Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Clustering gene expression time series data using an infinite Gaussian process mixture model

ABSTRACT: Clustering gene expression time series data using an infinite Gaussian process mixture model

PROVIDER: PRJNA413586 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Clustering gene expression time series data using an infinite Gaussian process mixture model

Project description:In order to identify and characterize novel human gene expression responses to glucocorticoids, we exposed the human lung adenocarcinoma cell line, A549, to the synthetic glucocorticoid dexamethasone for 1, 3, 5, 7, 9, and 11 hrs in duration as well as to a paired vehicle control, ethanol. We assayed gene expression with RNA-seq and clustered gene expression profiles using an infinite Gaussian process mixture model.

2017-10-08 | GSE104714 | GEO

Clustering gene expression time series data using an infinite Gaussian process mixture model.

Project description: Not available

| S-EPMC5786324 | biostudies-literature

miRNA expression in a time-series EMT process of 0h, 24h and 96h via next-generation sequencing

Project description:The goal of this study is to explore miRNA expressions in a time-series EMT process of 0h, 24h and 96h.

2019-04-17 | GSE87358 | GEO

A Bayesian mixture model for clustering droplet-based single cell transcriptomic data from population studies

Project description:Abstract: The recently developed droplet-based single cell transcriptome sequencing (scRNA-seq) technology makes it feasible to perform a population-scale scRNA-seq study, in which the transcriptome is measured for tens of thousands of single cells from multiple individuals. Despite the advances of many clustering methods, there are few tailored methods for population-scale scRNA-seq studies. Here, we develop a BAyesian Mixture Model for Single Cell sequencing (BAMM-SC) method to cluster scRNA-seq data from multiple individuals simultaneously. BAMM-SC takes raw count data as input and accounts for data heterogeneity and batch effect among multiple individuals in a unified Bayesian hierarchical model framework. Results from applications of BAMM-SC to in-house experimental scRNA-seq datasets using blood and lung cells from humans or mice demonstrate that BAMM-SC outperformed existing clustering methods with considerable improved clustering accuracy, particularly in the presence of heterogeneity among individuals. Data purpose: To evaluate the performance of BAMM-SC for clustering droplet-based scRNA-seq data in population-based study, we performed single cell RNA-seq on peripheral blood mononuclear cells (PBMC) isolated from whole blood obtained from 4 healthy donors, and on lung cells isolated from streptococcus pneumonia (SP) infected and naïve mice.

2019-03-09 | GSE128066 | GEO

Transcription profiling of E. coli grown on mixture of glucose and lactose in a time series

Project description:Time series analysis of glucose-lactose diauxie; When cultured on a mixture of glucose and lactose, E. coli grows preferentially on glucose until it is exhausted, resulting in growth arrest while the cells adjust to growth on lactose, i.e., diauxie.

2006-11-27 | E-MEXP-918 | biostudies-arrayexpress

au14-11_levure - study of a kinetic answer - Effect of a mixture of molecules stemming from industrial process

Project description:au14-11_levure - study of a kinetic answer - Effect of a mixture of molecules stemming from industrial process - Cells were submitted to products and harveted at time 0, 1 4 and 4 hrs

2017-01-05 | GSE93119 | GEO

Daily ocean time-series

Project description:Daily ocean time-series 2011 at San Pedro Ocean time-series

| PRJEB10834 | ENA

Genomic DNA mixture series in Allele Specific Expression study

2009-08-15 | GSE16504 | GEO

Genomic DNA mixture series in Allele Specific Expression study

Project description:Genomic DNA of Col-0, Van-0 and their mixture at different proportion were labeled using Bioprime randon labeling kit. A total of 16ug labelled products were hybridized to AtSNPtile1. This experiment is to test whether the log allele intensity ratio efficiently detects the allelic variation within targets. Templates include four Col genomic DNA replicates, four Van genomic DNA replicates, three Col and Van 1:1 mixture replicates, and one of each 1:2, 1:3, 1:5, 2:1, 3:1, 5:1 Col and Van mixture. Single chanel. Total 17 samples.

2010-05-06 | E-GEOD-16504 | biostudies-arrayexpress

Eucalyptus xylem diurnal time series

Project description:Eucalyptus xylem diurnal time series

| PRJNA106035 | ENA