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399
datasets available to search
ShareScore release 0.9.0
Dataset results
399 results for “gene family”
Epigenetic evolution of the Ly49 gene family [Bisulfite-Seq]
GEO Series GSE226500. Mus musculus. 8 samples. Type: Methylation profiling by high throughput sequencing.
The B-cell CLL/lymphoma 7 (BCL7) protein family members drive gene expression changes via interactions with the Brahma Related Gene 1 (BRG1) Helicase-Sant Associated domain (HSA) domain [24 hours]
GEO Series GSE188726. Homo sapiens. 36 samples. Type: Expression profiling by high throughput sequencing.
Conservation and innovation in the DUX4-family gene network [MMH6 RNA-Seq]
GEO Series GSE93167. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
Family case report: C14orf132 gene is possibly related to IUGR and extremely low birth weight
GEO Series GSE85013. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing.
The effect on gene expression by p53 family members and the knockdown of AKR1B10
GEO Series GSE47096. Homo sapiens. 8 samples. Type: Expression profiling by array.
Gene body methylation patterns in Daphnia are associated with gene family size
GEO Series GSE60475. Daphnia pulex; Daphnia magna. 6 samples. Type: Methylation profiling by high throughput sequencing.
Altered regulation and expression of genes by BET family of proteins in alveolar macrophages from COPD patients
GEO Series GSE92532. Homo sapiens. 83 samples. Type: Expression profiling by high throughput sequencing.
Data from: Birth-and-death evolution of the fatty acyl-CoA reductase (FAR) gene family and diversification of cuticular hydrocarbon synthesis in Drosophila
The birth-and-death evolutionary model proposes that some members of a multigene family are phylogenetically stable and persist as a single copy over time whereas other members are phylogenetically unstable and undergo frequent duplication and loss. Functional studies suggest that stable genes are likely to encode essential functions, while rapidly evolving genes reflect phenotypic differences in traits that diverge rapidly among species. One such class of rapidly diverging traits are insect cuticular hydrocarbons (CHCs), which play dual roles in chemical communications as short-range recognition pheromones as well as protecting the insect from desiccation. Insect CHCs diverge rapidly between related species leading to ecological adaptation and/or reproductive isolation. Because the CHC and essential fatty acid biosynthetic pathways share common genes, we hypothesized that genes involved in the synthesis of CHCs would be evolutionary unstable, while those involved in fatty acid-associated essential functions would be evolutionary stable. To test this hypothesis, we investigated the evolutionary history of the fatty acyl-CoA reductases (FARs) gene family that encodes enzymes in CHC synthesis. We compiled a unique dataset of 200 FAR proteins across 12 Drosophila species. We uncovered a broad diversity in FAR content which is generated by gene duplications, subsequent gene losses, and alternative splicing. We also show that FARs expressed in oenocytes and presumably involved in CHC synthesis are more unstable than FARs from other tissues. Taken together, our study provides empirical evidence that a comparative approach investigating the birth-and-death evolution of gene families can identify candidate genes involved in rapidly diverging traits between species.
Data from: Genome-wide analysis of the ATP-binding cassette (ABC) transporter gene family in sea lamprey and Japanese lamprey
Background: Lampreys are extant representatives of the jawless vertebrate lineage that diverged from jawed vertebrates around 500 million years ago. Lamprey genomes contain information crucial for understanding the evolution of gene families in vertebrates. The ATP-binding cassette (ABC) gene family is found from prokaryotes to eukaryotes. The recent availability of two lamprey draft genomes from sea lamprey Petromyzon marinus and Japanese lamprey Lethenteron japonicum presents an opportunity to infer early evolutionary events of ABC genes in vertebrates. Results: We conducted a genome-wide survey of the ABC gene family in two lamprey draft genomes. A total of 37 ABC transporters were identified and classified into seven subfamilies; namely seven ABCA genes, 10 ABCB genes, 10 ABCC genes, three ABCD genes, one ABCE gene, three ABCF genes, and three ABCG genes. The ABCA subfamily has expanded from three genes in sea squirts, seven and nine in lampreys and zebrafish, to 13 and 16 in human and mouse. Conversely, the multiple copies of ABCB1-, ABCG1-, and ABCG2-like genes found in sea squirts have contracted in the other species examined. ABCB2 and ABCB3 seem to be new additions in gnathostomes (not in sea squirts or lampreys), which coincides with the emergence of the gnathostome-specific adaptive immune system. All the genes in the ABCD, ABCE and ABCF subfamilies were conserved and had undergone limited duplication and loss events. In the sea lamprey transcriptomes, the ABCE and ABCF gene subfamilies were ubiquitously and highly expressed in all tissues while the members in other gene subfamilies were differentially expressed. Conclusions: Thirteen more lamprey ABC transporter genes were identified in this study compared with a previous study. By concatenating the same gene sequences from the two lampreys, more full length sequences were obtained, which significantly improved both the assignment of gene names and the phylogenetic trees compared with a previous analysis using partial sequences. The ABC gene subfamilies in chordates have undergone obvious expansion or contraction. The ABCA subfamily showed the highest gene expansion rate during chordate evolution. The evolution of ABC transporters in lampreys requires further evaluation because the present results are based on a draft genome.
Archaea and Frankia gene family alignments and associated scripts
<p>Biological datasets (gene family alignments from Archaea and Frankia) associated with the manuscript titled "A systematic assessment of phylogenomic approaches for microbial species tree reconstruction" by S. Weiner, Y. Feng, J. P. Gogarten, and M. S. Bansal. A preprint of the manuscript is available from: <span>https://doi.org/10.1101/2024.11.20.624597</span></p>
Fig. 1 in Karyotype characterization of Mugil incilis Hancock, 1830 (Mugiliformes: Mugilidae), including a description of an unusual co-localization of major and minor ribosomal genes in the family
Fig. 1. Giemsa-stained karotype of Mugil incilis. Scale bar = 10 micron.
Screening Protocol for a Gene Therapy Trial in Subjects With Homozygous Familial Hypercholesterolemia
ClinicalTrials.gov study NCT03018678. IPD Sharing: YES. Countries: 1. Publications: 0.
Research for Associated Genes for Gastric Cancer in Family Member With Affected First-Degree Relatives
ClinicalTrials.gov study NCT03486574. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Familial Intrahepatic Cholestasis-related Genes Associated with Disease Susceptibility in Hepato-biliary Cancers
ClinicalTrials.gov study NCT06777914. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Study on Susceptibility Genes and Pathogenic Mechanism of Non-syndromic Familial Aortic Dissection
ClinicalTrials.gov study NCT04439565. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Identifying Gene Mutations in Patients With Melanoma and in Families With a History of Hereditary Melanoma
ClinicalTrials.gov study NCT00450593. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Hypospadias and Exome: Identification of New Genes for Familial Hypospadias
ClinicalTrials.gov study NCT02495090. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Controlled Ceasing of Colchicine Therapy in Familial Mediterranean Fever (FMF) Patients With Single MEFV (Mediterranean Fever) Gene Mutation
ClinicalTrials.gov study NCT02175589. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Azithromycin Treatment for Readthrough of APC Gene Stop Codon Mutations in Familial Adenomatous Polyposis
ClinicalTrials.gov study NCT04454151. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
The Roles of SAH Gene Family in Athrogenic Dyslipidemia in Postmenopausal Women
ClinicalTrials.gov study NCT00945217. IPD Sharing: Not stated. Countries: 1. Publications: 0.
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.