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Single-cell transcriptome sequencing: recent advances and remaining challenges
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title
Single-cell transcriptome sequencing: recent advances and remaining challenges
(English)
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main subject
transcriptome
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author
Serena Liu
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1
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Europe PubMed Central
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4758375
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26949524%20AND%20SRC:MED&resulttype=core&format=json
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1 June 2020
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Cole Trapnell
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Europe PubMed Central
PMCID
4758375
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26949524%20AND%20SRC:MED&resulttype=core&format=json
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1 June 2020
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English
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publication date
2016
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F1000Research
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Europe PubMed Central
PMCID
4758375
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26949524%20AND%20SRC:MED&resulttype=core&format=json
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1 June 2020
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5
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Europe PubMed Central
PMCID
4758375
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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26949524%20AND%20SRC:MED&resulttype=core&format=json
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1 June 2020
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Creative Commons Attribution 4.0 International
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17 February 2016
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April 2022 Public Data File from Crossref
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Single-cell methylome landscapes of mouse embryonic stem cells and early embryos analyzed using reduced representation bisulfite sequencing
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
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28 September 2017
Single-neuron sequencing analysis of L1 retrotransposition and somatic mutation in the human brain
1 reference
stated in
PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
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28 September 2017
DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Single-cell expression analyses during cellular reprogramming reveal an early stochastic and a late hierarchic phase
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
CEL-Seq: single-cell RNA-Seq by multiplexed linear amplification
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
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28 September 2017
Single-cell systems biology by super-resolution imaging and combinatorial labeling
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Digital RNA sequencing minimizes sequence-dependent bias and amplification noise with optimized single-molecule barcodes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Gene network inference and visualization tools for biologists: application to new human transcriptome datasets.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Counting absolute numbers of molecules using unique molecular identifiers
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Synthetic spike-in standards for RNA-seq experiments
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Counting individual DNA molecules by the stochastic attachment of diverse labels
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Transcript amplification from single bacterium for transcriptome analysis
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
A method for counting PCR template molecules with application to next-generation sequencing
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
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28 September 2017
Mammalian genes are transcribed with widely different bursting kinetics
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
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28 September 2017
Genomewide characterization of non-polyadenylated RNAs
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Tracing the derivation of embryonic stem cells from the inner cell mass by single-cell RNA-Seq analysis
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
A brief review on the mechanisms of miRNA regulation
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Digital transcriptome profiling using selective hexamer priming for cDNA synthesis
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Reconstructing gene-regulatory networks from time series, knock-out data, and prior knowledge
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 September 2017
Normalization and noise reduction for single cell RNA-seq experiments
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
Brain structure. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
Deconstructing transcriptional heterogeneity in pluripotent stem cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
Accounting for technical noise in single-cell RNA-seq experiments.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
How to infer gene networks from expression profiles
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
31 May 2018
Single-cell transcriptomics and functional target validation of brown adipocytes show their complex roles in metabolic homeostasis
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 November 2018
SC3-seq: a method for highly parallel and quantitative measurement of single-cell gene expression.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 November 2018
Single-cell gene expression analysis reveals genetic associations masked in whole-tissue experiments
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 November 2018
In situ sequencing for RNA analysis in preserved tissue and cells.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 November 2018
Highly multiplexed and strand-specific single-cell RNA 5' end sequencing.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 November 2018
Reconstructing gene networks: what are the limits?
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 November 2018
Measurement of the Number of Molecules of a Single mRNA Species in a Complex mRNA Preparation
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4758375
retrieved
28 November 2018
Identifiers
DOI
10.12688/F1000RESEARCH.7223.1
1 reference
stated in
Europe PubMed Central
PMCID
4758375
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26949524%20AND%20SRC:MED&resulttype=core&format=json
retrieved
1 June 2020
PMCID
4758375
1 reference
stated in
Europe PubMed Central
PMCID
4758375
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26949524%20AND%20SRC:MED&resulttype=core&format=json
retrieved
1 June 2020
PubMed ID
26949524
1 reference
stated in
Europe PubMed Central
PMCID
4758375
reference URL
https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26949524%20AND%20SRC:MED&resulttype=core&format=json
retrieved
1 June 2020
ResearchGate publication ID
295258784
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