cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13145/bacdive117044.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive117044.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0108935.10fu
title: SH0108935.10FU

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: 10.13145/bacdive117045.20241212.9.2
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive117045.20251217.10
title: Streptomyces sp.

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0108936.10fu
title: SH0108936.10FU

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.r4639h
title: Occurrence Download

description: A dataset containing 95 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Breutelia karsteniana (Müll.Hal.) A.Jaeger"
 ]
}

 The dataset includes 95 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013265-250402121839773/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.c.3632963_d2.v1
title: Additional file 1: Table S1. of The effect of declining exposure on T cell-mediated immunity to Plasmodium falciparum – an epidemiological “natural experiment”

description: Flow cytometry staining panels. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.c.3633206_d1.v1
title: Additional file 3: of CellProfiler Tracer: exploring and validating high-throughput, time-lapse microscopy image data

description: Listing of high-content image-based features generated by CellProfiler, categorized by feature type. (XLS 33 kb)
DOI: 10.6084/m9.figshare.c.3633218_d1.v1
title: Additional file 1 of Case-oriented pathways analysis in pancreatic adenocarcinoma using data from a sleeping beauty transposon mutagenesis screen

description: Significant CIS enriched pathways and disrupted genes. Number in the parenthesis represents # of cases with the gene mutated. (CSV 13.4 kb)
DOI: 10.6084/m9.figshare.c.3633218_d3.v1
title: Additional file 3 of Case-oriented pathways analysis in pancreatic adenocarcinoma using data from a sleeping beauty transposon mutagenesis screen

description: CIS and pathways association table. (TXT 3.87 kb)
DOI: 10.6084/m9.figshare.c.3633455_d6.v1
title: MOESM3 of Transcriptional program for nitrogen starvation-induced lipid accumulation in Chlamydomonas reinhardtii

description: Additional file 3: Table S3. List of the TRs predicted to orchestrate the transcriptional response during N starvation. Seventeen differentially expressed TRs during N starvation with a predicted significant influence on at least one transcriptional module. TR annotation (locus name, gene name and description), first time point of differential expression, predicted influenced modules and the enriched functions of those modules are indicated. Numbers in parenthesis indicate the number of network-predicted metabolic targets included within each module.
DOI: 10.6084/m9.figshare.c.3633470_d6.v1
title: Additional file 16: Tree S6. of Multigene phylogenetic analysis redefines dung beetles relationships and classification (Coleoptera: Scarabaeidae: Scarabaeinae)

description: POY Tree, estimated using parameter scheme 111 (see Methods section). (TRE 12 kb)
DOI: 10.6084/m9.figshare.c.3633476_d4.v1
title: Additional file 2: of Genotypic and phenotypic analyses of a Pseudomonas aeruginosa chronic bronchiectasis isolate reveal differences from cystic fibrosis and laboratory strains

description: (FA 2008Â kb)
DOI: 10.6084/m9.figshare.c.3633476_d5.v1
title: Additional file 1: of Genotypic and phenotypic analyses of a Pseudomonas aeruginosa chronic bronchiectasis isolate reveal differences from cystic fibrosis and laboratory strains

description: (FA 6441Â kb)
DOI: 10.6084/m9.figshare.c.3633503_d3.v1
title: Additional file 3: of Soybean transcription factor ORFeome associated with drought resistance: a valuable resource to accelerate research on abiotic stress resistance

description: Detailed information of soybean TF-ORFs cloned in this study.
DOI: 10.6084/m9.figshare.c.3634379_d1.v1
title: Additional file 1: of The association between psychosocial and structural-level stressors and HIV injection drug risk behavior among Malaysian fishermen: A cross-sectional study

description: Waves_dataset. (DTA 4047 kb)
DOI: 10.6084/m9.figshare.c.3634409_d1.v1
title: Additional file 1: of Annotation of pseudogenic gene segments by massively parallel sequencing of rearranged lymphocyte receptor loci

description: Table listing the number of sequences observed in the study (including total, unique, productive, and non-productive) that used each V gene segment in each individual. (XLSX 1183 kb)
DOI: 10.6084/m9.figshare.c.3634619_d6.v1
title: Additional file 8: Table S5 of Hotspot mutations delineating diverse mutational signatures and biological utilities across cancer types

description: List of the predicted hotspot mutations in different tumor types based on COSMIC version 71. Functional evidences were annotated if the statistical analysis showed significant results. (XLSX 145 kb)
DOI: 10.6084/m9.figshare.c.3634628_d1.v1
title: Additional file 3: Table S3. of Systematics and historical biogeography of the old world butterfly subtribe Mycalesina (Lepidoptera: Nymphalidae: Satyrinae)

description: The estimated mean values and Effective Sample Sizes of parameters used in the BEAST time of divergence analyses. The figures are combined values of three independent BEAST Monte Carlo Markov Chain analyses, each ran for 50 Million generations. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3634628_d2.v1
title: Additional file 1: Table S1. of Systematics and historical biogeography of the old world butterfly subtribe Mycalesina (Lepidoptera: Nymphalidae: Satyrinae)

description: List of exemplar mycalesines taxa included in the study and the gene regions amplified and sequenced per taxon. “x” denotes a case where a gene region was successfully amplified and sequenced for the taxon. Gene regions (COI, Ef1a, MDH, CAD) more than 800 base pairs long were amplified in two parts. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.c.3634628_d5.v1
title: Additional file 5: Table S4. of Systematics and historical biogeography of the old world butterfly subtribe Mycalesina (Lepidoptera: Nymphalidae: Satyrinae)

description: BEAST priors sensitivity test. Comparison of time of divergence at 40 nodes selected across different parts of the Mycalesina tree, using different tree-shape (birth-death, yule, calibrated-yule) and clock (normal and uniform) priors. (XLSX 29Â kb)
DOI: 10.6084/m9.figshare.c.3634634_d1.v1
title: Additional file 1: of Ultrathin bronchoscopy for solitary pulmonary lesions in a region endemic for tuberculosis: a randomised pilot trial

description: The supplemental file. (XLS 16 kb)
DOI: 10.6084/m9.figshare.c.3634643_d1.v1
title: Additional file 1: of Comparison of the frequency of bacterial and viral infections among children with community-acquired pneumonia hospitalized across distinct severity categories: a prospective cross-sectional study

description: Dataset of children hospitalized with community-acquired pneumonia in distinct severity categories with aetiology results. Demographic, clinical, and aetiology data on children hospitalized with community-acquired pneumonia. (XLS 219Â kb)
DOI: 10.6084/m9.figshare.c.3634652_d1.v1
title: Additional file 2: of Identification of source and sink populations for the emergence and global spread of the East-Asia clone of community-associated MRSA

description: List of core genome sites included in our analysis. Site numbers are relative to the published ST59 genome used as a reference for mapping short reads (GenBank accession CP003166). (TXT 20378 kb)
DOI: 10.6084/m9.figshare.c.3634652_d2.v1
title: Additional file 3: of Identification of source and sink populations for the emergence and global spread of the East-Asia clone of community-associated MRSA

description: Output from in silico antibiotic resistance testing. Genes associated with antibiotic resistance were detected using SRST2. Gene presence is denoted by the name of the gene (asterisks indicates at least one mismatched SNP or indel and a question mark indicates some low-depth bases, as described on the SRST2 website: https://github.com/katholt/srst2 ). Gene absence is denoted by a hyphen. The amino acid residue (IUPAC single letter code) is given for gyrA, grlA and grlB sites associated with fluoroquinolone resistance. Presence or absence of PVL based on mapping of short reads to lukF-PV and lukS-PV reference sequences is also reported. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3634883_d2.v1
title: Additional file 4: Table S2. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Complete list of differentially expressed genes at the mRNA level at the different time points in leaves and roots (XLSX 1382Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d1.v1
title: Additional file 11: Table S8. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: List of differentially expressed TF genes after 30Â min in roots (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d4.v1
title: Additional file 1: Table S1. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Heat maps and box plots of all detectable metabolites of known identity. (XLSX 1476Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d5.v1
title: Additional file 18: Table S14. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Differentially accumulated proteins during dehydration in soybean roots. (XLSX 23Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d6.v1
title: Additional file 7: Table S4. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Significant GO terms root 30Â min. Molecular Function and Biological Process category enriched GO terms. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d8.v1
title: Additional file 6: Table S3. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Significant GO terms root 1Â h. (XLSX 12Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d10.v1
title: Additional file 12: Table S9. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: List of differentially expressed TF genes after 2Â h in leaves (XLSX 23Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d11.v1
title: Additional file 14: Table S11. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: bHLH genes in soybean. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d13.v1
title: Additional file 9: Table S6. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Significant GO terms leaf 2Â h. (XLSX 14Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d14.v1
title: Additional file 10: Table S7. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Significant GO terms leaf 5Â h. (XLSX 17Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d15.v1
title: Additional file 8: Table S5. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Significant GO terms root 5Â h. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.c.3634883_d17.v1
title: Additional file 13: Table S10. of A toolbox of genes, proteins, metabolites and promoters for improving drought tolerance in soybean includes the metabolite coumestrol and stomatal development genes

description: Differentially expressed calcium signaling-associated genes from MapMan (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3634892_d1.v1
title: Additional file 2: of Genomic alterations underlie a pan-cancer metabolic shift associated with tumour hypoxia

description: Tables S1 to S21. (ZIP 10219 kb)
DOI: 10.6084/m9.figshare.c.3634892_d3.v1
title: Additional file 3: of Genomic alterations underlie a pan-cancer metabolic shift associated with tumour hypoxia

description: iDOS R package and associated R scripts used in this study. (ZIP (379183 kb)
DOI: 10.6084/m9.figshare.c.3634895_d3.v1
title: Additional file 3: of The challenge of mothers learning about secondhand smoke (MLASS): a quasi-experimental, mixed methods feasibility study

description: Interventions A, B, C and D. (ZIP 1154 kb)
DOI: 10.5281/zenodo.11243710
title: Single cell analysis code
DOI: 10.6084/m9.figshare.c.3635108_d1.v1
title: Additional file 2: of Modeling central metabolism and energy biosynthesis across microbial life

description: Supplemental data table associated with this study. There are twelve data tabs included in this table. Description for each data tab is at the end of â  Additional file 1â   document. (XLSX 2418 kb)
DOI: 10.6084/m9.figshare.c.3635399_d1.v1
title: MOESM1 of Using multivariate cross correlations, Granger causality and graphical models to quantify spatiotemporal synchronization and causality between pest populations

description: Additional file 1. Actual ecological time series registered during successive growth seasons of the years 2003–2011 (3-day time intervals). W1: temperature (°C), W2: relative humidity (%), X1–X8: A. orana, Y1–Y3: A. lineatella and Z1–Z2: G. molesta moth populations (individuals).
DOI: 10.6084/m9.figshare.c.3635402_d2.v1
title: Additional file 1 of Comparative transcriptomics reveals similarities and differences between astrocytoma grades

description: Contains supporting Tables S1â  S7. Table S1: Summary of considered astrocytoma samples. Table S2: Summary of t-test results for PA I, AS II, AS III and GBM IV. Table S3: Signature genes distinguishing PA I from AS II, AS III and GBM IV. Table S4: Regulatory network associated with expression differences of signature genes. Table S5: Summary of integrated gene annotations. Table S6: Verhaak classification results for PA I, AS II, AS III and GBM IV. Table S7: Correlation statistics for macrophage marker genes included in the Verhaak-classifier. (ZIP 3287 kb)
DOI: 10.23641/asha.26506144
title: Typing versus handwriting (Lee et al., 2024)

description: <b>Purpose: </b>Handwriting and typing have different cognitive and motor demands; however, questions remain as to whether performance in people with aphasia varies based on modality. This study compares written discourse production across handwritten and onscreen typed modalities for a large sample of people with aphasia. We also aimed to explore potential variables that predict the number of written words generated by participants and determine if modality differences emerge when these variables are included as predictors.<b>Method:</b> Writing samples, via handwriting and onscreen typing, elicited in a picture description task were collected from 52 participants with chronic aphasia and coded for number of words. Generalized linear mixed-effects models were used to model the data. Aphasia type, severity of aphasia, writing severity, and use of nondominant hand for writing or onscreen typing were included as predictor variables.<b>Results:</b> There were no significant differences between the number of words generated in the typed modality versus handwritten modality for the sample. Of the predictor variables examined, Western Aphasia Battery–Revised writing scores significantly predicted the number of words produced (<i>p</i> &lt; .001). However, the interaction of writing severity with modality was not significant.<b>Conclusions:</b> This preliminary study suggests that there was no effect of modality on one measure of written production, number of words. Future research is needed to evaluate if there are meaningful differences between modalities when additional measures, such as writing informativeness, are considered.<b>Supplemental Material S1. </b>Western Aphasia Battery–Revised Writing scores.Lee, J. B., Kinsey, L. E., & Cherney, L. R. (2024). Typing versus handwriting: A preliminary investigation of modality effects in the writing output of people with aphasia. <i>American Journal of Speech-Language Pathology</i>, <i>33</i>(6S), 3422–3430. https://doi.org/10.1044/2024_AJSLP-23-00344<b>Publisher Note:</b> This article is part of the Special Issue: Select Papers From the 52nd Clinical Aphasiology Conference.
DOI: 10.6084/m9.figshare.c.3635426_d1.v1
title: Additional file 13: Table S8. of svclassify: a method to establish benchmark structural variant calls

description: Manual inspection characteristics of all 10 of the randomly selected Personalis sites with 0.9
DOI: 10.6084/m9.figshare.c.3635426_d4.v1
title: Additional file 17: Table S12. of svclassify: a method to establish benchmark structural variant calls

description: Manual inspection characteristics of the 8 randomly selected 1000 Genomes sites with 0.7
DOI: 10.6084/m9.figshare.c.3635426_d5.v1
title: Additional file 2: Table S2. of svclassify: a method to establish benchmark structural variant calls

description: Annotations for each of the SV calls as well as likely non-SV regions from the Illumina HiSeq (read lengthâ  =â  250Â bps) aligned sequence dataset for NA12878 using svclassify. (CSV 4 kb)
DOI: 10.6084/m9.figshare.c.3635426_d9.v1
title: Additional file 3: Table S3. of svclassify: a method to establish benchmark structural variant calls

description: Annotations for each of the SV calls as well as likely non-SV regions from the Moleculo aligned sequence dataset for NA12878 using svclassify. (CSV 3.02 kb)
DOI: 10.6084/m9.figshare.c.3635636_d1.v1
title: Additional file 1: of Transcriptome-wide RNA processing kinetics revealed using extremely short 4tU labeling

description: Tables S1â  S14; figures S1â  S7; and Supplementary Methods and References. (ZIP 6028 kb)
DOI: 10.6084/m9.figshare.c.3635639_d2.v1
title: Additional file 3: of Allele-specific expression in the human heart and its application to postoperative atrial fibrillation and myocardial ischemia

description: List of SNPs with significant allele-specific expression in LV. (TXT 1941 kb)
DOI: 10.6084/m9.figshare.c.3635639_d3.v1
title: Additional file 2: of Allele-specific expression in the human heart and its application to postoperative atrial fibrillation and myocardial ischemia

description: List of SNPs with significant allele-specific expression in LA. (TXT 1290 kb)
DOI: 10.6084/m9.figshare.c.3635645_d1.v1
title: Additional file 5: Table S4. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Summary of putative microRNAs. Genomic location and conservation were determined with methods used for Additional file 4: Table S3. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.c.3635645_d2.v1
title: Additional file 8: Table S7. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Primers used in this manuscript. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3635645_d3.v1
title: Additional file 6: Table S5. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Long RNA transcripts loci spanning pre-microRNA regions. Loci are listed if 20 or greater long RNA-seq reads max per sample spanned the indicated microRNA precursor region. Rank (in average long RNA reads), chromosome and coordinates of precursor, precursor ID, and maximum number of reads spanning precursors are listed for each erythrocyte long RNA-seq sample. MicroRNAs are listed as expressed if any microRNA mapping to the indicated precursor region were present in 100 or greater reads for all short RNA-seq samples. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3635645_d5.v1
title: Additional file 2: Table S1. of A comprehensive joint analysis of the long and short RNA transcriptomes of human erythrocytes

description: Summary of all expressed long RNAs. (XLSX 2170 kb)