cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.pahjyj
title: Occurrence Download

description: A dataset containing 61 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Shorea assamica Dyer"
 ]
}

 The dataset includes 61 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032773-241126133413365/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.3614843_d5
title: Additional file 2: of Graph mining for next generation sequencing: leveraging the assembly graph for biological insights

description: Proportion of nodes with Shannon’s index scores greater than one for sequence feature functional classes. This spreadsheet file contains the counts for sequence features assigned to various functional classes, including the Seed subsystems, RNA operons, and transposase sequences. This file also contains the proportion of sequence features whose nodes have Shannon’s index scores greater than one. The results of the Wilcoxon Signed-Rank test comparing proportions of nodes with Shannon’s index scores greater than one for the Seed subsystems against the transposase sequence features and RNA operons are also included in this file. (XLSX 74 kb)
DOI: 10.6084/m9.figshare.c.3614843_d6
title: Additional file 5: of Graph mining for next generation sequencing: leveraging the assembly graph for biological insights

description: Antibiotics resistance gene hits. This spreadsheet file contains the antibiotics resistance gene hits for each of the transposase clusters. (XLSX 55 kb)
DOI: 10.6084/m9.figshare.c.3614846_d4
title: Additional file 4: Table S4. of The transcriptome of Candida albicans mitochondria and the evolution of organellar transcription units in yeasts

description: GC-rich elements in C. albicans mtDNA. OpenDocument (ISO/IEC 26300) spreadsheet format. Colors denote different hairpin structure types, as in Fig.Â 8a. The second copy of inverted repeat (IRb) is omitted. (XLSX 9 kb)
DOI: 10.25919/edzc-qx02
title: Parkes observations for project P1185 semester 2023APRS_32

description: Ultra-long period neutron stars (ULPNSs) are an emerging class of objects that have sparked interest and curiosity in the fast transient community. Along with standard magnetars, they have been theorised to be potential progenitors of the enigmatic fast radio bursts (FRBs). The MeerTRAP project at the MeerKAT radio telescope is uncovering several magnetar and ultra-long period neutron star candidates, an example of which is PSR J0901-4046 with a period of 76s. Continued long-term monitoring of PSR J0901-4046 has shown it to be potentially transitioning into radio quiescence. The proposed observations will enable us to continue to monitor and characterise the decline in flux density. We have also discovered two new candidates MTP0027 and MTP0068 with periods of ~10 seconds and ~5 seconds respectively. Both sources exhibit magnetar-like pulse morphology and have only been detected in one epoch with MeerKAT. We propose to continue monitoring these sources to re-detect pulses and study their spectro-temporal-polarimetric properties.
DOI: 10.6084/m9.figshare.c.3614936_d1
title: Additional file 1: Table S1. of The HLA-B*35 allele modulates ER stress, inflammation and proliferation in PBMCs from Limited Cutaneous Systemic Sclerosis patients

description: Clinical and hemodynamic data of study subjects. PAP = pulmonary artery pressure. PCWP = pulmonary capillary wedge pressure. CO/CI = Cardiac output (L/min)/ cardiac index (L/min/m2). PVR = pulmonary vascular resistance. ILD = interstitial lung disease. FVC (%) = estimated forced vital capacity. DLCO = carbon monoxide diffusing capacity. SPAP = estimated systolic pulmonary artery pressure by echocardiogram. ILD was defined as present (Y = yes) or absent (N = no) based on high-resolution computed tomography assessment of the lungs. (XLS 73.5 kb)
DOI: 10.6084/m9.figshare.c.3614933_d2
title: Additional file 3: Table S2. of LL-37 stimulates the functions of adipose-derived stromal/stem cells via early growth response 1 and the MAPK pathway

description: List of upregulated genes in ASCs exposed to LL-37 by microarray analysis. (XLS 45Â kb)
DOI: 10.6084/m9.figshare.c.3614936_d3
title: Additional file 2: Table S2. of The HLA-B*35 allele modulates ER stress, inflammation and proliferation in PBMCs from Limited Cutaneous Systemic Sclerosis patients

description: List of Gene Sets: 64 pathways sorted by LS permutation p-value. (XLS 152 kb)
DOI: 10.6084/m9.figshare.c.3614945_d5
title: Additional file 5: of Globally distributed root endophyte Phialocephala subalpina links pathogenic and saprophytic lifestyles

description: CAZyme modules related to PCWD used for principle component analysis. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3614945_d6
title: Additional file 3: of Globally distributed root endophyte Phialocephala subalpina links pathogenic and saprophytic lifestyles

description: Putative secondary metabolite clusters identified in the P. subalpina genome (XLSX 12 kb)
DOI: 10.25919/7pgf-h620
title: Parkes observations for project P1338 semester 2024OCTS_18

description: Fast radio bursts (FRBs) are millisecond-duration radio bursts of extragalactic origin. Since the discovery of the first FRB in the archival Parkes/Murriyang multibeam data, a broad dichotomy in population has emerged. Some FRBs have been seen to be repeating, while others are not, despite a significant amount of follow-up using different radio telescopes. The repeating FRB 20240114A was recently discovered by CHIME/FRB, which has been seen to have an exceptionally high burst activity. Such extreme burst activity has not been seen in any other source. The repeating FRBs, such as FRB 20240114A, provide an unparalleled window into their circumburst environment due to their repeating nature, which can be used to constrain possible progenitor models and test underlying emission mechanisms. The previous Parkes/Murriyang source follow-up has also revealed intriguing spectro-polarimetric properties, such as frequency-dependent evolution of burst central frequency or chromaticity, a possible activity window, significantly large circular polarisation (CP), and frequency-dependent CP. These properties hold the key towards understanding the circumburst environment of the FRBs, and test possible progenitor models. A large bandwidth instrument with reliable polarimetry has been critical in uncovering these properties. The ultra-wideband low (UWL) receiver on Parkes/Murriyang is ideally suited to explore the source's wideband spectro-temporal and polarimetric behaviour. We propose a campaign to regularly follow up FRB 20240114A to ascertain its long-term evolution of spectro-temporal properties.
DOI: 10.6084/m9.figshare.c.3614981_d1
title: Additional file 4: of Strong ground motion in the Kathmandu Valley during the 2015 Gorkha, Nepal, earthquake

description: THM001504250611.dat. Strong motion acceleration data at THM station. (DAT 606 kb)
DOI: 10.6084/m9.figshare.c.3614978_d3
title: Additional file 4: of Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish

description: Amplicon screening data used for Fig.Â 4a-c. (TXT 142Â kb)
DOI: 10.6084/m9.figshare.c.3614981_d2
title: Additional file 3: of Strong ground motion in the Kathmandu Valley during the 2015 Gorkha, Nepal, earthquake

description: PTN001504250611.dat. Strong motion acceleration data at PTN station. (DAT 606 kb)
DOI: 10.6084/m9.figshare.c.3614978_d4
title: Additional file 7: of Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish

description: Code used to produce the plot in Figs.Â 4 and 5, Additional file 3: Figure S1. (TXT 14Â kb)
DOI: 10.6084/m9.figshare.c.3614981_d3
title: Additional file 1: of Strong ground motion in the Kathmandu Valley during the 2015 Gorkha, Nepal, earthquake

description: KTP001504250611.dat. Strong motion acceleration data at KTP station. (DAT 606 kb)
DOI: 10.6084/m9.figshare.c.3614978_d5
title: Additional file 6: of Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish

description: Amplicon screening data used for Fig.Â 5. (TXT 3213Â kb)
DOI: 10.6084/m9.figshare.c.3614978_d6
title: Additional file 8: of Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish

description: Sample accession numbers. (TSV 80Â kb)
DOI: 10.6084/m9.figshare.c.3615005_d1
title: Additional file 4: of Pinpointing genes underlying annual/perennial transitions with comparative genomics

description: A Newick text file containing the phylogenetic tree in Figure 1. (TXT 283 bytes)
DOI: 10.6084/m9.figshare.c.3614981_d4
title: Additional file 2: of Strong ground motion in the Kathmandu Valley during the 2015 Gorkha, Nepal, earthquake

description: TVU001504250611.dat. Strong motion acceleration data at TVU station. (DAT 606 kb)
DOI: 10.6084/m9.figshare.c.3614978_d7
title: Additional file 1: of Efficient identification of CRISPR/Cas9-induced insertions/deletions by direct germline screening in zebrafish

description: Table of CRISPR target sequences. (TXT 7Â kb)
DOI: 10.6084/m9.figshare.c.3615017_d4
title: Additional file 6: Table S6. of A metagenomic approach from aphid’s hemolymph sheds light on the potential roles of co-existing endosymbionts

description: List of wPn annotated genes. (XLSX 31.4 kb)
DOI: 10.6084/m9.figshare.c.3615020_d8
title: Additional file 5: of Interpreting Prevotella and Bacteroides as biomarkers of diet and lifestyle

description: RDATAand RMD.tar.gz is a zipped file of all the data and R markdown files to reproduce all the analyses done in the article and is the files can be found at : &lt; http://purl.stanford.edu/fs506ff9976 &gt;. (ZIP 11504Â kb)
DOI: 10.6084/m9.figshare.c.3615017_d5
title: Additional file 4: Table S4. of A metagenomic approach from aphid’s hemolymph sheds light on the potential roles of co-existing endosymbionts

description: General features of Buchnera’s genomes. (XLSX 10.7 kb)
DOI: 10.6084/m9.figshare.c.3615017_d6
title: Additional file 7: Table S7. of A metagenomic approach from aphid’s hemolymph sheds light on the potential roles of co-existing endosymbionts

description: List of BPn annotated genes. (XLSX 19.5 kb)
DOI: 10.6084/m9.figshare.c.3615044_d1
title: Additional file 1: Table S1. of Development of Cytoplasmic Male Sterile IR24 and IR64 Using CW-CMS/Rf17 System

description: Comparison of agronomic characteristics between CMS line and maintainer line in 2015. (XLS 35Â kb)
DOI: 10.6084/m9.figshare.c.3615017_d7
title: Additional file 3: Table S3. of A metagenomic approach from aphid’s hemolymph sheds light on the potential roles of co-existing endosymbionts

description: General features of Wolbachia’s genomes. (XLSX 10.7 kb)
DOI: 10.6084/m9.figshare.c.3615062_d8
title: Additional file 9: of Quantifying differences in cell line population dynamics using CellPD

description: Source code. This folder contains the Python code with the version of CellPD used throughout this manuscript. (ZIP 554Â kb)
DOI: 10.6084/m9.figshare.c.3615062_d9
title: Additional file 5: of Quantifying differences in cell line population dynamics using CellPD

description: Synthetic data. This folder contains the synthetic data used for Fig.Â 3 and Additional file 4. Additionally, it contains the python scripts that were used to make the synthetic data, Fig.Â 3, and Additional file 4: Figure S9-1. (ZIP 890Â kb)
DOI: 10.6084/m9.figshare.c.3615062_d10
title: Additional file 1: of Quantifying differences in cell line population dynamics using CellPD

description: Example of CellPDâ  s outputs. This folder contains two examples of the outputs generated by CellPD (using the data from Fig.Â 2 and Additional file 6). (ZIP 36462Â kb)
DOI: 10.6084/m9.figshare.c.3615080_d4
title: Additional file 5: of Secondary metabolite gene clusters in the entomopathogen fungus Metarhizium anisopliae: genome identification and patterns of expression in a cuticle infection model

description: Amino acid alignment for the tropolone/citrinin-related backbone gene and related orthologs. (FASTA 125 kb)
DOI: 10.6084/m9.figshare.c.3615080_d7
title: Additional file 9: of Secondary metabolite gene clusters in the entomopathogen fungus Metarhizium anisopliae: genome identification and patterns of expression in a cuticle infection model

description: Amino acid alignment for helvolic acid supermatrix. (FASTA 40 kb)
DOI: 10.6084/m9.figshare.c.3615149_d1
title: MOESM5 of Targeted bisulfite sequencing of the dynamic DNA methylome

description: Additional file 5: Table S4 R-script to determine differentially methylated 200-bp tiles between GTEx samples.
DOI: 10.6084/m9.figshare.c.3615146_d2
title: Additional file 2: of Je, a versatile suite to handle multiplexed NGS libraries with unique molecular identifiers

description: Archive containing an executable Jar and a wrapper script. (ZIP 9774Â kb)
DOI: 10.6084/m9.figshare.c.3615149_d3
title: MOESM2 of Targeted bisulfite sequencing of the dynamic DNA methylome

description: Additional file 2 DyMe-Seq region genomic coordinates.
DOI: 10.6084/m9.figshare.c.3615209_d2
title: MOESM4 of LEAFDATA: a literature-curated database for Arabidopsis leaf development

description: Additional File 4: Table S3. List of papers curated in LEAFDATA.
DOI: 10.6084/m9.figshare.c.3615209_d4
title: MOESM3 of LEAFDATA: a literature-curated database for Arabidopsis leaf development

description: Additional File 3: Table S2. List of genes curated in LEAFDATA.
DOI: 10.6084/m9.figshare.c.3615233_d1
title: Additional file 3: of TIS7 induces transcriptional cascade of methylosome components required for muscle differentiation

description: Raw data relating to each figure. (XLSX 236 kb)
DOI: 10.6084/m9.figshare.c.3615221_d2
title: Additional file 2: Table S2. of Genetic differentiation over a small spatial scale of the sand fly Lutzomyia vexator (Diptera: Psychodidae)

description: Motifs and PCR primer suggestions for microsatellite loci recovered from the enrichment protocol. Abbreviations: Tm, recommended annealing temperature. (XLSX 170Â kb)
DOI: 10.6084/m9.figshare.c.3615263_d4
title: Additional file 4: of Enrichment of extracellular vesicles from tissues of the central nervous system by PROSPR

description: Dataset 4. List of proteins identified in human whole brain. Database searches was performed using an in-house Mascot server (version 2.3.02, Matrix Science, MA, USA) with a precursor ion tolerance of 10 ppm and fragment peak tolerance of 0.05 Da. Uniprot human database (downloaded on 15th July of 2015, 90478 sequences and 35.890.546 residues) was used for database search. Two missed trypsin cleavage sites were tolerated. Carbamidomethylation (C) was set as fixed modification and deamidation (NQ) and oxidation (M) were set as variable modifications. Peptides with Mascot score &gt;15 were used to generate the peptide list in all tested human conditions. (XLS 286 kb)
DOI: 10.6084/m9.figshare.c.3615281_d1
title: Additional file 1: of Analysis of the osseointegrative force of a hyperhydrophilic and nanostructured surface refinement for TPS surfaces in a gap healing model with the GĂśttingen minipig

description: Supplemental material. (XLSX 62Â kb)
DOI: 10.6084/m9.figshare.c.3615263_d5
title: Additional file 2: of Enrichment of extracellular vesicles from tissues of the central nervous system by PROSPR

description: Dataset 2. List of lipid isoforms identified by direct infusion ESI-MS/MS in whole brain. List of lipid isoforms identified by direct infusion ESI-MS/MS in PROSPR-CNS-EVs. Database searches for lipid identification used all available LipidBlast libraries for positive and negative modes. Precursor ion tolerance and fragment peak tolerance were set at 0.01Â m/z. Absolute number of identifications was generated considering 5 replicates from each analyzed mode. (XLS 28Â kb)
DOI: 10.6084/m9.figshare.c.3615263_d6
title: Additional file 1: of Enrichment of extracellular vesicles from tissues of the central nervous system by PROSPR

description: Dataset 1. List of lipid isoforms identified by direct infusion ESI-MS/MS in PROSPR-CNS-EVs. Database searches for lipid identification used all available LipidBlast libraries for positive and negative modes. Precursor ion tolerance and fragment peak tolerance were set at 0.01Â m/z. Absolute number of identifications was generated considering 5 replicates from each analyzed mode. (XLS 31Â kb)
DOI: 10.6084/m9.figshare.c.3615263_d7
title: Additional file 8: of Enrichment of extracellular vesicles from tissues of the central nervous system by PROSPR

description: Dataset 7. List of proteins identified in PROSPR-CNS-EVs from mouse brain. Database searches was performed using an in-house Mascot server (version 2.3.02, Matrix Science, MA, USA) with a precursor ion tolerance of 10 ppm and fragment peak tolerance of 0.05 Da. Uniprot mouse database (downloaded on 19th February of 2016, 101382 sequences and 43.874.034 residues) was used for database search. Two missed trypsin cleavage sites were tolerated. Carbamidomethylation (C) was set as fixed modification and deamidation (NQ) and oxidation (M) were set as variable modifications. Peptides with Mascot score &gt;15 were used to generate the peptide list in all tested human conditions. (XLS 127 kb)
DOI: 10.6084/m9.figshare.c.3615263_d8
title: Additional file 3: of Enrichment of extracellular vesicles from tissues of the central nervous system by PROSPR

description: Dataset 3. List of proteins identified by LC-MS/MS in PROSPR-CNS-EVs. Database searches was performed using an in-house Mascot server (version 2.3.02, Matrix Science, MA, USA) with a precursor ion tolerance of 10 ppm and fragment peak tolerance of 0.05 Da. Uniprot human database (downloaded on 15th July of 2015, 90478 sequences and 35.890.546 residues) was used for database search. Two missed trypsin cleavage sites were tolerated. Carbamidomethylation (C) was set as fixed modification and deamidation (NQ) and oxidation (M) were set as variable modifications. Peptides with Mascot score &gt;15 were used to generate the peptide list in all tested human conditions. (XLS 543 kb)
DOI: 10.6084/m9.figshare.c.3615290_d3
title: Additional file 1: Table S1. of Phylogenetic analyses reveal molecular signatures associated with functional divergence among Subtilisin like Serine Proteases are linked to lifestyle transitions in Hypocreales

description: Accession IDs of protein sequences included in the phylogenetic analysis (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3615344_d3
title: Additional file 1: of Non-invasive surveillance for Plasmodium in reservoir macaque species

description: Raw data of long-tailed macaque (Macaca fascicularis) malarias. Includes surveys of Plasmodium coatneyi, P. cynomolgi, P. fieldi, P. knowlesi, and P. inui in natural hosts and humans across Southeast Asia.
DOI: 10.6084/m9.figshare.c.3615395_d4
title: Additional file 1: of Ď 54-dependent regulome in Desulfovibrio vulgaris Hildenborough

description: EBP taxonomic distribution. (XLSX 78Â kb)
DOI: 10.6084/m9.figshare.c.3615395_d6
title: Additional file 6: of Ď 54-dependent regulome in Desulfovibrio vulgaris Hildenborough

description: Ď  54 -dependent promoters. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.c.3615404_d2
title: Additional file 2: Figure S2. of The association among MDCT-derived three-dimensional visceral adiposities on cardiac diastology and dyssynchrony in asymptomatic population

description: 3D-reconstruction of total pericardial fat volume from axial, sagittal and coronal images. Pericardial fat (yellow color) was selected as all adipose tissue within the pericardial sac and subtracted from the adjacent cardiac structures. (A) A case with large pericardial fat (total volume = 174.3 ml). This subject has decreased diastolic tissue velocity (lateral E’ = 4 cm/s) and prolonged diastolic dyssynchrony (80 ms). (B) A case with small pericardial fat (total volume = 26.39 ml). This subject has normal diastolic tissue velocity (lateral E’ = 12 cm/s) and diastolic dyssynchrony (10 ms). (ZIP 1204 kb)
DOI: 10.6084/m9.figshare.c.3615431_d1
title: Additional file 4: of The Tasmanian devil microbiomeâ  implications for conservation and management

description: Taxonomic composition of 56 microbiome samples at phylum, class, order, family and genus levels.
DOI: 10.6084/m9.figshare.c.3615431_d3
title: Additional file 1: of The Tasmanian devil microbiomeâ  implications for conservation and management

description: Metadata of all 56 microbiome samples.
DOI: 10.6084/m9.figshare.c.3615476_d2
title: Additional file 6: S3. of High-throughput mRNA and miRNA profiling of epithelial-mesenchymal transition in MDCK cells

description: Results of RNA-Seq differential expression analysis. (XLSX 1551 kb)
DOI: 10.6084/m9.figshare.c.3615491_d1
title: Additional file 1: Table S1. of Confirmatory factor analysis of Clinical Outcomes in Routine Evaluation (CORE-OM) used as a measure of emotional distress in people with tinnitus

description: Fit indices, factor loadings and correlations between factors for 10 models of the CORE-OM. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3615494_d1
title: Additional file 1: of The effects of onion consumption on treatment of metabolic, histologic, and inflammatory features of nonalcoholic fatty liver disease

description: The raw data. (XLS 96 kb)
DOI: 10.5519/qd.huo3l80s
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (101 records)
DOI: 10.6084/m9.figshare.c.3615527_d1
title: Additional file 1: Table S1. of Identification of candidate genes for drought tolerance in coffee by high-throughput sequencing in the shoot apex of different Coffea arabica cultivars

description: Summary of Blast2GO automatic annotation of the transcriptome clusters. (XLS 15226Â kb)
DOI: 10.6084/m9.figshare.c.3615527_d2
title: Additional file 3: Table S2. of Identification of candidate genes for drought tolerance in coffee by high-throughput sequencing in the shoot apex of different Coffea arabica cultivars

description: Summary of the DEseq/ EdgeR fold changes and p-values between the cultivars (I59: IAPAR59 and RUB: Rubi) and between control (C) and drought (D) conditions. These tables also contain Blast2GO automatic annotation of the transcriptome clusters. Table lanes coloured in grey are related to clusters aligned to the new candidate genes tested by RT-qPCR (see Table 1). (XLS 51895 kb)
DOI: 10.6084/m9.figshare.c.3615530_d4
title: MOESM4 of Absent words and the (dis)similarity analysis of DNA sequences: an experimental study

description: Additional file 4. A Spread-sheet showing scores. In this file (observations.xlsx), for the sake of ease in our analysis, we have computed two scores based on the expected relationships. In all cases, whether the relation exists or not has been checked through visual inspection.
DOI: 10.6084/m9.figshare.c.3615548_d1
title: MOESM4 of Deep metagenome and metatranscriptome analyses of microbial communities affiliated with an industrial biogas fermenter, a cow rumen, and elephant feces reveal major differences in carbohydrate hydrolysis strategies

description: Additional file 4. Compressed rar file containing the bins generated from the biogas fermenter metagenome, part 4 of 4.
DOI: 10.6084/m9.figshare.c.3615548_d2
title: MOESM3 of Deep metagenome and metatranscriptome analyses of microbial communities affiliated with an industrial biogas fermenter, a cow rumen, and elephant feces reveal major differences in carbohydrate hydrolysis strategies

description: Additional file 3. Compressed rar file containing the bins generated from the biogas fermenter metagenome, part 3 of 4.