cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh0903106.10fu
title: SH0903106.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903107.10fu
title: SH0903107.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903108.10fu
title: SH0903108.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903109.10fu
title: SH0903109.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903110.10fu
title: SH0903110.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903111.10fu
title: SH0903111.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903112.10fu
title: SH0903112.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903113.10fu
title: SH0903113.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903114.10fu
title: SH0903114.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0903115.10fu
title: SH0903115.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.5rurbc
title: Occurrence Download

description: A dataset containing 41 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Trechus fulvus Dejean, 1831",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 41 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0097611-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hxu52j
title: Occurrence Download

description: A dataset containing 930265 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Anthus trivialis (Linnaeus, 1758)",
 "HasCoordinate is true",
 "Year is greater than or equal to 2011",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 930265 records from 2289 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0097579-240626123714530/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.22621675.v1
title: Additional file 3 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 3: Table S3. All DSGs identified in Z141 and NY-17 under drought stress.
DOI: 10.6084/m9.figshare.22621672
title: Additional file 2 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 2: Table S2. All AS events identified in Z141 and NY-17 under drought stress.
DOI: 10.6084/m9.figshare.22621684
title: Additional file 6 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 6: Table S6. GO analysis of nonoverlapping genes.
DOI: 10.6084/m9.figshare.20000471.v1
title: Additional file 2 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney

description: Additional file 2: Table S1. Quality control of ST-seq date from 9 and 18 PCW kidneys.
DOI: 10.6084/m9.figshare.20000477
title: Additional file 4 of Integrating spatial transcriptomics with single-cell transcriptomics reveals a spatiotemporal gene landscape of the human developing kidney

description: Additional file 4: Table S3. The biological process of each ST-seq cluster.
DOI: 10.6084/m9.figshare.22621708
title: Additional file 14 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 14: Table S8. Statistics of DMRs of linseed under drought stress.
DOI: 10.6084/m9.figshare.22621675
title: Additional file 3 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 3: Table S3. All DSGs identified in Z141 and NY-17 under drought stress.
DOI: 10.6084/m9.figshare.22621669
title: Additional file 1 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 1: Table S1. Statistical summary of read mapping.
DOI: 10.6084/m9.figshare.22621708.v1
title: Additional file 14 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 14: Table S8. Statistics of DMRs of linseed under drought stress.
DOI: 10.6084/m9.figshare.22621705.v1
title: Additional file 13 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 13: Table S7. Genome-wide methylation analysis of linseed seedlings under drought stress.
DOI: 10.6084/m9.figshare.22621672.v1
title: Additional file 2 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 2: Table S2. All AS events identified in Z141 and NY-17 under drought stress.
DOI: 10.6084/m9.figshare.12660952
title: Additional file 3 of Identification of candidate biomarkers and pathways associated with psoriasis using bioinformatics analysis

description: Additional file 3: Table S3. The sample basic statistic information of GSE14905 dataset.
DOI: 10.6084/m9.figshare.22621678
title: Additional file 4 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 4: Table S4. The GO terms of DSGs in Z141 and NY-17.
DOI: 10.6084/m9.figshare.22621681.v1
title: Additional file 5 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 5: Table S5. Analysis of differentially expressed genes in linseed seedlings under drought stress.
DOI: 10.6084/m9.figshare.22621681
title: Additional file 5 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 5: Table S5. Analysis of differentially expressed genes in linseed seedlings under drought stress.
DOI: 10.6084/m9.figshare.10047920
title: Additional file 1: Table S1. of Identification of the WRKY gene family and functional analysis of two genes in Caragana intermedia

description: Expression data for CiWRKY genes in different C. intermedia tissues. The expression data were generated via qRT-PCR, and calculations were performed using the 2-Î CT method; CiEF1Îą was used as an endogenous control. (XLS 22Â kb)
DOI: 10.6084/m9.figshare.12660844
title: Additional file 13 of RNA-sequencing based gene expression landscape of guava cv. Allahabad Safeda and comparative analysis to colored cultivars

description: Additional file 13. Guava_Reference_Transcriptome_Data files. Data S1. Functional Annotation of Allahabad Safeda Transcriptome Assembly. Data S2. Differential expression among different tissue types, mixed flower buds vs leaf & shoot tip (MFb vs LSt), mixed fruit stages vs leaf & shoot tip (MFr vs LSt) and mixed fruit stages vs mixed flower buds (MFr vs MFb) of Allahabad Safeda. Data S3. Differential expression between mature but unripened fruit (0DF) vs immature fruit (ImF) of Allahabad Safeda. Data S4. Differential expression between 3 days ripe fruit (3DF) vs mature unripened fruit (0DF) of Allahabad Safeda. Data S5. Differential expression between 7 days over-ripe fruit (7DF) vs 3 days ripe fruit (3DF) of Allahabad Safeda. Data S6. Differential expression between red peel vs green peel of Apple Color. Data S7. Differential expression between Punjab Pink mature fruit (PP_0DF) vs Allahabad Safeda mature fruit (AS_0DF). Data S8. FPKM values of DETs among fruit and peel stages of 3 genotypes. Data S9. Expression of genes involved in important pathways for fruit maturation, ripening and pathogenesis in different tissues of 3 guava genotypes.
DOI: 10.6084/m9.figshare.13187348
title: A regional-scale assessment of micro-organic contaminants in shallow groundwater in the Pearl River Delta, China

description: Industrialization and urban expansion can result in the contamination of shallow groundwater by micro-organics (MO) in the Pearl River Delta (PRD), China. This study provides a regional scale assessment of MO contaminants in shallow groundwater in the PRD, investigating the occurrence and distribution of different compound groups, highlighting the relationship between MOs and aquifers, and between MOs and land-use. The main influence of the vadose zone and regional socioeconomic development on each relationship is also analyzed. Twenty-one compounds were detected, with naphthalene, acetophenone, 2-methylnaphthalene and chloroform recording the highest frequencies (1.4–3.1%), 2-methylphenol (328 μg/L), 1,3,5-trimethylbenzene (59 μg/L) and 2,4-dimethylphenol (53.4 μg/L) recorded the highest concentrations. Due to differences in lithology and thickness of the vadose zone over different aquifer groups, notable differences in MOs were recorded between aquifer groups. Twenty-one compounds were also detected with the highest concentrations in Granular aquifers; Karst aquifers recorded the lowest concentration and fewest number of compounds. Different land-use types have also resulted in notable differences in MO contamination, particularly for natural land-use types and urban-industrial types. Natural land recorded both the smallest number of compounds and the lowest concentrations; urban and industrial land-use type had 14 compounds not recorded in other land-use types. Principal component analysis results indicated that urbanization and industrialization in the PRD region were the main driving mechanisms of groundwater MO contamination (via discharges of untreated wastewater). This finding was also verified by the strong positive relationships between waste water levels, discharge volume and, chloride concentrations and MO of the shallow groundwater in the PRD.
DOI: 10.5281/zenodo.7875357
title: Timed Sequence Task - Data

description: Timed Sequence Task - data


Raw and generated data from Timed Sequence Task. Data are generated by set of codes for standard operant boxes equipped with two fixed levers and a feeder (Med Associates, MED-307A-B1) and operated by Med-PC V software. 


Names of the tasks indicate the required sequences of lever presses (eg left - left - right - right). Individual inter-press intervals are specifically defined and are logged in great detail (ie. different types of incorrect presses are distinguished and recorded separately).


 


Operant boxes code is available here: Timed Sequence Task - OB.


Python scripts for the automated analysis of the resulting task logs are available on GitHub: Timed Sequence Task Analysis


 


Dataset contains following files


raw_data/data_vpa_final.csv



	
original, complete log of all tasks as exported from Med-PC V Software
	
columns are described in separate file Data VPA final - columns structure.txt



raw_data/mastersheet_complete_one_file.csv :



	
further context for the raw log allowing to split the original log in multiple task logs;  format  [ mouse - day - task ] ; this can be done using scripts provided here: https://doi.org/10.5281/zenodo.7881058 



 


generated data/data_by_task/[task-log].csv 



	
data from complete log filtered according to mastersheet into specific [task-log].csv files



generated_data/subanalysis_results/[subanalysis-name]/[task-name].csv



	
results of specific subanalyses divided by task names into separate files.
	

		
e.g. count_all_presses_test/LLPP-count_all_presses_test.csv = subanalysis count all presses for LLPP task
	
	
	
note that csv files in this directory have different structure, according to selected subanalysis
DOI: 10.6084/m9.figshare.10047920.v1
title: Additional file 1: Table S1. of Identification of the WRKY gene family and functional analysis of two genes in Caragana intermedia

description: Expression data for CiWRKY genes in different C. intermedia tissues. The expression data were generated via qRT-PCR, and calculations were performed using the 2-Î CT method; CiEF1Îą was used as an endogenous control. (XLS 22Â kb)
DOI: 10.6084/m9.figshare.22621678.v1
title: Additional file 4 of The pattern of alternative splicing and DNA methylation alteration and their interaction in linseed (Linum usitatissimum L.) response to repeated drought stresses

description: Additional file 4: Table S4. The GO terms of DSGs in Z141 and NY-17.
DOI: 10.6084/m9.figshare.22622405.v1
title: Additional file 1 of Clinicopathological and mutational characteristics of primary double mutant gastrointestinal stromal tumor: a single center study with review of the literature

description: Supplementary Material 1