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.
38
datasets available to search
ShareScore release 0.9.0
Dataset results
38 results for “chromosomal integration”
Supplementary data for the paper "Visual integration of omics data to improve 3D models of fungal chromosomes"
<ul> <li>13 parameter files (*.YML) used by the 3DGB workflow to produce models of 3D genomes.</li> <li>13 3D genomes structures (*.PDB).</li> <li>4 animated GIF of representative structures.</li> <li>1 XLSX file that lists raw (Hi-C and ChIP-seq) data used in this study and the associated analysis.</li> </ul>
Supporting information for: Integrating morphological, molecular, and cytogenetic data for F2 sea turtle hybrids diagnosis revealed balanced chromosomal sets
<p><span>Hybridization could be considered part of the evolutionary history of many species. The hybridization among sea turtle species on the Brazilian coast is atypical and occurs where nesting areas and reproductive seasons overlap. Integrated analysis of morphology and genetics is still scarce, and there is no evidence of the parental chromosome set distribution in sea turtle interspecific hybrids. In this study, chromosome markers previously established for pure sea turtle species were combined with morphological and molecular analyses aiming to recognize genetic composition and chromosome sets in possible interspecific hybrids initially identified by mixed morphology. The data showed that one hybrid could be an F<sub>2</sub> individual among <em>Caretta caretta </em>× <em>Eretmochelys</em> <em>imbricata</em> × <em>Chelonia</em> <em>mydas</em>, and another is resulting from backcross between <em>C. caretta </em>× <em>Lepidochelys</em> <em>olivacea</em>. Native alleles of different parental lineages were reported in the hybrids, and, despite this, it was verified that the hybrid chromosome sets were still balanced. Thus, how sea turtle hybridism can affect genetic features in the long term is a concern, as the implications of the crossing-over in hybrid chromosomal sets and the effects on genetic function are still unpredictable. </span></p>
Supporting information for: Integrating morphological, molecular, and cytogenetic data for F2 sea turtle hybrids diagnosis revealed balanced chromosomal sets
Open the record for dataset details and reuse information.
Data from: Chromosome-level genome assembly of a cyprinid fish Onychostoma macrolepis by integration of Nanopore Sequencing, Bionano and Hi-C technology
<p><i>Onychostoma macrolepis</i> is an emerging commercial cyprinid fish species. It is a model system for studies of sexual dimorphism and genome evolution. Here, we report the chromosome-level assembly of the<i> O.macrolepis</i> genome obtained from the integration of Nanopore long-read sequencing with physical maps produced using Bionano and Hi-C technology. A total of 87.9 Gb of Nanopore sequence provided approximately 100-fold coverage of the genome. The preliminary genome assembly was 883.2 Mb in size with a contig N50 size of 11.2 Mb. The 969 corrected contigs obtained from Bionano optical mapping were assembled into 853 scaffolds and produced an assembly of 886.5 Mb with a scaffold N50 of 16.5 Mb. Finally, using the Hi-C data, 881.3 Mb (99.4% of genome) in 526 scaffolds were anchored and oriented in 25 chromosomes ranging in size from 25.27 to 56.49 Mb. In total, 24,770 protein-coding genes were predicted in the genome, and ~96.85% of the genes were functionally annotated. The annotated assembly contains 93.3% complete genes from the BUSCO reference set. In addition, we identified 409 Mb (46.23% of the genome) of repetitive sequence, and 11,213 non-coding RNAs, in the genome. Evolutionary analysis revealed that <i>O.macrolepis</i> diverged from common carp approximately 24.25 million years ago. The chromosomes of <i>O.macrolepis</i> showed an unambiguous correspondence to the chromosomes of zebrafish. The high-quality genome assembled in this work provides a valuable genomic resource for further biological and evolutionary studies of <i>O. macrolepis</i>.</p>
Fig. 4 Chromosome pair 6 bearing 5S in Integrated analysis reveals a new species of Corydoras Lacépède, 1803 (Siluriformes: Callichthyidae) in the lower Iguassu River, Brazil
Fig. 4 Chromosome pair 6 bearing 5S (red) and 18S (green) rDNA showing the synteny of these sites. In the first line is C. carlae and in the second line is Corydoras sp
Data from: Chromosome-level genome assembly of a cyprinid fish Onychostoma macrolepis by integration of Nanopore Sequencing, Bionano and Hi-C technology
Open the record for dataset details and reuse information.
Data from: Introgression maintains the genetic integrity of the sex-determining chromosome of the fungus Neurospora tetrasperma
Genome evolution is driven by a complex interplay of factors, including selection, recombination, and introgression. The regions determining sexual identity are particularly dynamic parts of eukaryotic genomes that are prone to molecular degeneration associated with suppressed recombination. In the fungus Neurospora tetrasperma, it has been proposed that this molecular degeneration is counteracted by the introgression of non-degenerated DNA from closely related species. In this study, we used comparative and population genomic analyses of variation among 92 genomes from eight phylogenetically and reproductively isolated lineages of N. tetrasperma, and its three closest relatives, to investigate the factors shaping the evolutionary history of the genomes. We found that suppressed recombination extends across at least 6 Mbp (~63%) of the mating-type (mat) chromosome in N. tetrasperma, and is associated with decreased genetic diversity, which is likely the result primarily of selection at linked sites. Furthermore, analyses of molecular evolution revealed an increased mutational load in this region, relative to recombining regions. However, comparative genomic and phylogenetic analyses indicate that the mat chromosomes are temporarily regenerated via introgression from sister species; six out of eight lineages show introgression into one of their mat chromosomes, with at least three other Neurospora species acting as donors. The introgressed tracts have been driven to fixation in lineages, suggesting that they confer an adaptive advantage in natural populations, and our analyses support the presence of selective sweeps in at least one of the lineages. Thus, these data strongly support the previously hypothesized role of introgression as a mechanism for the maintenance of mating-type determining chromosomal regions.
Data from: Introgression maintains the genetic integrity of the sex-determining chromosome of the fungus Neurospora tetrasperma
Open the record for dataset details and reuse information.
Atr maintains chromosomal integrity during postnatal cerebellar neurogenesis [RNA-Seq]
GEO Series GSE83720. Mus musculus. 17 samples. Type: Expression profiling by high throughput sequencing.
Integration of human adipocyte chromosomal interactions with adipose gene expression prioritizes obesity-related genes from GWAS
GEO Series GSE110619. Homo sapiens. 1 samples. Type: Other.
Atr maintains chromosomal integrity during postnatal cerebellar neurogenesis [Affymetrix]
GEO Series GSE85393. Mus musculus. 12 samples. Type: Expression profiling by array.
Uniform, integration-free iPS cells with a safeguard system using human artificial chromosome vectors
GEO Series GSE29441. Mus musculus. 16 samples. Type: Expression profiling by array.
Higher-order chromatin structures of chromosomally-integrated HHV-6A predict Integration Sites
GEO Series GSE162821. Human betaherpesvirus 6; Homo sapiens; Human betaherpesvirus 6A. 7 samples. Type: Other; Expression profiling by high throughput sequencing.
Comparative and integrated functional genomics analysis of Klinefelter and Turner syndromes reveals network-wide effects of the sex chromosome dosage changes
GEO Series GSE126712. Homo sapiens. 70 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Other.
Chromatin profiles of chromosomally integrated human herpesvirus-6A [RNA-seq]
GEO Series GSE121984. Homo sapiens; Human betaherpesvirus 6A. 10 samples. Type: Expression profiling by high throughput sequencing.
Heterochromatin integrity affects chromosome reorganization after centromere dysfunction
GEO Series GSE10287. Schizosaccharomyces pombe. 23 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Chromatin profiles of chromosomally integrated human herpesvirus-6A
GEO Series GSE121987. Homo sapiens; Human betaherpesvirus 6A. 28 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
Cohesin and CTCF control chromosomal contact dynamics in living cells [integration sites]
GEO Series GSE197237. Mus musculus. 4 samples. Type: Other.
INTEGRATIVE ONCOGENOMIC AND HIGH-THROUGHPUT SEQUENCING ANALYSES OF THE COMMONLY DELETED REGION IN CHROMOSOME 7q32 IN SPLENIC MARGINAL ZONE LYMPHOMA
GEO Series GSE35383. Homo sapiens. 148 samples. Type: Genome variation profiling by array; Expression profiling by array; SNP genotyping by SNP array; Genome variation profiling by SNP array.
INTEGRATIVE ONCOGENOMIC AND HIGH-THROUGHPUT SEQUENCING ANALYSES OF THE COMMONLY DELETED REGION IN CHROMOSOME 7q32 IN SPLENIC MARGINAL ZONE LYMPHOMA (CGH)
GEO Series GSE35367. Homo sapiens. 76 samples. Type: Genome variation profiling by array.
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.