cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24777096.v1
title: Figures and data for paper titled "The periodic axon membrane skeleton leads to Na nanodomains but does not impact action potentials" 10.1016/j.bpj.2022.08.027

description: Data for the paper titled "The periodic axon membrane skeleton leads to Na nanodomains but does not impact action potentials" 10.1016/j.bpj.2022.08.027
DOI: 10.6073/pasta/e2af5f5a31f26d4989b2ab86228ae78e
title: Stoichiometry of Bogs and Bog Plants in Massachusetts and Vermont 2002

description: Geographic trends in surface water chemistry and leaf tissue nutrients may reflect gradients of nutrient limitation and broad-scale anthropogenic inputs. In 24 bogs and poor fens in Massachusetts and Vermont, we measured nutrient and metal concentrations in pore-water and in leaf tissues of three common bog plants – leather leaf (Chamaedaphne calyculata), northern pitcher plant (Sarracenia purpurea), and peat moss (Sphagnum spp.). The concentrations of N, P, and K were low in leaf tissues of all three plant genera, as were the concentrations of many trace heavy metals, including Cr, Cu, Co, Cd, Mo, and Pb. Stoichiometric ratios of macronutrients (N:P, P:K, and N:K) in plant leaves suggested that plant growth in the sampled bogs was limited by P, or was co-limited by all three macronutrients. N:P and N:K nutrient ratios of Sarracenia purpurea and Sphagnum spp. increased toward the northwest and with elevation, but stoichiometric ratios of Chamaedaphne calyculata did not show any clear geographic trends. A principal components analysis revealed additional distinct differences among the three plant genera in their nutrient and metal concentrations. Furthermore, dissolved organic carbon (DOC), dissolved organic nitrogen (DON), Cu, Mg, NO3, Al, and K in porewater increased from the northwest (northwestern Vermont) to the southeast (Cape Cod and eastern Massachusetts near Boston), a gradient of increasing human population density and urbanization. In contrast, pore-water concentrations of SO4 and Al were highest in the western sites, and SO4 concentrations increased with elevations. These patterns may reflect atmospheric inputs from the Ohio River Valley leading to increased acidic deposition, causing Al to be leached from soils. Because bogs are naturally low in nutrients and do not receive substantial inputs from surrounding groundwater, the chemical signatures and nutrient stoichiometry of specific bog plant species or genera may provide useful indicators for assessing spatiotemporal changes in atmospheric deposition.
DOI: 10.5281/zenodo.10295081
title: GItome: a curated dataset for README summarization

description: About 
This repository contains the source code implementation used to replicate the experimental results obtained in the submitted to the 21st International Conference on Mining Software Repositories (MSR204).
"GItome: a curated dataset for README summarization"
authored by:
Juri Di Rocco, Davide Di Ruscio, Claudio Di Sipio, Phuong Than Nguyen and Riccardo Rubei
(1) Università degli Studi dell'Aquila, Italy
Data description 
The dataset is structured as follows: 

output_dataset.zip: It contains the benchmarking dataset obtained by parsing the README files
gitome_repo.txt: It contains the list of the URLs of the considered GitHub repositories
existing_dumps.zip: It contains the existing datasets used to build Gitome
repository_lists.txt: It contains the list of repositories for each considered datasets (with possible duplicates)
DOI: 10.5519/qd.my4e5d05
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (2177 records)
DOI: 10.6073/pasta/cb75dacd8dfbde1ae75ebb690cb42899
title: Nitrogen Deposition and Pitcher Plant Morphology in Massachusetts and Vermont 1998-1999

description: Atmospheric transport and deposition of nutrients, especially nitrogen, is a global environmental problem with well-documented consequences for ecosystem dynamics. However, monitoring nitrogen deposition is relatively expensive, monitoring stations are widely spaced, and estimates and predicted impacts of nitrogen deposition are currently derived from spatial modeling and interpolation of limited data. Bogs are nutrient-poor ecosystems that are especially sensitive to increasing nutrient input, and carnivorous plants, which are characteristic of these widespread ecosystem types, may be especially sensitive indicators of N deposition. Botanical carnivory is thought to have evolved in nutrient-poor and well-lit habitats such as bogs because the marginal benefits accruing from carnivory exceed the marginal photosynthetic costs associated with the maintenance of carnivorous organs. However, the production of carnivorous organs can be a phenotypically plastic trait. The northern pitcher plant, Sarracenia purpurea, produces leaves specialized for prey capture and nutrient uptake (pitchers) and leaves that are more efficient at photosynthesis (phyllodia). We hypothesized that relative allocation to these two types of leaves reflects ambient nitrogen availability. We manipulated nutrient availability to plants with leaf enrichment and whole-plot fertilization experiments. Increased nitrogen, but not phosphorus, reduced production of pitchers relative to phyllodia; this result provided empirical support for the cost–benefit model of the evolution of botanical carnivory. Because this phenotypic shift in leaf production occurs in ecological time, our results suggest that S. purpurea could be a reliable and inexpensive biological indicator of nitrogen deposition rates. This suggestion is supported by field observations across a geographic gradient of nitrogen deposition.
DOI: 10.21223/d9aoaz/ttbdce
title: 01_Data_LateBlightSeverity_Comas.tab

description: :unav
DOI: 10.21223/d9aoaz/xtopvv
title: 03-DailyWeather-Data-Comas.tab

description: :unav
DOI: 10.21223/d9aoaz/j1rolz
title: 02_LateBlight_Evaluation_date-Comas.xls

description: :unav
DOI: 10.21223/d9aoaz/dlttky
title: 04_TotalYield_Comas.xls

description: :unav
DOI: 10.21223/d9aoaz/eyfhsp
title: 05_Evaluation_date_Total biomass dry matter content_Comas.xls

description: :unav
DOI: 10.21223/d9aoaz/zlhfud
title: 06_Data_Canopy_cover_Comas.xls

description: :unav
DOI: 10.21223/d9aoaz/gez1g0
title: 07_canopy_evaluation_days_Comas-1.xls

description: :unav
DOI: 10.21223/gkz7eh/4potim
title: 02_LateBlight_Evaluation_date-Oxapampa.xls

description: :unav
DOI: 10.21223/gkz7eh/4bol0d
title: 01_Data_LateBlightSeverity_Oxapampa1.tab

description: :unav
DOI: 10.21223/gkz7eh/1awfzn
title: 03-DailyWeather-Data-Oxapampa.tab

description: :unav
DOI: 10.21223/gkz7eh/34fvf5
title: 04_Total_yield_Oxapampa.xls

description: :unav
DOI: 10.21223/gkz7eh/p3nwqn
title: 05_Evaluation_date_Total biomass dry matter content.xls

description: :unav
DOI: 10.21223/gkz7eh/wgmf5l
title: 06_Data_Canopy_cover_Oxapampa.xls

description: :unav
DOI: 10.21223/gkz7eh/gfntxq
title: 07_canopy_evaluation_days_Oxapampa.xls

description: :unav
DOI: 10.21223/gkz7eh
title: Dataset for: Effect of potato late blight in the field in Oxapampa - Pasco

description: These datasets correspond to the field experiments in Oxapampa - Pasco.
DOI: 10.6073/pasta/5df8bb971e5fcb98dcfefa16abbcf66a
title: Seed Dispersal and Seedling Establishment of Sarracenia Purpurea at Hawley Bog, MA 1998-1999

description: Plant ecologists continue to grapple with Reid’s paradox, the observation that dispersal distances of most herbs and trees are too limited to account for their recolonization of northern latitudes following glacial recession. As global climate changes and natural habitats become increasingly fragmented, understanding patterns of seed dispersal and the potential for long-distance colonization takes on new importance. We studied the dispersal and establishment of the northern pitcher plant Sarracenia purpurea, which grows commonly in isolated bogs throughout Canada and eastern North America. Median dispersal distance of S. purpurea is only 5 cm, which is insufficient to explain its occurrence throughout formerly glaciated regions of North America. Establishment probability of seeds in the field is approximately 5%, and juveniles are normally found clustered around adult plants. The large-scale population genetic structure of this species can be accounted for by rare long-distance dispersal events, but its predictable occurrence in isolated habitats requires additional explanation. Reid’s paradox remains an open question, and predicting long-range colonization into fragmented habitats by species with limited dispersal ability is a novel challenge.
DOI: 10.21223/d9aoaz
title: Dataset for: Effect of potato late blight in the field in Comas - Junin

description: These datasets correspond to the field experiments in Comas.
DOI: 10.25318/1310087301-eng
title: Diabetes prevalence, awareness, treatment and control, combined cycles, by age group and sex, Canada (excluding territories)

description: Number and percentage of Canadians aged 20 to 79 with diabetes, prediabetes, as well as diabetes awareness, pharmaceutical treatment and glycemic control among those with diabetes by age group and sex.
DOI: 10.6073/pasta/bb0f494941a34e0726af21955f080cef
title: Soil Microbial Community Effects on Quercus Rubra Seedling Survival at Harvard Forest 2016-2017

description: Feedbacks between plants and their soil microbial communities often drive negative density dependence in tropical forests, but their importance for tree demographics in temperate forests remains unclear. Additionally, the relative contribution of intraspecific seedling competition and soil pathogens to density-dependent patterns has rarely been assessed. We assessed how the soil microbial community influenced Quercus rubra seedling survival by growing seedlings in a greenhouse inoculated with soil collected from beneath conspecific and heterospecific mature trees. We found that seedlings grown with soil from beneath conspecific adults had a higher mortality rate than seedlings grown with soil from beneath heterospecific adults; therefore adult plant-soil feedbacks decrease seedling survival in Q. rubra.
DOI: 10.6073/pasta/c02c819fef46cfeadc245c33356d6b4e
title: Hysteresis of the Sarracenia Purpurea Microecosystem in Northern Vermont 2015-2016

description: The restoration of plant and animal communities damaged by chronic detrital or nutrient enrichment is a long-standing environmental problem. In a replicated greenhouse experiment with the aquatic microbial community that inhabits the cup-shaped leaves of the carnivorous pitcher plant Sarracenia purpurea, we monitored O2 levels and the concentration of bovine serum album (BSA), an effective molecular substitute for detritus. Low BSA enrichment rates triggered a classic hysteresis response, a substantial lag in the return of O2 levels. At intermediate BSA enrichment rates, O2 levels closely tracked BSA concentrations during both the enrichment and recovery phases. High BSA enrichment rates induced an unusual "anti-clockwise" hysteresis in which O2 levels were higher during the recovery phase than during the enrichment phase. These experiments revealed complex dynamic behavior in response to enrichment rates of a single environmental driver. Our results suggest that the past trajectory of enrichment is critical for understanding how systems will respond to restoration initiatives. Specifically, systems that have been exposed to chronic low levels of enrichment may be the ones that are most resistant to restoration efforts that reduce nutrient or detrital inputs.
DOI: 10.25318/1310087301-fra
title: Prévalence, conscience, traitement et contrôle du diabète, cycles combinés, par groupe d'âge et sexe, Canada (sauf les territoires)

description: Nombre et pourcentage de Canadiens de 20 à 79 ans ayant le diabète, le prédiabète, ainsi que la conscience de son statut de diabète, le traitement médicamenteux et le contrôle de la glycémie chez les adultes ayant le diabète par groupe d'âge et par sexe.
DOI: 10.21430/m3guzcjm05
title: Maternal immune response and placental antibody transfer by trimester of COVID-19 vaccination

description: The study characterizes the immune response induced by the three COVID1-9 vaccines, Ad26.COV2.S, mRNA-1273 or BNT162b2 vaccination in pregnant individuals. To further understand the protective effect on the baby, we also evaluated transplacental antibody transfer by profiling maternal and umbilical cord blood in 175 maternal-neonatal dyads. These analyses reveal vaccine-dependent and trimester-dependent antibody response in the mother and fetus, with higher titers and functions by mRNA vaccines, and an increased maternal immune response from the first and third trimester of vaccination. These results provide novel insight into the impact of platform and trimester of vaccination on maternal humoral immune response and transplacental antibody transfer.
DOI: 10.6073/pasta/20aab8470119b0d71bc867209ab2c056
title: Assessing Plant Phenological Character Displacement Across the Eastern United States Since 1895

description: Reproductive character displacement has long been hypothesized to be a key determinant of speciation and co-existence in flowering plants. A central tenet of this hypothesis is that reproductive traits of close relatives growing in sympatry diverge more than they do where close relatives do not grow together. However, this idea remains untested across taxa and at large spatial scales. Here, we use data collected from tens of thousands of herbarium specimens to examine evidence for character displacement in flowering time for 91 closely-related pairs of animal-pollinated angiosperm species in the eastern USA. We see no evidence for overall phenological divergence in sympatry across regions, clades, or life histories. Rather our results indicate widespread convergence of flowering times in sympatry for species pairs that generally tend to flower close in time. We also find that climate change could alter the nature of these convergent flowering events by shifting them further apart in a majority species pair comparisons. Specifically, congeneric species in New England and the Atlantic Coastal Plain are projected to flower 2–4 days further apart, on average, by the mid-21st century as warming temperatures drive species-specific phenological shifts within genera. This may have significant consequences for species interactions and gene flow, especially if current sympatric convergence in flowering times has resulted from facilitative interactions between species.
DOI: 10.21430/m3sqxeqf5m
title: Flow cytometry data for basophil activation tests to investigate the combination of avidin and CD63 activation markers in diagnosing peanut allergy

description: The goal of this study was to investigate the combined use of CD63 and avidin activation markers for basophil activation tests (BATs) used to diagnose peanut allergy. Blood samples from subjects with a peanut allergy (PA), with a non-peanut allergy (NotPA), and with no allergy (NA) were analyzed with BATs against peanut extract. Using the percentage of activated basophils on CD63 and avidin as features in a classification model gave improved diagnostic accuracy compared to using either marker alone.
DOI: 10.21430/m3yzaeh2h6
title: The post-COVID-19 population has a high prevalence of cross-reactive antibodies to spikes from all Orthocoronavirinae genera

description: Infection with and vaccination against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) induces broadly cross-reactive binding antibodies to spikes from a wide range of coronaviruses.
DOI: 10.21430/m3od3zidcf
title: Neutralizing antibody responses elicited by SARS-CoV-2 mRNA vaccination wane over time and are boosted by breakthrough infection

description: To study if the waning efficacy of SARS-CoV-2 vaccines and emergence of variants resistant to vaccine-induced immunity affects the need for booster vaccine doses and how it might contribute to rates of breakthrough infections, especially in the context of evolving SARS-CoV-2 variants.
DOI: 10.21430/m3vlcrwj25
title: Nanoalum Formulations Containing Aluminum Hydroxide and CpG 1018TM Adjuvants: The Effect on Stability and Immunogenicity of a Recombinant SARS-CoV-2 RBD Antigen

description: To evaluate whether sonication of aluminum hydroxide to the nanometer size range (nanoAH) can further enhance immunogenicity or improve storage stability of recombinant receptor-binding domain (RBD)-based COVID-19 vaccine candidate (RBD-J; RBD-L452K-F490W) with aluminum hydroxide (Alhydrogel®; AH) and CpG 1018™ (CpG) adjuvants.
DOI: 10.21430/m3iv738s6r
title: Pandemic Experience of First Responders

description: A deeper understanding of the challenges facing first responders during the COVID-19 pandemic
DOI: 10.21430/m3l9y9xkwd
title: Determinants of Neutralizing Antibody Response After SARS CoV-2 Vaccination in Patients With Myeloma

description: To evaluate the capacity of vaccine-induced antibodies in myeloma patients to neutralize SARS CoV-2 and its variants.
DOI: 10.21430/m37i59xylx
title: A public vaccine-induced human antibody for SARS-CoV-2

description: A SARS-CoV-2 mRNA vaccine-induced B cell-derived human monoclonal antibody
DOI: 10.21430/m3lsi3zrx3
title: Relationship between Anti-Spike Antibodies and Risk of SARS-CoV-2 Infection in Infants Born to COVID-19 Vaccinated Mothers

description: To investigate the relationship between anti-SARS-CoV-2-Spike IgG titers passively transferred to the fetus from maternal vaccination during pregnancy and timing of infant SARS-CoV-2 infection.
DOI: 10.21430/m3p4ald7a6
title: Ad26 vaccine protects against SARS-CoV-2 severe clinical disease in hamsters

description: To assess the clinical and virologic characteristics of high-dose SARS-CoV-2 infection in hamsters and to evaluate the protective efficacy of an adenovirus serotype 26 (Ad26) vector-based vaccine.
DOI: 10.21430/m31jvfmed5
title: Ad26.COV2.S and SARS-CoV-2 spike protein ferritin nanoparticle vaccine protect against SARS-CoV-2 Omicron BA.5 challenge in macaques

description: To evaluate the homologous and heterologous regimens consisting of Ad26.COV2.S and SpFN vaccines against a high-dose, mismatched SARS-CoV-2 Omicron BA.5 challenge in macaques.
DOI: 10.21430/m34iwwj4hh
title: Comparative performance of between-population vaccine allocation strategies with applications for emerging pandemics

description: To examine optimal vaccine allocation decisions across population considering the impact of characteristics of the population, vaccine pathogen, and delivery.
DOI: 10.21430/m3vpz743f1
title: Impaired SARS-CoV-2 Variant Neutralization and CD8+ T-cell Responses Following 3 Doses of mRNA Vaccines in Myeloma: Correlation with Breakthrough Infections

description: To investigate immune recognition of current VOC including BA.1, BA.2, and BA.5 in patients with multiple myeloma (MM) following 2 or 3 doses of mRNA vaccines.
DOI: 10.21430/m36e5z1tnk
title: DCVC_0026

description: Two immunogens and a negative control were tested in 7 week old female mice primed on day 0, boosted on day 56, and sacrificed on day 71.
DOI: 10.21430/m349ymq9j3
title: Anamnestic humoral correlates of immunity across SARS-CoV-2 variants of concern

description: To examine anamnestic antibody responses in breakthrough cases to identify antigen targets susceptible to novel monoclonal antibody therapy or vaccination-boosting strategies.
DOI: 10.21430/m3ob1xr8hs
title: Impact of Severe Acute Respiratory Syndrome Coronavirus 2 Variants on Short- and Mid-term Cardiac Outcomes in Multisystem Inflammatory Syndrome in Children

description: To investigate acute cardiac involvement and short- and mid-term cardiac outcomes in children with multisystem inflammatory syndrome (MIS-C) that followed 3 different waves (Wuhan, Alpha, and Delta) of the SARS-CoV-2 infection.
DOI: 10.21430/m3rrw397v4
title: SARS-CoV-2 spike E484K mutation reduces antibody neutralisation

description: To evaluate the influence of a SARS-CoV-2 spike E484K mutation on the neutralizing activity of COVID-19 negative, convalescent and post vaccination sera.
DOI: 10.21430/m3xdh3ou6i
title: Systems approach to define humoral correlates of immunity to Shigella

description: To understand the humoral immunological correlates of protection against shigellosis.
DOI: 10.21430/m3eth127pn
title: The microbiota of pregnant women with SARS-CoV-2 and their infants

description: To determine whether infection by SARS-CoV-2 during pregnancy results in gut, vaginal, and oral microbiota changes that are passed onto the offspring.
DOI: 10.21430/m3i9pxid7k
title: Development of a universal pentavalent mRNA vaccine against IBVs

description: Here we focus on the development of a universal influenza B virus vaccine based on the lipid nanoparticle-encapsulated nucleoside-modified mRNA (mRNA-LNP) platform. We evaluate vaccine candidates based on different target antigens that afford protection against challenge with ancestral and recent influenza B viruses from both antigenic lineages.
DOI: 10.21430/m33hae2cn9
title: A Mouse-Adapted SARS-CoV-2 Induces Acute Lung Injury and Mortality in Standard Laboratory Mice

description: To generate and characterize a new mouse-adapted SARS-CoV-2 virus that captures multiple aspects of severe COVID-19 disease in standard laboratory mice.
DOI: 10.21430/m3edq0zaf9
title: Fc-mediated pan-sarbecovirus protection after alphavirus vector vaccination

description: To evaluate the mechanisms of FcR-mediated cross-sarbecovirus protective immunity, using a panel of alphavirus-vectored vaccines in mouse model.
DOI: 10.21430/m3m4nqo6cb
title: A homologous or variant booster vaccine after Ad26.COV2.S immunization enhances SARS-CoV-2-specific immune responses in rhesus macaques

description: To investigate if homologous or variant-specific booster immunizations may further potentiate the effectiveness of Ad26.COV2.S.
DOI: 10.21430/m3m4ua5r2w
title: Deletion of the SARS-CoV-2 Spike Cytoplasmic Tail Increases Infectivity in Pseudovirus Neutralization Assays

description: To develop a BSL2 adapted severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pseudovirus neutralization assay and assess if the SΔCT13-based pseudovirus shows enhanced infectivity in target cells.
DOI: 10.21430/m3irbdlzv1
title: The feasibility of multiple units of convalescent plasma in mechanically ventilated patients with COVID-19: A pilot study

description: To evaluate the therapeutic role of convalescent plasma in critically ill patients with COVID-19.
DOI: 10.21430/m3ihajtfxe
title: Defining the features and duration of antibody responses to SARS-CoV-2 infection associated with disease severity and outcome

description: To investigate correlations between humoral immune responses to SARS-CoV-2, including antibodies blocking binding of RBD to the human ACE2 receptor or neutralizing spike pseudovirus, and viral RNA loads in the nasopharynx and blood in different COVID-19 patient groups and individual patients.
DOI: 10.21430/m3g7jy97po
title: SARS-CoV-2 viral protein ORF3A injures renal tubules by interacting with TRIM59 to induce STAT3 activation

description: To evaluate the direct impact of the SARS-CoV-2 infection upon the renal tubular cells by STAT3 activation.
DOI: 10.21430/m3s1gadol2
title: Epidemiological and Immunological Features of Obesity and SARS-CoV-2

description: To examine the role of obesity on risk of SARS-CoV-2 infection, symptom phenotype, and immune response.
DOI: 10.21430/m3wu4t0n60
title: B cell-specific XIST complex enforces X-inactivation and restrains atypical B cells

description: To identify X-linked genes that require ongoing XIST-mediated silencing, characterize the required epigenomic mechanisms, and uncover XIST dysregulation in atypical B cells in multiple human disease states.
DOI: 10.21430/m3btfzridv
title: Cross-Neutralization of Emerging SARS-CoV-2 Variants

description: To address the specific antibody targets that were affected by recent SARS-CoV-2 variants, we generated 43 monoclonal antibodies (mAbs) from 10 convalescent donors that bound three distinct domains of the SARS-CoV-2 spike