Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
660
datasets available to search
ShareScore release 0.9.0
Dataset results
660 results for “Genome assemblies”
Assemblies generated in the paper "phasebook: haplotype-aware de novo assembly of diploid genomes from long reads"
<p>Assemblies generated in the paper "phasebook: haplotype-aware de novo assembly of diploid genomes from long reads"</p>
Quasipaa spinosa's genome assembly and annotation files
<p>Quasipaa spinosa, an Asian commercial Dicroglossidae species, is noted for the spiny chest of adult male individuals. Here, we report the first chromosomal level Q. spinosa genome employing PacBio long read sequencing and High-through Chromosome Conformation Capture (Hi‐C) technology. The total length of the final assembled genome was 2,839,292,578 bp, with contig N50 of 3.79 Mb and scaffold N50 of 327.44 Mb. Approximately 99.30% of the length of the assembled genome sequences were anchored to 13 chromosomes with the assistance of Hi-C reads. A total of 26,173 protein‐coding genes were predicted, and 95.98% of the genes were functionally annotated. The annotated genes covered a total of 92.10% of the complete vertebrate core gene set according to the BUSCO pipeline evaluation. Approximately 41 million years ago, Q. spinosa began to diverge from its dicroglossid sister taxon Nanorana parkeri. The Q. spinosa genome revealed obvious chromosomal fissions compared with Xenopus tropicalis, which likely represented a specific chromosome evolutionary history within frogs. Population analysis showed that Chinese Q. spinosa could be divided into eastern and western genetic clusters, with the western population showing higher diversity than the eastern population. The effective population size of Q. spinosa showed a continuously decreasing trend from one million years ago to 10,000 years ago. In summary, this study sheds light on Q. spinosa evolution and population differentiation, providing a valuable genomic resource for further biological and genetic studies on this species, and other closely related frog taxa.</p>
Sample datasets for E. coli C-1 genome assembly tutorial
<p>The dataset contains three files:</p> <ol> <li>Illumina_f.fq - forward reads from MiSeq run</li> <li>Illumina_r_fq - reverse reads from MiSeq run</li> <li>minion_2d.fq - Oxford Nanopore 2d reads</li> </ol> <p>Sequencing was done on genomic DNA of E. coli strain C-1 obtained from Yale Stock Center.</p>
Wolbachia genomes assembled from insect hosts generated by the DToL project
<p>This dataset represents the assembly of 110 high-quality complete <em>Wolbachia</em> genomes, from 93 insect species, of which 77 were circular. These genomes are named using the schema Xyz_ToLID_§ where Xyz is the first three letters of the insect order of the host, ToLID is the identifier of the host species, and § indicates the supergroup.</p>
Deepurify: a multi-modal deep language model to remove contamination from metagenome-assembled genomes
<p>The SIM1 testing set.</p>
A chromosome-scale de novo genome assembly of the dwarf tomato variety Micro-Tom
<p>The cultivated tomato (<em>Solanum lycopersicum</em>) is an important crop and model species for genetics and plant molecular biology research. The dwarf tomato variety Micro-Tom is used extensively in research because it is rapid flowering, easy to grow in high volumes in minimal space, and is amenable to genetic transformation. Here we provide a de novo chromosome-scale genome assembly of Micro-Tom that was generated using PacBio HiFi reads and scaffolded using chromosome confirmation capture data. The HiFi data was assembled using the Hifiasm assembler and OmniC data was used for scaffolding using Salsa and several rounds of manual curation and validation.</p>
Brown 23 et al - Metagenome Assembled Genomes from Activated Sludge Bioreactors
<p>in this folder are the gtdb classifications, checkm output, and a fasta file for each MAG</p>
Optical maps refine the bread wheat Triticum aestivum cv Chinese Spring genome assembly
Open the record for dataset details and reuse information.
Blueprint for phasing and assembling the genomes of heterozygous polyploids: Application to the octoploid genome of strawberry
Open the record for dataset details and reuse information.
Data from: De novo sequencing, assembly, and annotation of four threespine stickleback genomes based on microfluidic partitioned DNA libraries
Open the record for dataset details and reuse information.
Chromosome-level genome assembly, annotation and evolutionary analysis of the ornamental plant Asparagus setaceus
Open the record for dataset details and reuse information.
Data from: Remarkably divergent regions punctuate the genome assembly of the Caenorhabditis elegans Hawaiian strain CB4856
Open the record for dataset details and reuse information.
Data from: Chromosome-level genome assembly of the coastal horseshoe crab (Tachypleus gigas)
Open the record for dataset details and reuse information.
Genome assembly of a commercial tomato hybrid (Funtelle) for haplotyping an introgression that confers TMV resistance
Open the record for dataset details and reuse information.
Phased, chromosome-scale genome assemblies of tetraploid potato reveals a complex genome, transcriptome, and predicted proteome landscape underpinning genetic diversity
Open the record for dataset details and reuse information.
Data from: De novo assembly of a chromosome-level reference genome of red spotted grouper (Epinephelus akaara) using nanopore sequencing and Hi-C
Open the record for dataset details and reuse information.
Data from: Assembly and comparative analysis of transposable elements from low coverage genomic sequence data in Asparagales
Open the record for dataset details and reuse information.
Data from: A dense linkage map of Lake Victoria cichlids improved the Pundamilia genome assembly and revealed a major QTL for sex-determination
Open the record for dataset details and reuse information.
Data from: De novo genome assembly and annotation of rice sheath rot fungus Sarocladium oryzae reveals genes involved in Helvolic acid and Cerulenin biosynthesis pathways
Open the record for dataset details and reuse information.
Can functional genomic diversity provide novel insights into mechanisms of community assembly? A pilot-study from an invaded alpine streambed
Open the record for dataset details and reuse information.
ScienceDex guides
Understand access before you commit
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.