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250
datasets available to search
ShareScore release 0.9.0
Dataset results
250 results for “bioinformatics”
Data for bioinformatics practical course (TP) 1 - Whole Genome Sequencing (WGS)
<p>This data are fastq (.fq) files for the Whole Genome Sequencing (WGS) TP1 (09/12/2020) of the Master Infectiologie-Vaccinologie (University of Tours)</p>
Detection of gene function - bioinformatics and molecular methods
<p>On December 28, 2020, we organized the first 1st IPANEMA Invited Scientific Online Lecture. The lecture was held by Mladen Petreš, from the Faculty of Agriculture, University of Novi Sad. Through this lecture, our researchers had a chance to learn more about the detection of gene function - bioinformatics and molecular methods.</p>
Data from: Bioinformatic processing of RAD-seq data dramatically impacts downstream population genetic inference
Restriction site-associated DNA sequencing (RAD-seq) provides high-resolution population genomic data at low cost, and has become an important component in ecological and evolutionary studies. As with all high-throughput technologies, analytic strategies require critical validation to ensure accurate and unbiased interpretation. To test for the impact of bioinformatic data processing on downstream population genetic inferences, we analysed mammalian RAD-seq data (>100 individuals) with 312 combinations of methodology (de novo vs. mapping to references of increasing divergence) and filtering criteria (missing data, HWE, FIS, coverage, mapping, genotype quality). In an effort to identify commonalities and biases in all pipelines, we computed summary statistics (nr. loci, nr. SNP, π, Hetobs, FIS, FST, Ne, m) and compared the results to independent null expectations (isolation-by-distance correlation, expected transition-to-transversion ratio Ts/Tv, Mendelian mismatch rates of known parent-offspring trios). We observed large differences between reference-based and de novo approaches, the former generally calling more SNPs and reducing FIS and Ts/Tv. Data completion levels showed little impact on most summary statistics, and FST estimates were robust across all pipelines. The site-frequency spectrum (SFS) was highly sensitive to the chosen approach as reflected in large variance of parameter estimates across demographic scenarios (single-population bottlenecks and isolation-with-migration model). Null-expectations were best met by reference-based approaches, though contingent on the specific criteria. We recommend RAD-seq studies employ reference-based approaches to a closely related genome, and due to the high stochasticity associated with the pipeline advocate the use of multiple pipelines to ensure robust population genetic and demographic inferences.
Bioinformatic Jobs
<p>This is a list of Bioinformatics Jobs posts in 2015-2016</p>
Extended Data Fig. 2-27 Geographical information of bioinformatic predicted samples based on the analysis of 16S rRNA gene in four PE degrading bacteria
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Automated microbial library generation using the bioinformatics platform IDBac
<p>Data and code to reproduce analyses and figures </p>
An overview of bioinformatics, genomics and transcriptomics resources for bryophytes. Supplemental data
<p>supplemental data file 1 - bryophyte transcriptomes</p>
Network Pharmacology-based Approach combined with Bioinformatic Analytics to Elucidate the Potential of Curcumol Against Hepatocellular Carcinoma
<p>File S1: Expression distribution of common targets; File S2: GSEA result of common targets, File S3: Rare data for top 10 most enriched GO terms in biological process, cellular component, and molecular function of common targets, File S4: Rare data for KEGG enrichment result of common targets, File S5: Rare data for cluster classification performed by MCODE, File S6: Rare data for GO terms and KEGG pathways enrichment analyses of cluster 1 and cluster 2, File S7: Prognosis-related genes, Table S1: Putative targets of curcumol.</p>
Data files for Bioinformatics Tutorial May 2024
<p>These files are for use in a bioinformatics tutorial on the Galaxy platform.</p>
Bioinformatics Analysis from Shaw Lab for Neault et al. Cell Reports. 2023
<p>Shaw lab data associated with <span><span>PMID: </span><strong>37716355. </strong></span></p> <p><span><strong><a href="https://pubmed.ncbi.nlm.nih.gov/?sort=date&term=Neault+M&cauthor_id=37716355">Mathieu Neault</a> et al. Cell Reports. 2023</strong></span></p> <p><span><strong>Files were copied from the NetworkBiology Server</strong></span></p>
Interview Data: Bioinformatician role, Melbourne Bioinformatics, Question 4
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Interview Data: Bioinformatician role, Melbourne Bioinformatics
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Supplementary Figure 1 for "A Bioinformatics Protocol for Quickly Creating Large-Scale Phylogenetic Trees"
<p>Supplementary Figure 1 for "A Bioinformatics Protocol for Quickly Creating Large-Scale Phylogenetic Trees"</p>
Structural and bioinformatics analyses identify deoxydinucleotide-specific nucleases
<p>the raw data of MALS in csv format, enzyme kinetics assays from plate reader, thermostabilization assay via nDSF in .xlsx format as well as raw pictures of Western Blots and PAGEs.</p>
Supplementary Materials for Discovery of Hub Genes and Construction of Competitive Endogenous RNA Network in Human Cytomegalovirus Infection Using Computational and Bioinformatics Tools
<p><span>Table S1: List of targeted genes by 41 differentially expressed microRNAs (DEMs) agreed in Targetscan and miRDB; Table S2: Significant biological process (BP) of 144 genes associated with Human Cytomegalovirus (HCMV); Table S3: Significant cellular components (CC) of 144 genes associated with HCMV; Table S4: Enriched molecular function (MF) of 144 genes associated with HCMV; Table S5: Pathways significantly affected by 144 genes in HCMV; Figure S1: Number of interactions for each gene in protein-protein interaction (PPI) network.</span></p>
Zein protein bioinformatic studies dataset
<p>Input,parameter, movie files of Zein Protein Bioinformatics structural and conformational MD Simulation studies</p>
Post-bioinformatic methods to identify and reduce the prevalence of artefacts in metabarcoding data
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iValiD-TB: A fully characterized Mycobacterium tuberculosis dataset for antimicrobial resistance bioinformatics workflow validations
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Data from: Bioinformatic processing of RAD-seq data dramatically impacts downstream population genetic inference
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Raw data for comparison of bioinformatics pipelines for Diatom DNA metabarcoding for ecological assessment
<p>This archive contains the raw .fatsq files for 29 samples from water bodies (lakes and rivers) located in Nordic countries (Sweden, Finland, Norway) sequenced on Illumina MiSeq, with the 18S-V4 marker and with the <em>rbc</em>L marker. For both marker two separate datasets are provided, containing the F and R fragments ( R1 and R2). The samples tags and primer sequences are also provided.</p> <p>The archive also contains the custom curated reference database used for the taxonomic identification using bioinformatics pipeline. For both marker, two files are provided: an .rarl file with the sequences and sequence ID and a .tax file with the taxonomic information associated. </p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.