Design and computational analysis of single-cell RNA-sequencing experiments (Q26751087)

Europe PubMed Central

19 September 2019

Europe PubMed Central

28 January 2021

Europe PubMed Central

describes a project that uses

8 April 2021

copyright status

copyrighted

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WGCNA

object named as

WGCNA

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/s13059-016-0927-y

0 references

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Single-cell RNA-Seq resolves cellular complexity in sensory organs from the neonatal inner ear.

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Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma

7 April 2017

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Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

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Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments

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Classification of low quality cells from single-cell RNA-seq data

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Parallel single-cell sequencing links transcriptional and epigenetic heterogeneity

28 September 2017

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OEFinder: a user interface to identify and visualize ordering effects in single-cell RNA-seq data

28 September 2017

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Robust detection of alternative splicing in a population of single cells

28 September 2017

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destiny: diffusion maps for large-scale single-cell data in R.

28 September 2017

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MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data

28 September 2017

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SINCERA: A Pipeline for Single-Cell RNA-Seq Profiling Analysis

28 September 2017

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Design and Analysis of Single-Cell Sequencing Experiments

28 September 2017

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ZIFA: Dimensionality reduction for zero-inflated single-cell gene expression analysis

28 September 2017

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Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data

28 September 2017

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Single-cell transcriptomic reconstruction reveals cell cycle and multi-lineage differentiation defects in Bcl11a-deficient hematopoietic stem cells

28 September 2017

1 reference

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Oscope identifies oscillatory genes in unsynchronized single-cell RNA-seq experiments

28 September 2017

1 reference

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Single-Cell RNA-Seq with Waterfall Reveals Molecular Cascades underlying Adult Neurogenesis

28 September 2017

1 reference

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Single-cell messenger RNA sequencing reveals rare intestinal cell types

28 September 2017

1 reference

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QoRTs: a comprehensive toolset for quality control and data processing of RNA-Seq experiments

28 September 2017

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BASiCS: Bayesian Analysis of Single-Cell Sequencing Data

28 September 2017

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Sincell: an R/Bioconductor package for statistical assessment of cell-state hierarchies from single-cell RNA-seq.

28 September 2017

1 reference

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Reconstructing gene regulatory dynamics from high-dimensional single-cell snapshot data

28 September 2017

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A survey of human brain transcriptome diversity at the single cell level

28 September 2017

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Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Diffusion maps for high-dimensional single-cell analysis of differentiation data.

28 September 2017

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The technology and biology of single-cell RNA sequencing

28 September 2017

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Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

28 September 2017

1 reference

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Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells.

28 September 2017

1 reference

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Spatial reconstruction of single-cell gene expression data

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Single cell transcriptome amplification with MALBAC.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Identification of cell types from single-cell transcriptomes using a novel clustering method.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Decoding the regulatory network of early blood development from single-cell gene expression measurements.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Computational and analytical challenges in single-cell transcriptomics

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Bifurcation analysis of single-cell gene expression data reveals epigenetic landscape

28 September 2017

1 reference

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WemIQ: an accurate and robust isoform quantification method for RNA-seq data

28 September 2017

1 reference

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Single-cell analyses of transcriptional heterogeneity during drug tolerance transition in cancer cells by RNA sequencing.

28 September 2017

1 reference

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Detecting and correcting systematic variation in large-scale RNA sequencing data

28 September 2017

1 reference

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Normalization of RNA-seq data using factor analysis of control genes or samples

28 September 2017

1 reference

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Low-coverage single-cell mRNA sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex

28 September 2017

1 reference

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Single cell dissection of early kidney development: multilineage priming

28 September 2017

1 reference

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Single-cell RNA-seq reveals dynamic paracrine control of cellular variation

28 September 2017

1 reference

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Bayesian approach to single-cell differential expression analysis

28 September 2017

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Single-cell RNA sequencing reveals T helper cells synthesizing steroids de novo to contribute to immune homeostasis

28 September 2017

1 reference

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Single-cell trajectory detection uncovers progression and regulatory coordination in human B cell development

28 September 2017

1 reference

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Validation of noise models for single-cell transcriptomics

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4823857

Reconstructing lineage hierarchies of the distal lung epithelium using single-cell RNA-seq

28 September 2017

1 reference

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Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types

28 September 2017

1 reference

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Technical variations in low-input RNA-seq methodologies

28 September 2017

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Quantitative single-cell RNA-seq with unique molecular identifiers

28 September 2017

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Quantitative assessment of single-cell RNA-sequencing methods.

28 September 2017

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Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing

28 September 2017

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Kraken: a set of tools for quality control and analysis of high-throughput sequence data

28 September 2017

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Inferring the kinetics of stochastic gene expression from single-cell RNA-sequencing data

28 September 2017

1 reference

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mRNA-Seq of single prostate cancer circulating tumor cells reveals recapitulation of gene expression and pathways found in prostate cancer

28 September 2017

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Revisiting global gene expression analysis

28 September 2017

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A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis

28 September 2017

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Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing

28 September 2017

1 reference

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CEL-Seq: single-cell RNA-Seq by multiplexed linear amplification

28 September 2017

1 reference

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RNA-SeQC: RNA-seq metrics for quality control and process optimization

28 September 2017

1 reference

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Removing technical variability in RNA-seq data using conditional quantile normalization

28 September 2017

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GC-content normalization for RNA-Seq data

28 September 2017

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Counting absolute numbers of molecules using unique molecular identifiers

28 September 2017

1 reference

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Comprehensive comparative analysis of strand-specific RNA sequencing methods

28 September 2017

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Statistical design and analysis of RNA sequencing data

28 September 2017

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Corrigendum: Characterizing noise structure in single-cell RNA-seq distinguishes genuine from technical stochastic allelic expression

28 September 2017

1 reference

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Normalization and noise reduction for single cell RNA-seq experiments

31 May 2018

1 reference

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Brain structure. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

31 May 2018

1 reference

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The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

31 May 2018

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Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells

31 May 2018

1 reference

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Accounting for technical noise in single-cell RNA-seq experiments.

31 May 2018

1 reference

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SAMstrt: statistical test for differential expression in single-cell transcriptome with spike-in normalization

31 May 2018

1 reference

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Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells

31 May 2018

1 reference

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Whole-exome sequencing for finding de novo mutations in sporadic mental retardation

31 May 2018

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Crossref

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A statistical approach for identifying differential distributions in single-cell RNA-seq experiments

21 January 2018

1 reference

PubMed

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