description: Here, we show that sustained depolarization (induced by 24h incubation in 30mM KCl) induces compensatory changes that decrease excitability of mouse and human sensory neurons without directly opposing membrane depolarization. Voltage clamp recordings show that sustained depolarization produces no significant alteration in voltage-gated potassium currents, but a robust reduction in voltage-gated sodium currents, likely contributing to the overall decrease in neuronal excitability. The compensatory decrease in neuronal excitability and reduction in voltage-gated sodium currents reversed completely following a 24h recovery period in normal medium. Similar adaptive changes were not observed in response to 24h of sustained action potential firing induced by optogenetic stimulation at 1Hz, indicating the need for prolonged depolarization to drive engagement of this adaptive mechanism in sensory neurons. Our findings show that mouse and human sensory neurons are capable of engaging adaptive mechanisms to regulate intrinsic excitability in response to sustained depolarization in a manner similar to that described in neurons in the central nervous system. 

The data listed here show a description of the electrophysiological analysis of mouse and human sensory neurons subjected to sustained depolarization. In addition, you will find results from immunocytochemistry and cell viability assays. The data listed here also includes statistical analysis generated by Graphpad. Please refer to our manuscript for further description. 

The link to the RNAseq dataset is listed below
DOI: 10.6084/m9.figshare.14068910.v1
title: acnportal-experiments-data

description: <b>ACN Research Portal Experiments</b><b><br></b>This dataset includes data and results used in the acnportal-experiments repository. Data for each example is stored as a zipped file. Most examples include code to automatically pull this data from figshare, so you should not need to download this data separately in most cases.
DOI: 10.6084/m9.figshare.23401133.v1
title: List of well locations in the Montney play region of Alberta and British Columbia (January 2007 - April 1, 2022)

description: List of wells in the Montney play region, giving latitude (degrees), longitude (degrees), UTM easting, northing and zone, and date the well went on production.
DOI: 10.6084/m9.figshare.27968964.v1
title: Data for Paper 'Heat Before Flowering Reduces Fruit Size in Dayneutral Strawberries'.zip

description: 1.The data were sorted into four categories: raw data (fruit and achene data collected for three experiments), table data (data used for making the tables for paper), figure data (data used for making figures for paper) and temperature data (the air and soil temperatures for the two field experiments). SAS analytics software and Microsoft Excel may be needed to open the file.2.Abbreviation: ovulen - ovule number, volumeovule - volume of ovule, dev - percent of developed ovules, und - percent of undeveloped ovules, unf - percent of unfertilized ovules, seedl - ovule length, seedw - ovule width, totalg - total percent of germination, floaterg - germination percentage of floater, sinkerg - germination percentage of sinkers, finalg - time to full germination, fiftyg - time to 50% germination, coldg - germination percentage after cold treatment3.Blank cells represents the missing values (diseased or rotted fruits)
DOI: 10.6084/m9.figshare.7710560.v1
title: Ecotoxicology assay for the evaluation of environmental water quality in a tropical urban estuary

description: Abstract Most studies evaluating the impacts of river pollution in the semi-arid region of Brazil have been geared towards physiochemical analyses, and investigations of the adverse effects of water pollution on associated organisms are scarce. This study aimed to evaluate the water quality in the Poxim river estuary in Aracaju, Sergipe throughout the dry and rainy season by evaluating the survival of the microcrustacean Mysidopsis juniae and physicochemical analyses. The evaluation of physiochemical parameters revealed a decrease in dissolved oxygen content in the rainy season. However, there was a significant reduction in microcrustacean survival in samples during the dry season, when the river flow is reduced and effluents become concentrated. These results suggest that pollutants received and carried by the waters of the Poxim River contribute to the reduction of environmental quality in the estuary, and this impact may vary according to dry and rainy patterns, that are uncertain considering the impacts of climate change on tropical regions.
DOI: 10.17632/8rss6rghvb
title: Mechanisms of readthrough mitigation reveal principles of GCN1 mediated translational quality control

description: Readthrough into the 3′ untranslated region (3′UTR) of the mRNA results in the production of aberrant proteins. Metazoans efficiently clear readthrough proteins, but the underlying mechanisms remain unknown. Here, we show in C. elegans and mammalian cells that readthrough proteins are targeted by a coupled, two-level quality control pathway involving the BAG6 chaperone complex and the ribosome collision-sensing protein GCN1. Readthrough proteins with hydrophobic C-terminal extensions are recognized by SGTA-BAG6 and ubiquitylated by RNF126 for proteasomal degradation. Additionally, cotranslational mRNA decay initiated by GCN1 and CCR4/NOT limits the accumulation of readthrough products. Unexpectedly, selective ribosome profiling uncovered a general role of GCN1 in regulating translation dynamics when ribosomes collide at nonoptimal codons, enriched in 3′UTRs, transmembrane proteins and collagens. Dysfunction of GCN1 increasingly perturbs these protein classes during aging, resulting in mRNA and proteome imbalance. Our results define GCN1 as a key factor acting during translation in maintaining protein homeostasis.
DOI: 10.6084/m9.figshare.19425665.v1
title: Near-real-time daily estimates of CO2 emissions from 1500 cities worldwide

description: A daily city-level dataset of fossil fuel and cement CO2 emissions. It provides daily, city-level estimates of emissions from January 2019 through December 2021 for 1500 cities in 46 countries, and disaggregates five sectors: power generation, residential (buildings), industry, ground transportation, and aviation. The goal of this dataset is to improve the timeliness and temporal resolution of city-level emission inventories and includes estimates for both functional urban areas and city administrative areas that are consistent with global and regional totals. It also provides the first estimates for many cities in low-income countries. Such near-real-time CO2 dataset would be of great advantage to further monitoring the human activities and to capture the impacts of COVID-19 for long term.<br><br>Latest Dataset for:Carbon Monitor Cities, near-real-time daily estimates of CO2 emissions from 1500 cities worldwide
DOI: 10.6084/m9.figshare.24328816.v1
title: Askari and Chan (2023)_Toronto Indoor_to_outdoor Transfer Study.xlsx

description: These data show the hourly concentration data across inlet and exhaust air streams associated with the Makeup Air Unit (MAU) investigated by Askari and Chan. The data are associated with the manuscript "Investigating the Role of Buildings in Ambient Air Quality."
DOI: 10.6084/m9.figshare.25560189.v2
title: Raster Scan Images

description: Includes parameters: 1382cm, 1385cm, 1390cm, 1400cm, 1410.5cm, 1419.5cm, 1430cm, 1450cm, 1469cm, 1500cm, 1530cm, 1400cm, 1450cm, 1500cmAlso includes:Large 4x4um 1450.5cm-1 bubblesxx, sz_1500cm-1, 3x3um
DOI: 10.5281/zenodo.15565443
title: Lithological types of seafloor sediments, Eastern Black Sea, DOORS Cruise 3 (MN256)

description: The dataset contains sedimentological descriptions of Holocene and Upper Pleistocene seafloor sediments in the Eastern Black Sea (Georgian EEZ) collected during DOORS Cruise 3 (MN256), 2024. Sampling was performed using Van Veen Grab, multicorer, box-corer and gravity сorer from seafloor depths from 31 m to 1062 m.
DOI: 10.5281/zenodo.15565444
title: Lithological types of seafloor sediments, Eastern Black Sea, DOORS Cruise 3 (MN256)

description: The dataset contains sedimentological descriptions of Holocene and Upper Pleistocene seafloor sediments in the Eastern Black Sea (Georgian EEZ) collected during DOORS Cruise 3 (MN256), 2024. Sampling was performed using Van Veen Grab, multicorer, box-corer and gravity сorer from seafloor depths from 31 m to 1062 m.
DOI: 10.6084/m9.figshare.4213800.v1
title: Relações solo-vegetação na estruturação de comunidades de cerrado sensu stricto no sul de Minas Gerais, Brasil - dados suplementares ao artigo

description: Os suplementos digitais desse artigo contam com duas matrizes de dados brutos, sendo uma dos dados florísticos e fitossociológicos, e outra com os atributos de solo, bem como o mapa apresentado da área de estudo no formato TIF (Tagged Image File Format). Estão também disponíveis quatro tabelas de dados preparados quando da elaboração das representações gráficas apresentadas no artigo. Os dados de campo das duas comunidades arbóreas de cerrado sensu stricto contém a identificação das espécies, CAP(0,30m) - circunferência à 0,30m do solo e altura (m). Os dados estão subdivididos em duas áreas, a saber: área 1 de cerrado rupestre e área 2 de cerrado sensu stricto. O objetivo do projeto é investigar o papel dos solos na nítida variação pré-observada na composição e estrutura da flora arbórea. Por fim, segue abaixo legenda das planilhas:Área: 1=cerrado rupestre; 2=cerrado sensu strictopH=potencial hidrogeniônico do soloP=teor de fósforo do soloK=teor de potássio do soloCa=teor de cálcio do soloMg=teor de magnésio do soloAl=teor de alumínio do soloH+Al=acidez potencialSB=soma de bases trocáveisT=capacidade de troca catiônica (a pH 7,0)V=índice de saturação de basesm=índice de saturação de alumínioMO=matéria orgânicaP-rem=fósforo remanescenteAreia=percentual de areia Silte=percentual de silteArgila=percentual de argila
DOI: 10.17632/sb4xnz5ncv
title: Sediment Dynamics Measurements at Wax Lake Delta, Louisiana, USA, 2014

description: This datasets contains time series measurements of water depth, significant wave height, current velocity, shear velocity, turbidity, and suspended sediment concentration collected at the Wax Lake delta, Louisiana, USA, during Feb-Aug 2014. There are three files: (1) a data legend describing the data ('wax_lake_sediment_dynamics_data_legend.xlsx'); (2) a comma-delimited file of water depth, significant wave height, current velocity and shear velocity data ('water_level_wave_velocity_ustar.csv'); and (3) a comma-delimited file of turbidity and suspended sediment concentration data ('turbidity_ssc.csv').
DOI: 10.6084/m9.figshare.13664795.v1
title: Raw data FigShare.xls

description: Most of the research report on the toxicity of glyphosate using the formulation instead of the pure or technical grade glyphosate. However, the low solubility and strong soil sorption capacity of the surfactants means that the highly soluble glyphosate would be the major component of soil runoffs from agricultural areas and impacting aquatic organisms especially to fish. In this study, crossbred red tilapia were exposed to different concentrations of technical grade glyphosate herbicide (25 to 150 mg/L) over a period of 49 days under laboratory condition. Changes in growth performance were evaluated through morphometric measurements. The changes in somatic indices of the fish were determined using the hepato-somatic index (HSI) and gonado-somatic index (GSI) of the fish. The results indicate that of the body mass indices, length and weight, the latter is a more sensitive parameter whilst condition factor is not a sensitive parameter. Other parameters tested such as food conversion ratio, specific growth rate, HIS and GSI are sensitive parameters but bodyweight index is the most sensitive toxicity parameter where a reduction in body weight was significantly found at 25 mg/L of glyphosate. In summary, the outcomes of the present work indicated that red tilapia is an excellent species for the ecotoxicological study of technical grade glyphosate herbicide.
DOI: 10.6084/m9.figshare.23586048.v1
title: Supplementary Material for: Real world outcomes of FLOT vs CROSS regimens for patients with oesophagogastric cancers

description: Introduction: Treatment of oesophageal (OC), gastro-oesophageal junction (GOJ) and gastric cancer (GC) includes either neoadjuvant CROSS for OC or GOJ or perioperative FLOT for OC, GOJ and GC adenocarcinoma. This study aims to describe the real-world outcomes of patients with GC, GOJ and OC treated with FLOT or CROSS and identify variables associated with efficacy through exploratory analysis. We also aimed to evaluate the comparison of FLOT and CROSS for the treatment of OC and GOJ adenocarcinomas. Methods: This is a retrospective observational study of patients with locally advanced OC, GOJ or GC treated with FLOT or CROSS between January 2015 to June 2021 in 5 cancer centers across Sydney, Australia. Long-rank test was used to compare survival estimated between subgroups. Hazard ratios for univariate and multivariate analysis were estimated with cox-proportional regression. Results: The study included 168 patients. The 24 month relapse free survival (RFS) and overall survival (OS) for FLOT was 59% and 69% respectively. The median RFS was 29.6 months and median OS was not reached. For CROSS, The 24 month RFS and OS was 55% and 63% with a median RFS and OS of 28.5 and 40.2 months, respectively. There was no difference in OS and RFS between the treatments. FLOT was less tolerable than CROSS with more dose reductions, treatment discontinuation and clinically relevant grade 3 and 4 toxicity. Neutrophil lymphocyte ratio (NLR)) was associated with survival for both treatments. Conclusion: Similar efficacy outcomes were seen in this real world population compared to the clinical trials for FLOT and CROSS.