Ontology highlight
ABSTRACT:
PROVIDER: PRJNA760937 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:In order to study the effect of polyploidization on gene expression in the leaves of Eucalyptus urophylla, triploid obtained by sexual polyploidization and its diploid control were used as materials, and leaves at different growth stages of different ploidies were collected for transcriptome sequencing.
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Project description:This study intends to explore the clinicopathological characteristics and survival prognosis of locally recurrent colorectal cancer patients with different treatment modes by retrospectively analyzing the medical records of locally recurrent colorectal cancer patients who received hospitalization in our center. Transcriptome sequencing and public databases were used to screen for molecular markers related to locally recurrent colorectal cancer and to explore molecular markers’ regulatory role in the progression of locally recurrent colorectal cancer.
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Project description:We performed transcriptome assembly and gene expression analysis using short-read sequencing technology combined with a tag-based digital gene expression (DGE) system. The results generated a total number of 13,288,892 reads (accumulated length of 1,196,000,280 nt), 169,579 contings and 23,796 unigenes. Based on similarity search with known proteins, a total of 9,398 unigenes were identified with a cut-off E-value of 10-5. Assembled sequences were annotated with gene descriptions, such as gene ontology (GO) and clusters of orthologous group terms (COG). In addition, we obtained approximately 6 million raw tags and a larger number of genes at different fermentation stages (48 h, 100 h and 144 h). The related genes of growth characteristic and lipid biosynthesis were analyzed in detail. Some genes associated with the lipid biosynthesis were selected randomly to confirm digital gene expression (DGE) results by quantitative real-time PCR (qRT-PCR). The transcriptome improves our genetic understanding of Pythium splendens RBB-5 greatly and makes a large number of available gene sequences for further study. Notably, the transcriptome and DGE profiling data of Pythium splendens RBB-5 provide the comprehensive insight into gene expression profiles at different fermentation stages and lay a foundation for further study of optimizing lipid content and growth speed at the molecular level.
2014-12-30 | GSE43320 | GEO
Project description:The garlic landrace of ‘Chalingzipisuan’ was used for transcriptome analysis. The axillary bud of garlic is at the base of clove, whereas the storage leaf at the upper clove provides essential nutrition for the germination and seedling growth. Therefore, the basal and storage clove were ere separately performed for RNA sequencing from the bulbs under three different developmental stages (i.e., enlarging growth, dormancy, and germination), generating in total 77-85 million reads.
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Project description:IKIAM Natural Products Lab studies metabolites in different growth stages of U. sagittifolia tubers.
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Project description:IKIAM Natural Products Lab studies metabolites in different growth stages of U. sagittifolia tubers.
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Project description:Complex molecular programs in specific cell lineages govern human heart development. Hypoplastic left heart syndrome (HLHS) is the most severe congenital heart defect encompassing a spectrum of left-ventricular hypoplasia occurring in association with outflow-tract obstruction. The current clinical paradigm assumes HLHS is largely of hemodynamic origin. Here, by combining whole-exome sequencing of 87 HLHS parent-offspring trios and transcriptome of cardiomycytes (CMs) from healthy and patient native ventricles at different stages of development we identified perturbations in coherent gene programs controlling ventricular muscle lineage development. Single-cell and 3D molecular/functional modeling with iPSCs demonstrated intrinsic defects in the cell-cycle/ciliogenesis/autophagy hub resulting in disrupted differentiation of early cardiac progenitor (CP) lineages and ultimate defective CM-subtype differentiation/maturation in HLHS. Moreover, premature cellcycle exit of ventricular CM prevents tissue response to cues of developmental growth leading to multinucleation/polyploidy, accumulation of DNA damage, exacerbated apoptosis, and eventually ventricle hypoplasia. Our results highlight how genetic heterogeneity in HLHS converges in perturbations of sequential cellular processes driving cardiogenesis and facilitate potential novel nodes for therapy beside surgical intervention.
2022-02-15 | PXD014812 | Pride