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Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of mouse embryonic lung development: time course (C57BL/6J)

ABSTRACT: We generated gene expression profiles of 5 time points in murine lung development (E11.5, E13.5, E14.5, E16.5 and P5). The goal of this study was to establish a reference data set for exploration of large-scale similarities between transcriptomes in development and cancer. Experiment Overall Design: Whole lung expression profiles from C57BL/6J mice at E11.5 (pooled sample), E13.5, E14.5, E16.5 and P5.

ORGANISM(S): Mus musculus

SUBMITTER: Kamila Naxerova

PROVIDER: E-GEOD-11539 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Analysis of gene expression in a developmental context emphasizes distinct biological leitmotifs in human cancers.

Naxerova Kamila K Bult Carol J CJ Peaston Anne A Fancher Karen K Knowles Barbara B BB Kasif Simon S Kohane Isaac S IS

Genome biology 20080708 7

<h4>Background</h4>In recent years, the molecular underpinnings of the long-observed resemblance between neoplastic and immature tissue have begun to emerge. Genome-wide transcriptional profiling has revealed similar gene expression signatures in several tumor types and early developmental stages of their tissue of origin. However, it remains unclear whether such a relationship is a universal feature of malignancy, whether heterogeneities exist in the developmental component of different tumor t ...[more]

PMID: 18611264

Similar Datasets

Murine embryonic lung development: time course (C57BL/6J)

Project description:We generated gene expression profiles of 5 time points in murine lung development (E11.5, E13.5, E14.5, E16.5 and P5). The goal of this study was to establish a reference data set for exploration of large-scale similarities between transcriptomes in development and cancer. Keywords: time course

2008-07-15 | GSE11539 | GEO

Multi-stage analysis of gene expression in C57/B6 mouse liver development

Project description:The liver performs a number of essential functions for life. The development of such a complex organ relies on finely regulated gene expression profiles which change over time in the development and determine the phenotype and function of the liver. We used high-density oligonucleotide microarrays to study the gene expression and transcription regulation at 14 time points across the C57/B6 mouse liver development, which include E11.5 (embryonic day 11.5), E12.5, E13.5, E14.5, E15.5, E16.5, E17.5, E18.5, Day0 (the day of birth), Day3, Day7, Day14, Day21, and normal adult liver. With these data, we made a comprehensive analysis on gene expression patterns, functional preferences and transcriptional regulations during the liver development. Keywords: time course

2008-10-30 | GSE13149 | GEO

Single-cell RNA-seq of the developing C57BL/6 mouse ovary from E11.5 to E14.5

Project description:We profiled a time-course single-cell RNA-seq on C57BL/6 mouse ovary from E11.5 to E14.5 to study the cell population heterogeneity and regulation of meiosis initiation. We collected single cell from XX gonads at E11.5, E12.5, E13.5 and E14.5, and were further captured with 10x Genomics based single-cell system. By using single-cell RNA seq, we recapitulated the progression of meiosis using pseudotime ordering of all germ cells and delineated key molecular network among all germ cell clusters. Besides, we provide candidate meiosis stage-specific master regulons along the progression of meiosis and provide detailed transcriptome profile information for controversial Xist+ PGCs. Our data here offers the opportunity for exploring mechanisms underlying germ cell meiosis progression at single cell resolution.

2020-06-30 | GSE128553 | GEO

Transcription profiling of mouse C57/B6 multistage liver development

2008-11-13 | E-GEOD-13149 | biostudies-arrayexpress

Chronological expression data from mouse skeletal muscle stem cells

Project description:Satellite cells are the primary source of stem cells for skeletal muscle growth and regeneration. Since adult stem cell maintenance involves a fine balance between intrinsic and extrinsic mechanisms, we performed genome-wide chronological expression profiling to identify the transcriptomic changes involved in acquisition of muscle stem cell characteristics. Muscle samples were isolated from the trunk during development, postnatally and in adult and aged Pax3GFP/+ mice. After digestion, GFP cells were purified via FACS and process for RNA extraction and hybridization on Affymetrix microarrays (Affymetrix Mouse Genome 430 2.0 Arrays). The different ages selected for sample isolation were E11.5-E12.5-E13.5-E14.5-E15.5-E17.5-P1-P12-1MO-2MO-18MO (E, Embryonic days; P, Postnatal days; MO, age in months), covering embryonic and fetal progenitors and proliferant, quiescent satellite cells. The eleven stages were done in triplicate for E11.5-E12.5-E14.5-E15.5-1MO-2MO-18MO, twice for E13.5, 4 times for P1-P12 and 5 times for E17.5, so 36 samples included in the microarray.

2016-06-15 | E-GEOD-63860 | biostudies-arrayexpress

Single cell RNA-seq developmental series in mouse hypothalamus in wild-type and Eed-cKO

Project description:Neuronal sub-type diversity in the hypothalamus is staggeringly immense. To investigate the role of epigenetic regulation in hypothalamic development in the generation of this cellular diversity; a floxed Eed allele was crossed to the early, pan-CNS Cre deleter Sox1-Cre, resulting in loss of H3K27me3 in the entire Mus musculus CNS by E11.5. E12.5, E13.5, E15.5, and E16.5 embryonic mouse hypothalamic cells were dissected and analysed by single cell RNA sequencing, on the Illimina/BioRad platform.

2022-02-14 | GSE167921 | GEO

Transcripts with H3K36me3 modification at differente stages of pancreas organogensis [CUT&Tag]

Project description:To find the genes with H3K36me3 modificaiton at different stages of pancreas development, we isolated the pancreatic epithelial cells from E11.5, E13.5 and E15.5 fetal pancreas. Considering the low expression of H3K36me3 at E11.5, E11.5 samples worked as a "negantive" control. By compared with the peaks of E11.5, we was able to find genes under direct regulation of H3K36me3 at E13.5 and E15.5.

2023-12-22 | GSE218737 | GEO

Single-cell analysis RNA sequencing of prenatal and neonatal gonads/ovaries at E11.5, E12.5, E14.5, E16.5, E18.5, P1 and P5

Project description:Single-cell analysis RNA sequencing of prenatal and neonatal gonads/ovaries at E11.5, E12.5, E14.5, E16.5, E18.5, P1 and P5

| PRJNA562536 | ENA

Expression profile analysis of circular RNAs during embryonic lung development of C57BL/6 mice

Project description:Objectives: The contribution of circular RNAs (circRNAs) in the regulation of embryonic lung development is not yet clear. This study aims to uncover the differentially expressed circRNAs in mouse embryonic lung tissue. Methods: High-throughput sequencing (HTS) was used to determine the cirRNA expression profiles at four time points of mouse embryonic lung tissue [embryonic (E) Day 14.5 (E14.5/S1), (E16.5/S2), (E18.5/S3), and newborn (N) Day 7.5 (N7.5/S4)]. CircRNAs that were significantly differential were subjected to bioinformatic analysis and functional prediction for their host genes. Finally, quantitative real-time reverse transcriptase polymerase chain reaction (qRT-PCR) was conducted to examine their levels. Results: Dynamically expressed circRNAs in the mouse embryonic lung tissue were identified. After that, a total of 231 circRNAs differentially expressed between the three groups (S1 vs. S2, S1 vs. S3 and S1 vs. S4) in embryonic lung tissue (fold change ≥ 2.0; p < 0.05). These circRNAs were subjected to bioinformatic analysis to predict their potential biological functions. Finally, six circRNAs (circRNA3_Ttn, circRNA56_Galnt18, circRNA38_Alg12, circRNA42_Filip1l, circRNA43_Ptprm, and circRNA57_Ncoa3) that were further validated using qRT-PCR. Conclusions: These findings illustrate the vital functions of circRNAs in mouse embryonic lung development. Combined with our results and previous researches, circRNAs may serve as potential miRNA sponges in the embryonic lung development. Our research is conducive to further explore the development of embryonic lungs, and the dynamic expressed circRNAs may be novel molecules that regulate mouse lung development.

2019-08-07 | GSE131839 | GEO

Transcription profiling by RNA-Seq mouse embryos

Project description:Mutations in the transcription factor p63 underlie of a series of human malformation syndromes which are defined by a combination of epidermal, limb and craniofacial abnormalities including cleft lip and palate. Transcription profiling was performed to determine the role of p63 in vivo mouse palatal shelves. RNA-seq analysis was done of palatal shelves dissected from E10.5, E11.5, E12.5, E13.5 and E14.5 mouse embryos.

2017-06-12 | E-MTAB-3157 | biostudies-arrayexpress

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