(Q55483551)

12 July 2018

title

zUMIs - A fast and flexible pipeline to process RNA sequencing data with UMIs. (English)

1 reference

12 July 2018

Swati Parekh

1

0 references

Beate Vieth

Beate Vieth

3

0 references

Christoph Ziegenhain

Christoph Ziegenhain

2

0 references

Wolfgang Enard

4

Wolfgang Enard

1 reference

12 July 2018

Ines Hellmann

5

Ines Hellmann

1 reference

12 July 2018

publication date

1 June 2018

1 reference

12 July 2018

published in

GigaScience

1 reference

12 July 2018

volume

7

1 reference

12 July 2018

issue

6

1 reference

12 July 2018

Creative Commons Attribution 4.0 International

copyright license

start time

26 May 2018

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

limma

limma

2 references

22 June 2022

https://europepmc.org/article/PMC/6007394

based on heuristic

inferred from PubMed Central ID database lookup

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

powsimR: power analysis for bulk and single cell RNA-seq experiments.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Massively parallel single-nucleus RNA-seq with DroNc-seq

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

A comparative strategy for single-nucleus and single-cell transcriptomes confirms accuracy in predicted cell-type expression from nuclear RNA.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Normalizing single-cell RNA sequencing data: challenges and opportunities

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Selecting between-sample RNA-Seq normalization methods from the perspective of their assumptions

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Power analysis of single-cell RNA-sequencing experiments

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Comparative Analysis of Single-Cell RNA Sequencing Methods.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Massively parallel digital transcriptional profiling of single cells

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Single-cell barcoding and sequencing using droplet microfluidics

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Revealing the vectors of cellular identity with single-cell genomics

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

The impact of amplification on differential expression analyses by RNA-seq

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Adult mouse cortical cell taxonomy revealed by single cell transcriptomics

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Design and Analysis of Single-Cell Sequencing Experiments

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Analysis of intronic and exonic reads in RNA-seq data characterizes transcriptional and post-transcriptional regulation.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

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

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

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

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

STAR: ultrafast universal RNA-seq aligner

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Mapping the Mouse Cell Atlas by Microwell-Seq.

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

STRT-seq-2i: dual-index 5' single cell and nucleus RNA-seq on an addressable microwell array

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Spatial reconstruction of single-cell gene expression data

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Validation of noise models for single-cell transcriptomics

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

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

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Entering the era of single-cell transcriptomics in biology and medicine

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

voom: Precision weights unlock linear model analysis tools for RNA-seq read counts

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Extensive oscillatory gene expression during C. elegans larval development.

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Quantitative single-cell RNA-seq with unique molecular identifiers

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Counting absolute numbers of molecules using unique molecular identifiers

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Bias, robustness and scalability in single-cell differential expression analysis

12 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6007394

Quantitative single-cell transcriptomics

30 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/29846586

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/GIGASCIENCE/GIY059

1 reference

12 July 2018

PMC publication ID

6007394

1 reference

12 July 2018

PubMed publication ID

29846586

1 reference

12 July 2018