cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/37tz3dkzkv.1
title: BCR repertoire analysis using ProtVec

description: Analyzing B-cell receptor (BCR) repertoires is immensely useful in evaluating one’s immunological status. Conventionally, repertoire analysis methods have focused on comprehensive assessment of clonal compositions, including V(D)J segment usage, nucleotide insertion/deletion, and amino acid distribution. Here, we introduce a novel computational approach that applies deep-learning based protein embedding techniques to analyze BCR repertoires. By selecting the most frequently occurring BCR sequences in a given repertoire and computing the sum of the vector representations of these sequences, we represent an entire repertoire as a 100-dimensional vector and eventually as a single data point in vector space. We demonstrate that our new approach enables us to not only accurately cluster repertoires of COVID-19 patients and healthy subjects, but also efficiently track minute changes in immunity conditions as patients undergo a course of treatment over time. Furthermore, using the distributed representations, we successfully trained an XGBoost classification model that achieved over 87% mean accuracy rate given a repertoire of CDR3 sequences. Data acquisition and Pre-processing : The raw data acquired from the Observed Antibody Space (OAS) BCR dataset included heavy and light chains as well as several different isotypes. We decided to use sequences from immunoglobulin heavy G chain (IGHG) due to its strong association with SARS-CoV-2. Additionally, the raw data did not include read counts of unique CDR3 sequences, but rather read counts of unique BCR sequences. As a result, we added a pre-processing step that counted the number of unique CDR3 sequences in a given repertoire. For the attributes used to search the OAS sequences, we set ‘Chain’ to ‘Heavy’, ‘Isotype’ to ‘IGHG’, ‘Disease’ to ‘SARS-COV-2’ or ‘None’, ‘BSource’ to ‘PBMC’, ‘Vaccine’ to ‘None’, and ‘Species’ to ‘human’. 25 studies including 3 COVID-19 studies were downloaded and used for analysis. In total, this study analyzed 106 COVID-19 patients and 349 healthy subjects (later reduced to 322 due to a lack of sufficient unique CDR3 sequences in 27 healthy subjects). This vector representation can be used to classify or visualize an individual's immune status. Data file: 428 vectors of IGHG repertoire representations : 106 Covid-19 repertoire representations, 322 Healthy repertoire representations 311 vectors of IGHA repertoire representations : 23 Covid-19 repertoire representations, 288 Healthy repertoire representations
DOI: 10.17632/dpdjfwkjzc.1
title: Supplemental Material for JAAD Research Letter: "Synergistic effect of lymphovascular invasion and nodal involvement on prognosis in Merkel cell carcinoma: a retrospective analysis in the National Cancer Database"

description: Supplemental Material for JAAD Research Letter: "Synergistic effect of lymphovascular invasion and nodal involvement on prognosis in Merkel cell carcinoma: a retrospective analysis in the National Cancer Database"
DOI: 10.17632/48ytd79w39.1
title: Khoa Cuong PO Pain and Consort Checklist

description: PostOperative Pain levels and Consort Checklist
DOI: 10.17632/vvxvdnxmdj.1
title: A code and a database for constructing the Continuous BN regression model

description: The code is used to construct a continuous BN model for assessing seismic liquefaction-induced settlement of the free-field ground, and the database comes from numerical simulation results.
DOI: 10.17632/5hh6m992dt.2
title: Replication materials for: Global ownership patterns

description: Replication materials for the paper "Global ownership patterns", Mariscal (2021), published in the Journal of Economic Dynamics and Control.
DOI: 10.17632/49g8777kmz.1
title: The oncomicropeptide APPLE promotes hematopoietic malignancy by enhancing translation initiation. Sun et al

description: Initiation is the rate-limiting step in translation, and its dysregulation is vital for carcinogenesis including hematopoietic malignancy. Thus, discovery of novel translation initiation regulators may provide promising therapeutic targets. Here, combining Ribo-seq, mass spectrometry and RNA-seq datasets, we discovered an oncomicropeptide, APPLE (a peptide located in ER), encoded by a noncoding RNA transcript in acute myeloid leukemia (AML). APPLE is overexpressed in various subtypes of AML and predicts a poor prognosis. The micropeptide is enriched in ribosomes and regulates the initiation step to enhance translation and to maintain high rates of oncoprotein synthesis. Mechanically, APPLE promotes PABPC1-eIF4G interaction, facilitates mRNA circularization and eIF4F initiation complex assembly to support a specific pro-cancer translation program. Targeting APPLE exhibited broad anti-cancer effects in vitro and in vivo. The study not only reports a previously unknown function of micropeptides, but also provides new opportunities for targeting the translation machinery in cancer cells.
DOI: 10.17632/dtj374wb2w.1
title: DATASET for vHIT-nGVS

description: Dataset of the study about vHIT and nGVS
DOI: 10.17632/4p3rb8ws9t.4
title: Reference Process for Technical Change Management

description: Based on an extensive literature review conducted on engineering and manufacturing change management processes, a reference process for technical change management is derived. The reference process is presented with the help of the Design Structure Matrix (DSM), suggested by Eppinger and Browning 2012.
DOI: 10.17632/4kwwvd9dzk.1
title: COVID-19 Stigma

description: This folder contains all literature I reviewed for the draft manuscript titled: Stigma of Female COVID-19 Survivors in Nyalenda Slums, Kisumu, Kenya: Qualitative Study
DOI: 10.17632/cmt34sbmhk.1
title: Questionnaire and Consent Form on Construction Risk Management

description: Data includes a) Questionnaire covering Knowledge , Attitude and Practices of Risk Management System in Construction Industry and b) Informed Consent form
DOI: 10.17632/f58p3wtyk5.1
title: M. Mahendran-TCE-Computational-Materials-Science-2021

description: This explains first-principles study of structural and mechanical stability, electronic structure, and magnetic properties of new Equiatomic quaternary Heusler alloy LaCoTiIn
DOI: 10.17632/kykbz4fypm.1
title: Croups of cemeteries in Gdansk, Krakow, Lublin, Warsaw and Wroclaw

description: Table listing groups of cemeteries in major Polish cities: Gdansk, Krakow, Lublin, Warsaw and Wroclaw with information on: the name of the cemetery, date of its establishment, date of its decommission, city of its location, group to which it belongs and additional information about its history.
DOI: 10.17632/f88w6mv55r.1
title: Long-term impact of domestic ungulates versus the local controls of the litter decomposition process in arid steppes

description: Abstract Aims Soil processes in arid ecosystems are strongly controlled by resource scarcity. Grazing intensification can induce changes in ecosystem processes through multiple pathways, adding new constraints to those of local conditions. We focus on grazing-induced changes in litter traits and soil environment that may affect litter decomposition and N dynamics in temperate grass-shrub steppes. Methods We performed three litterbag decomposition experiments to evaluate: i) the effect of litter traits in a common garden (ex situ), ii) the effect of soil environment using a foreign common litter substrate (in situ), and iii) the interactive effects of litter traits and soil environment (grazed vs.vs. exclosure communities, reciprocal transplants in situ). Field experiments were replicated in three blocks with paired plots under a long-term exclosure (&gt; 25 years) and under year-round sheep grazing. Local litter included mixtures of species of grasses and shrubs, separately. Results Grazing exclusion did not alter litter decomposition rates, either through changes in litter traits or in soil environment. Nevertheless, N released during grass litter decomposition was 286% higher in exclosures than in grazing communities. The difference was associated to changes in litter C:N ratio. The effects were maintained when results were integrated to the entire litter community. Conclusion Our study suggests that litter decomposition rates in arid steppes are strongly controlled by local drivers. Ungulate grazing does not have an important influence on litter mass loss, but it can exert a strong control on N flux during decomposition, by changing grass litter traits. Published in: Piazza, MV., Oñatibia, G.R., Aguiar, M.R., Chaneton E.J. Long-term impact of domestic ungulates versus the local controls of the litter decomposition process in arid steppes. Plant Soil (2021). https://doi.org/10.1007/s11104-021-05088-4
DOI: 10.17632/tsh4m79b4h.3
title: bacterial filters on the incidence of VAP

description: the purpose of the data was to explore the performance of the bacterial filters (BF) on the incidence of ventilator-associated pneumonia.totally, 240 patients considered to require MV for more than 48h on admission were enrolled. 120 were assigned to BF group, 120 were assigned to NBF group; 29 patients (16 in BF group, 13 in NBF group) were secondarily excluded for the duration of intubation was less than 48h. one patient was excluded for the lack of chest radiograph before intubation. The characteristics of the remaining patients (104in BF group and 106 in NBF group) were analyzed at last.The characteristics of the two group were shoqed in table1.Univariable logistic analysis was applied to demonstrate the factors contributing to the development of VAP. The results were showed in the Table 2.The retrospective subgroup analysis results were showed in Table 3. cox proportional hazards regression model was showed in table4. in clusion, we found that bacterial filters placed on the inspiratory limbs of breathing circuit did not reduce VAP in ICU patients ventilated for more than 48h when the gas was humidified with heated water-bath humidifiers with double heater-wire circuit. Interestingly, the filter might protect the patients from occurrence of VAP when ventilated for not long enough.
DOI: 10.17632/4vb5xnm393.2
title: Data Rault et al 2020_Joint Log Lift Task in pigs

description: Dataset of the Joint Log Lift Task carried out in 8 groups of farmed pigs (n = 92) over 9 consecutive days. Data was collected November 2019 at the University of Veterinary Medicine (Vetmeduni), Vienna, Austria. To use the data please contact Dr Jean-Loup Rault for permission. Variable description: Pen: the pen number of the group of pigs Backno: the number marked on the back of each pig for identification Eartag: the number of the ear tag of each individual Date: date of the test Attempt_alone: the frequency of each pig attempting to lift the log alone Successfull_lift: the frequency for each pig in lifting the log together with another pig Attempt_together: the frequency of each pig attempting to lift the log together with another pig, but not succeeding to hold it up. Touch: frequency of touching the log with the snout.
DOI: 10.17632/b43jrt4vcz.2
title: Raman spectroscopy data for laser reduction of graphene oxide

description: Raman spectroscopy data related to the redction of graphene oxide by laser
DOI: 10.17632/hz6pvywwmc.1
title: Impacts of facial pigmentary disorders: Novel insights explaining discordance between life quality scores and willingness to pay

description: The aim of this study was to directly compare the quality of life and willingness to pay (WTP) in patients with different facial pigmentary disorders. A single-center, cross-sectional study comprising of patients seeking treatment for facial discoloration was performed. All patients completed the dermatology life quality index (DLQI) and the short form-36 (SF-36) health survey questionnaires. Additionally, information regarding monthly income and the proportion of monthly income willing to pay for complete cure of the affected condition was obtained. 212 patients with facial discoloration were enrolled and categorized into hyperpigmentation (119), vitiligo (51), and erythema (42) groups. This study showed that compared with facial hyperpigmentation patients, vitiligo and erythema patients have significantly lower QoL. Only vitiligo patients view their condition affecting their general health as opposed to a disorder limiting to the skin. This finding provides a rationale explaining why vitiligo patients are more willing to pay a higher amount of monthly income for a complete cure.
DOI: 10.17632/yy46fs66fp.1
title: Impact of CLAD (Collaborative Learning Assessment through Dialogue) and Cooperative Discussion Group (CDG) on Students’ Academic Achievements using Quasi-Experimental Control Group and Time-Series Design

description: Education plays pivotal role in maximizing individual’s potentials; prerequisite for meaningful and sustained national economy. Educationists employed painstaking eﬀorts in improving teaching-learning processes; instructional designers are still searching and experimenting to get best methods for optimal academic performance of students. This is owing to traditional approach of teaching, where teachers spend most of their class hours in talking, watching and listening; thus cooperative learning appears to be discouraged. Previous studies showed that very few teachers, who implemented cooperative learning methods could not even consider aspects of learners in academic achievements, interests, and genders. These may in turn worsen students’ perceptions towards cooperative learning activities. Aim of this study was to assess variation and evaluation of impacts in students’ academic achievements treated by individual learning, heterogeneous and homogeneous cooperative learning approaches in grade nine students (n=50) in three schools of Bhopal City (Madhya Pradesh, India) using quasi-experimental control group and time-series design. A series of tests and semi-structured questionnaires were framed to collect desirable data. Multivariate analysis (two-way ANOVA) was used to analyze test scores exposed by teaching methods, and semi-structured questionnaires were administered to comprehend viable outputs of study. Hence, multivariate analysis revealed that there was no signiﬁcant diﬀerence (P&gt;0.05) in pre-test score of learner’s academic performance. However, there were signiﬁcant diﬀerences (P&lt;0.01) in post-test results by teaching methods, but not by schools. The results exemplify that there was signiﬁcant learning gain obtained via CLAD (Collaborative Learning Assessment through Dialogue) followed by Cooperative Discussion Group (CDG). Students’ pre-test results revealed that students’ results was below Average National Grade Point; reasonably a bit higher test score in students of learner group, significantly comparable before exposing them to diﬀerent teaching methods. This could be due to the teachers’ ability to decide quality of study materials to conduct lessons, academic and social-skill objectives, and methods of assigning students to groups. Based on output of study, schools should be encouraged to adopt pedagogical practices that promote active involvement of students’ learning processes. This type of pedagogical practice helps students to gain and create both academic and social relationships as well as accomplishment of shared goals. Through such kind of interactions, students learn to cross-examine academic issues, share innovative ideas, elucidate and construct inventive understanding about teaching learning methods with compatible interests and companionable welfare of human society.
DOI: 10.17632/8h9295v4t3.1
title: Historical dataset of mills for Galicia in the Austro-Hungarian Empire/southern Poland from 1880 to the 1930s.

description: We present the dataset of mills from 1880 and 1920s-1930s in the area of the former Galicia (78,500 km2), now in Ukraine and Poland. We found 4,022 mill locations for 1880 and 3,588 for the 1920s-1930s. We present them as vector points in shapefile format with attributes for seven types of mills for 1880 and ten types of mills for 1920s-1930s, and mills counted in a 10 km grid. Our data contains two point layers and six grid layers (10 km side squares). All data is available in an open shapefile format, commonly used in Geographic Information Systems. Point layers contain the following attributes for each of the mills: auto-numbered numeric identifier (ID), type (Type), map sheet date (Map_year), longitude (Long), and latitude (Lat). According to the legend of these maps and explanations, the following types of mills can be distinguished for 1880: 1 – Gristmill (ger. Fruchtmühle), 2 – Sawmill (ger. Sägemühle), 3 – Paper mill (ger. Papiermühle), 4 – Powder mill (ger. Pulvermühle), 5 – Fulling mill (ger. Walkmühle), 6 – Windmill (ger. Windmühle), 7 – Ship mill, (ger. Schiffmühle). For the 1920s-1930s, the following types of mills were distinguished according to the legend of these maps and explanations. 1 – Watermill 2 – Steam mill 3 – Sawmill 4 – Sawmill with water wheel 5 – Motor sawmill 6 – Steam sawmill 7 – Steam mill 8 – Windmill 9 – Wind turbine 10 – Ship mill A reference grid designed by the European Environment Agency (EEA) in the ETRS 1989 LAEA projection (EPSG 9820) was used to create the grid layers, consisting of cells with sides of 10 km. In the set we provide, it contains the following attributes: auto-numbered numeric identifier of the cell (FID), cell code (CellCode), cell start coordinates (EofOrigin), (NofOrigin), and an attribute (Count) in which aggregated mill types are counted for each cell: gristmills, sawmills, windmills The data can be used in economic, demographic and environmental reconstructions, e.g. to estimate historical anthropopressure related to settlement, agriculture and forestry. Mills are often associated with river structures such as floodgates, dams, and millraces and therefore they are a good example of human interference in river ecosystems. They can also be one criteria for identifying areas where the local population used traditional environmental knowledge. It can be useful for a contemporary assessment of the environment’s suitability for devices using renewable energy sources. Finally, the data on the remains of former mills is suitable for the protection of cultural heritage sites that are technical monuments related to traditional food processing and industry. This research was funded by the Ministry of Science and Higher Education, Republic of Poland under the frame of “National Programme for the Development of Humanities” 2015–2021, as a part of the GASID project (Galicia and Austrian Silesia Interactive Database 1857–1910, 1aH 15 0324 83)
DOI: 10.17632/btb5ffk247.1
title: SARS-CoV-2 Surface glycoproteins Alignment Data

description: 1. SARS-CoV-2SpikeProteinMutations.docx contains data on mutations found in aligned SARS-CoV-2 surface glycoproteins. 2. SARS-CoV-2SpikeProteinVariants.docx contains data on computed SARS-CoV-2 surface glycoprotein variants in Europe.
DOI: 10.25625/3ce86o/nei1bi
title: suppl data females males.tab

description: :unav
DOI: 10.25625/3ce86o
title: Growth trajectories of wild Assamese macaques (Macaca assamensis) determined from parallel laser photogrammetry

description: Data set used in the investigation on growth trajectories in wild Assamese macaques. The file contains information on monkeys ID, birthdate, sex, group, forearm length measured with parallel laser, and age in days and years.
DOI: 10.5281/zenodo.5227396
title: Poicephalus meyeri SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5227395
title: Poicephalus meyeri SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5227411
title: BD Smart adolescent

description: BD ADOLESCENT
DOI: 10.5281/zenodo.5227410
title: BD Smart adolescent

description: BD ADOLESCENT
DOI: 10.6084/m9.figshare.15831834
title: Cichlid_genotypes_relaxed-All_LG.vcf

description: Restriction site-associated DNA sequencing (RADseq) of hybrid cichlids, <i>Labeotropheus fuelleborni</i> x <i>Tropheops sp.</i> "red cheek."Data from Conith, A. J. & Albertson, R. C. The cichlid oral and pharyngeal jaws are evolutionarily and genetically coupled. Nature Communications. (2021)
DOI: 10.5281/zenodo.5227415
title: Supplementary Material for Ph.D. thesis: "Development of a data-intensive centralized system for surveillance and outbreak investigation of bacterial pathogens using whole-genome sequencing""

description: Supplementary material for Ph.D. thesis.
DOI: 10.5517/ccdc.csd.cc227cc2
title: CCDC 1913703: Experimental Crystal Structure Determination

description: Related Article: Samuel G. Dunning, Joseph E. Reynolds, III, Kelly M. Walsh, David J. Kristek, Vincent M. Lynch, Pranaw Kunal, Simon M. Humphrey|2019|Organometallics|38|3406|doi:10.1021/acs.organomet.9b00319
DOI: 10.5517/ccdc.csd.cc280bk6
title: CCDC 2085697: Experimental Crystal Structure Determination

description: Related Article: Tomislav Krolo, Aditya Bhattacharyya, Oliver Reiser|2021|Org.Lett.|23|6283|doi:10.1021/acs.orglett.1c01964
DOI: 10.25405/data.ncl.13373300
title: wow_stations_summary.csv

description: A summary of the weather observations available via the Met Office WOW platform. See WOW to get the observation data (www.wow.metoffice.gov.uk) - this is a roundup of what is available from citizen scientists reporting to WOW.<br>An explanation of how this dataset was created, and an example of it in use is available at; https://arcg.is/1zmui5
DOI: 10.25405/data.ncl.13373300.v2
title: wow_stations_summary.csv

description: A summary of the weather observations available via the Met Office WOW platform. See WOW to get the observation data (www.wow.metoffice.gov.uk) - this is a roundup of what is available from citizen scientists reporting to WOW.<br>An explanation of how this dataset was created, and an example of it in use is available at; https://arcg.is/1zmui5
DOI: 10.25405/data.ncl.13373300.v1
title: wow_stations_summary.csv

description: A summary of the weather observations available via the Met Office WOW platform. See WOW to get the observation data (www.wow.metoffice.gov.uk) - this is a roundup of what is available from citizen scientists reporting to WOW.<br>An explanation of how this dataset was created, and an example of it in use is available at; https://arcg.is/1zmui5
DOI: 10.25405/data.ncl.15214164
title: wowgb_stations_summary_11_20.csv

description: A station by station summary of observations from citizen science weather stations in Britain reporting to the Met Office Weather Observations Website (WOW) from January 2011 to December 2020.
DOI: 10.25405/data.ncl.15214164.v1
title: wowgb_stations_summary_11_20.csv

description: A station by station summary of observations from citizen science weather stations in Britain reporting to the Met Office Weather Observations Website (WOW) from January 2011 to December 2020.
DOI: 10.5281/zenodo.5227422
title: Percopsis omiscomaycus 77_2 SPAdes preassembly

description: .
DOI: 10.5281/zenodo.5227421
title: Percopsis omiscomaycus 77_2 SPAdes preassembly

description: .
DOI: 10.15468/xgu8cw
title: Simulium (Hearlea) Vargas, Martínez Palacios, & Díaz Nájera (Diptera: Simuliidae): Taxonomic revision and cladistic analysis

description: This dataset contains the digitized treatments in Plazi based on the original journal article Coscarón, S., Esquivel, D. R. Miranda, Moulton, J. K., Arias, C. L. Coscarón-, Bernal, S. Ibañez (2004): Simulium (Hearlea) Vargas, Martínez Palacios, & Díaz Nájera (Diptera: Simuliidae): Taxonomic revision and cladistic analysis. Zootaxa 396: 1-52, DOI: 10.11646/zootaxa.396.1.1
DOI: 10.5281/zenodo.5227519
title: Low coverage Cnidaria sequencing GENEWIZ_2021_08_20

description: These samples were submitted for sequencing but there wasn't adequate DNA available for full coverage: Samples are named by taxid as follows: (two files each, forward and reverse). 168719 - Carybdea xaymacana 2835545 - Manania auricula 645345 - Atolla wyvillei 880221 - Periphylla periphylla