cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26253413.v4
title: Integrated gene expression and alternative splicing analysis in human and mouse models of Rett Syndrome.

description: The folder "Homo_sapiens" contains 8 subfolders. Each of them is an individual input Bioproject downloaded from SRA and reanalized with the same transcriptomic pipeline in order to compute:1) Differentially Alternative spliced Genes (DAS) in .tsv format;2) Differentially expressed genes in csv format;3) Gene ontology analysis over DEGs results. When the analysis has produced statistically significant results for Gene Enrichment Ontology analysis, three .csv files have been added to each folder, one for BP=Biological Process results, one for CC=Cellular Component results and one for MF=Molecular Functions results.When a Bioprojects appears more than once, it means that DEGs have been computed over diffferent varibles (e.g. Rtt vs. wt) or treated as indipendent studies when multiple source materials are present. To distinguish the studies an "_<i>0", "_</i><i>1", "</i>_2" progressive number has been added to the folder names (e.g. in PRJNA509687_0 the samples under study were iPSC derived neural cortical neurons RTT vs. Wt while in PRJNA509687_1 the samples were derived from iPSC derived neural progenitors RTT vs. Wt). To facilitate the folder navigation, a file named "parameters" has been added to each folder.4) DESeq2 inputs divided in:gene count matrices in csv formatassociated phenodata.csvThe same logic is applied to the main folder "Mus_musculus",which contains 13 subfolders with DAS and DEG results.<br><br>
DOI: 10.15468/dl.khs45u
title: Occurrence Download

description: A dataset containing 137 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anthomyia quinquemaculata Macquart, 1839"
 ]
}

 The dataset includes 137 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0117288-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26943003.v1
title: Additional file 3 of Non-human peptides revealed in blood reflect the composition of intestinal microbiota

description: Additional file 3. Related to Figs. 1 and 2, and Table 1. Summary table of the amino acid sequences identified against the database of human and microbiota proteins HuMiProt90. Sheet 1 – microorganisms of human microbiota; annotations of genomes taken to compile the database of human and microbiota proteins HuMiProt90. Sheet 2 – list of identified sequences related to human. Sheet 3 – list of identified sequences related to the human microbiota. Sheets 4, 5, 6, 7, 8, 9, 10, and 11 – lists of organismsthat probably contain the identified sequences in their genomes. Sheets 12 and 13 – isolation body sites where the microbiota with the identified peptides is probably located, according to the NIH Human Microbiome Project.
DOI: 10.6084/m9.figshare.26946493
title: Scenario workshop transcripts

description: This research formed part of the Agrisys Tanzania project that aimed to quantify how and to what extent integrated landscape management can enhance benefits to and from agriculture. Nine participatory workshops involving 80 smallholder farmers were conducted between July and August 2022. Workshops comprised 38 women and 42 men. Workshops were differentiated by age and wellbeing. There were two workshops for youth (18-35) (n=20) and seven workshops for adults (35+) (n=60). <br>Each workshop was run for approximately six hours and consisted of two main activities. In activity 1 participants described their current farming system and then they created a scenario of their ideal farming system, looking 5-10 years into the future. Participants were free to describe as they wished, but they usually included details such as the size, configuration, and the main characteristics such as crops, trees, rivers, and wells. They also described their surrounding landscape, this was defined by the participants themselves but usually referred to the nearby surroundings of the farm. Activity 2 then explored the barriers and opportunities they face in achieving their ideal farming scenario. Workshops were of mixed gender, but groups were divided into male and female for each activity and then came together for plenaries, allowing an exchange of ideas and discussion between genders. <br>The workshops took place in Swahili and were hosted by a Tanzanian facilitator, two research assistants and two artists. The artists depicted the ideal farm for each participant so that they could visualise, explain and compare their scenario with the broader group. Each workshop was audio recorded and then transcribed into English for analysis - published here.<br>Workshop numberAgeWellbeing1YouthMixed2YouthMixed3AdultHigh4AdultLow5AdultHigh6AdultLow7AdultHigh8AdultLow9AdultMixed
DOI: 10.6084/m9.figshare.26946493.v1
title: Scenario workshop transcripts

description: This research formed part of the Agrisys Tanzania project that aimed to quantify how and to what extent integrated landscape management can enhance benefits to and from agriculture. Nine participatory workshops involving 80 smallholder farmers were conducted between July and August 2022. Workshops comprised 38 women and 42 men. Workshops were differentiated by age and wellbeing. There were two workshops for youth (18-35) (n=20) and seven workshops for adults (35+) (n=60). <br>Each workshop was run for approximately six hours and consisted of two main activities. In activity 1 participants described their current farming system and then they created a scenario of their ideal farming system, looking 5-10 years into the future. Participants were free to describe as they wished, but they usually included details such as the size, configuration, and the main characteristics such as crops, trees, rivers, and wells. They also described their surrounding landscape, this was defined by the participants themselves but usually referred to the nearby surroundings of the farm. Activity 2 then explored the barriers and opportunities they face in achieving their ideal farming scenario. Workshops were of mixed gender, but groups were divided into male and female for each activity and then came together for plenaries, allowing an exchange of ideas and discussion between genders. <br>The workshops took place in Swahili and were hosted by a Tanzanian facilitator, two research assistants and two artists. The artists depicted the ideal farm for each participant so that they could visualise, explain and compare their scenario with the broader group. Each workshop was audio recorded and then transcribed into English for analysis - published here.<br>Workshop numberAgeWellbeing1YouthMixed2YouthMixed3AdultHigh4AdultLow5AdultHigh6AdultLow7AdultHigh8AdultLow9AdultMixed
DOI: 10.15468/dl.8ey9m5
title: Occurrence Download

description: A dataset containing 24 records in GBIF matching the query:
 SELECT "year", GBIF_EEARGCode( 1000, decimalLatitude, decimalLongitude, COALESCE(coordinateUncertaintyInMeters, 1000) ) AS eeaCellCode, speciesKey, species, COUNT(*) AS occurrences, MIN(COALESCE(coordinateUncertaintyInMeters, 1000)) AS minCoordinateUncertaintyInMeters, MIN(GBIF_TemporalUncertainty(eventDate)) AS minTemporalUncertainty FROM occurrence WHERE occurrenceStatus = 'PRESENT' AND "year" = 2024 AND genusKey = 5219857 AND datasetKey = '9a0b66df-7535-4f28-9f4e-5bc11b8b096c' AND hasCoordinate = TRUE AND (coordinateUncertaintyInMeters &lt;= 1000 OR coordinateUncertaintyInMeters IS NULL) AND speciesKey IS NOT NULL AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE') AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE') AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID') AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH') AND LOWER(identificationVerificationStatus) NOT IN ( 'unverified', 'unvalidated', 'not validated', 'under validation', 'not able to validate', 'control could not be conclusive due to insufficient knowledge', 'uncertain', 'unconfirmed', 'unconfirmed - not reviewed', 'validation requested' ) GROUP BY "year", eeaCellCode, speciesKey, species ORDER BY "year" DESC, eeaCellCode ASC, speciesKey ASC; 

 The dataset's 24 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0117280-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26946505
title: Scenario workshop artwork

description: This research formed part of the Agrisys Tanzania project that aimed to quantify how and to what extent integrated landscape management can enhance benefits to and from agriculture. Nine participatory workshops involving 80 smallholder farmers were conducted between July and August 2022. Workshops comprised 38 women and 42 men. Workshops were differentiated by age and wellbeing. There were two workshops for youth (18-35) (n=20) and seven workshops for adults (35+) (n=60).<br>Each workshop was run for approximately six hours and consisted of two main activities. In activity 1 participants described their current farming system and then they created a scenario of their ideal farming system, looking 5-10 years into the future. Participants were free to describe as they wished, but they usually included details such as the size, configuration, and the main characteristics such as crops, trees, rivers, and wells. They also described their surrounding landscape, this was defined by the participants themselves but usually referred to the nearby surroundings of the farm. Activity 2 then explored the barriers and opportunities they face in achieving their ideal farming scenario. Workshops were of mixed gender, but groups were divided into male and female for each activity and then came together for plenaries, allowing an exchange of ideas and discussion between genders.<br>The workshops took place in Swahili and were hosted by a Tanzanian facilitator, two research assistants and two artists. The artists depicted the ideal farm for each participant so that they could visualise, explain and compare their scenario with the broader group. Each workshop was audio recorded and then transcribed into English for analysis - published here.<br>Workshop numberAgeWellbeing1YouthMixed2YouthMixed3AdultHigh4AdultLow5AdultHigh6AdultLow7AdultHigh8AdultLow9AdultMixed
DOI: 10.15468/dl.j5yy27
title: Occurrence Download

description: A dataset containing 31552 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Material sample, Specimen, Occurrence evidence)",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Convolvulus ammannii Desr., Chondrus crispus Stackhouse)",
 "Year 1950-2024"
 ]
}

 The dataset includes 31552 records from 244 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0117289-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18742/24996410
title: Case Study 1: Comparing COVID-19 Testing Schemes (Model output data)

description: This dataset supports the thesis titled: Domain-Specific Modelling Languages for Participatory Agent-Based Modelling in HealthcareThis is a dataset showing the core data output collected from executing our first case study ABM.
DOI: 10.18742/24996410.v1
title: Case Study 1: Comparing COVID-19 Testing Schemes (Model output data)

description: This dataset supports the thesis titled: Domain-Specific Modelling Languages for Participatory Agent-Based Modelling in HealthcareThis is a dataset showing the core data output collected from executing our first case study ABM.
DOI: 10.15468/dl.3qh4w2
title: Occurrence Download

description: A dataset containing 18646 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Specimen, Material sample, Occurrence evidence)",
 "TaxonKey is Hirundo rustica Linnaeus, 1758",
 "Year 1984-2024"
 ]
}

 The dataset includes 18646 records from 202 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0117290-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18742/25041515
title: Case Study 2: Flu and COVID-19 Dual-Cassette LFT (Model validation data)

description: This dataset supports the thesis titled: Domain-Specific Modelling Languages for Participatory Agent-Based Modelling in Healthcare
This is a dataset showing the LIAT usage numbers for St. Thomas Hospital between two week-long periods.
This data was used to validate the predicted LIAT usage rates produced from our case study 2 model.
All data shown was received and is presented as fully anonymised.
DOI: 10.18742/25041515.v1
title: Case Study 2: Flu and COVID-19 Dual-Cassette LFT (Model validation data)

description: This dataset supports the thesis titled: Domain-Specific Modelling Languages for Participatory Agent-Based Modelling in Healthcare
This is a dataset showing the LIAT usage numbers for St. Thomas Hospital between two week-long periods.
This data was used to validate the predicted LIAT usage rates produced from our case study 2 model.
All data shown was received and is presented as fully anonymised.
DOI: 10.15468/dl.n65h44
title: Occurrence Download

description: A dataset containing 1121303 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Benin",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 1121303 records from 537 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0117285-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18742/24996479
title: Case Study 2: Flu and COVID-19 Dual-Cassette LFT (Model output data)

description: This dataset supports the thesis titled: Domain-Specific Modelling Languages for Participatory Agent-Based Modelling in Healthcare
This is a dataset showing the core data outputs collected from executing our second case study ABM.
Note that the key output fields for this case study are highlighted in green.
DOI: 10.18742/24996479.v1
title: Case Study 2: Flu and COVID-19 Dual-Cassette LFT (Model output data)

description: This dataset supports the thesis titled: Domain-Specific Modelling Languages for Participatory Agent-Based Modelling in Healthcare
This is a dataset showing the core data outputs collected from executing our second case study ABM.
Note that the key output fields for this case study are highlighted in green.
DOI: 10.1285/i18285368axxxviiin106p1
title: Frontespizio e Pagine iniziali = Title page
DOI: 10.1285/i18285368axxxviiin106p5
title: Indice = Index
DOI: 10.6084/m9.figshare.26829037
title: Additional file 1 of Non-human peptides revealed in blood reflect the composition of intestinal microbiota

description: Additional file 1. Related to Table 1. Summary table of the amino acid sequences identified against the database of human proteins. Sheet 1 – description of all 72 samples, total number of identified peptides and spectra, number of precursor proteins for each analyzed sample. Sheet 2 – list of identified sequences related to human. Sheet 3 – list of protein groups of possible precursor proteins for identified sequences related to human.
DOI: 10.5281/zenodo.11504014
title: Surface Plasmon Resonance Biosensor with Anti-Crossing Modulation Readout
DOI: 10.5281/zenodo.11504015
title: Surface Plasmon Resonance Biosensor with Anti-Crossing Modulation Readout
DOI: 10.6084/m9.figshare.26945388.v1
title: Additional file 3 of Single-cell and spatial sequencing identifies senescent and germinal tumor cells in adamantinomatous craniopharyngiomas

description: Additional file 3: Table S3 a Marker genes for tumor clusters; b Numbers of cells each tumor cluster (T1–T6) in each specimen.
DOI: 10.6084/m9.figshare.26945388
title: Additional file 3 of Single-cell and spatial sequencing identifies senescent and germinal tumor cells in adamantinomatous craniopharyngiomas

description: Additional file 3: Table S3 a Marker genes for tumor clusters; b Numbers of cells each tumor cluster (T1–T6) in each specimen.
DOI: 10.6084/m9.figshare.26945385
title: Additional file 2 of Single-cell and spatial sequencing identifies senescent and germinal tumor cells in adamantinomatous craniopharyngiomas

description: Additional file 2: Table S2. Marker genes for each cell type (Fig. 1b).
DOI: 10.1285/i18285368axxxviiin106p8
title: Introduzione = Introduction
DOI: 10.6084/m9.figshare.26829076
title: Additional file 2 of Non-human peptides revealed in blood reflect the composition of intestinal microbiota

description: Additional file 2. Related to Fig. 1. Summary table of the amino acid sequences identified using the de novo approach, as well as a list of organisms that contain these sequences in their genomes. Sheet 1 – list of identified peptides. Sheets 2, 3, 4, 5, 6, 7, 8, 9, and 10 – lists of organismsthat probably contain the identified sequences in their genomes.
DOI: 10.6084/m9.figshare.26943009.v1
title: Additional file 5 of Non-human peptides revealed in blood reflect the composition of intestinal microbiota

description: Additional file 5. Related to Fig. 1. Results of the absolute quantitative MRManalysis of bacterial peptides in the blood plasma and serum. Sheet 1 – MRM transitions specific for each studied peptide. Sheet 2 – results of absolute quantitative MRM analysis. Sheet 3 – low and high amounts of human hormone concentrations in the blood of healthy people.
DOI: 10.6084/m9.figshare.26943012.v1
title: Additional file 6 of Non-human peptides revealed in blood reflect the composition of intestinal microbiota

description: Additional file 6. Related to Fig. 2. Analysis of proteolysis sites in the peptides identified in the blood serum and plasma. For 36 proteolysis patterns described in cleaver, we compared the number of peptides of bacterial and human origin with less than two hydrolysis sites within an amino acid sequence. Fisher’s exact test and the Chi-square test were used for comparison.
DOI: 10.15468/dl.tmsfkx
title: Occurrence Download

description: A dataset containing 13837 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Anacamptis laxiflora (Lam.) R.M.Bateman, Pridgeon & M.W.Chase",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 13837 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022119-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zzdoc5
title: Occurrence Download

description: A dataset containing 41 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Year 1950-2019",
 "TaxonKey is Carlhubbsia stuarti Rosen & Bailey, 1959"
 ]
}

 The dataset includes 41 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011522-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kc8tz6
title: Occurrence Download

description: A dataset containing 2720 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Year is greater than or equal to 2000",
 "Year is less than or equal to 2024",
 "Geometry POLYGON ((-130.7383528944533 -59.46314024951374, -130.7383528944533 32.71876227804215, -26.26729810228821 32.71876227804215, -26.26729810228821 -59.46314024951374, -130.7383528944533 -59.46314024951374))",
 "OccurrenceStatus is Present",
 "TaxonKey is Thamnophilus stictocephalus Pelzeln, 1868"
 ]
}

 The dataset includes 2720 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0053378-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tlhanl
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Desmana moschata (Linnaeus, 1758)"
 ]
}

 The dataset includes 79 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004258-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t3fq64
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Ligularia dux var. minima S.W.Liu"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0301441-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x8hw2u
title: Occurrence Download

description: A dataset containing 929908 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Spodoptera littoralis (Boisduval, 1833), Spodoptera eridania Stoll, Spodoptera cilium Guenée, 1852, Spodoptera dolichos Fabricius, 1794, Spodoptera litura (Fabricius, 1775), Panolis flammea (Denis & Schiffermüller), 1775, Lithophane leautieri Boisduval, 1829, Cryphia algae (Fabricius, 1775), Autographa gamma (Linnaeus, 1758), Mythimna unipuncta (Haworth, 1809), Acontia candefacta (Hübner), Chrysodeixis chalcites (Esper, 1789), Chrysodeixis acuta (Walker), Lacanobia oleracea Linnaeus, 1758, Callopistria maillardi (Guenée, 1862), Apamea crenata (Hufnagel, 1766), Apamea remissa (Hübner), Acronicta aceris (Linnaeus, 1758), Hadena compta (Denis & Schiffermüller), 1775, Trichoplusia ni (Hübner), Pericyma cruegeri (Butler, 1886), Ascalapha odorata (Linnaeus, 1758), Peridroma saucia Hübner, 1808, Adris tyrannus (Guenée, 1852), Eutelia adulatrix (Hübner, 1813), Earias insulana (Boisduval, 1833), Thaumetopoea processionea Linnaeus, 1758, Thaumetopoea pityocampa (Denis & Schiffermüller), 1776, Spatalia argentina (Denis & Schiffermüller), 1776, Hofmannophila pseudospretella Stainton, 1849, Endrosis sarcitrella Linnaeus, 1758, Esperia sulphurella (Fabricius, 1775), Plutella xylostella (Linnaeus, 1767), Plutella porrectella Linnaeus, 1758, Prays oleae Bernard, 1788, Prays citri Millière, 1873, Stenoptilia millieridactylus (Bruand d'Uzelle, 1861), Lantanophaga pusillidactylus (Walker, 1864), Emmelina monodactyla (Linnaeus, 1758))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 929908 records from 675 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0076706-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pxftux
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phyllomedusa venusta Duellman & Trueb, 1967"
 ]
}

 The dataset includes 79 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011525-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6gpo88
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aidia abeidii S.E.Dawson & Gereau"
 ]
}

 The dataset includes 17 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004258-190307172214381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.