(Q60921456)

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Single-Cell Sequencing of iPSC-Dopamine Neurons Reconstructs Disease Progression and Identifies HDAC4 as a Regulator of Parkinson Cell Phenotypes

scientific article published on 29 November 2018

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scholarly article

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30503143%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Single-Cell Sequencing of iPSC-Dopamine Neurons Reconstructs Disease Progression and Identifies HDAC4 as a Regulator of Parkinson Cell Phenotypes (English)

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10 April 2020

molecular medicine

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0 references

Parkinson's disease

1 reference

based on heuristic

inferred from title

single cell transcriptomics

1 reference

A curated database reveals trends in single-cell transcriptomics

https://www.nxn.se/single-cell-studies/data.tsv

7 February 2021

3

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10 April 2020

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10 April 2020

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10 April 2020

Sally A. Cowley

12

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10 April 2020

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Moustafa Attar

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10 April 2020

author name string

Charmaine Lang

1

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10 April 2020

Kieran R Campbell

2

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10 April 2020

Phillippa Carling

4

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10 April 2020

Jane Vowles

6

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10 April 2020

Olga V Perestenko

7

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10 April 2020

Fahd Baig

9

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10 April 2020

Meike Kasten

10

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10 April 2020

Caleb Webber

13

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10 April 2020

Richard Wade-Martins

14

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10 April 2020

language of work or name

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publication date

29 November 2018

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10 April 2020

external data available at URL

https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-7303

1 reference

A curated database reveals trends in single-cell transcriptomics

https://www.nxn.se/single-cell-studies/data.tsv

11 February 2021

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30503143%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

24

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Europe PubMed Central

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10 April 2020

1

1 reference

Europe PubMed Central

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10 April 2020

93-106.e6

1 reference

Europe PubMed Central

PMC publication ID

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10 April 2020

describes a project that uses

1 reference

A curated database reveals trends in single-cell transcriptomics

7 February 2021

https://www.nxn.se/single-cell-studies/data.tsv

1 reference

A curated database reveals trends in single-cell transcriptomics

https://www.nxn.se/single-cell-studies/data.tsv

7 February 2021

object named as

DESeq2

1 reference

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

0 references

Accuracy of clinical diagnosis of idiopathic Parkinson's disease: a clinico-pathological study of 100 cases

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Ageing and Parkinson's disease: substantia nigra regional selectivity

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Symptoms and duration of the prodromal phase in Parkinson's disease.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evidence of functional zinc deficiency in Parkinson's disease

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Neuronal activity-dependent nucleocytoplasmic shuttling of HDAC4 and HDAC5.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gaucher disease with parkinsonian manifestations: does glucocerebrosidase deficiency contribute to a vulnerability to parkinsonism?

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The journey: Parkinson's disease

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Intracellular trafficking of histone deacetylase 4 regulates neuronal cell death.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Induction of pluripotent stem cells from adult human fibroblasts by defined factors

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

PP2A regulates HDAC4 nuclear import

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

p66Shc, oxidative stress and aging: importing a lifespan determinant into mitochondria

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gaucher disease: mutation and polymorphism spectrum in the glucocerebrosidase gene (GBA).

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A C-terminal mutation of ATP1A3 underscores the crucial role of sodium affinity in the pathophysiology of rapid-onset dystonia-parkinsonism

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gene ontology analysis for RNA-seq: accounting for selection bias

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dopamine neurons derived from human ES cells efficiently engraft in animal models of Parkinson's disease

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Disease-specific phenotypes in dopamine neurons from human iPS-based models of genetic and sporadic Parkinson's disease.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

HDAC4 governs a transcriptional program essential for synaptic plasticity and memory

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Tasquinimod Is an Allosteric Modulator of HDAC4 survival signaling within the compromised cancer microenvironment

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Cohort Profile: a population-based cohort to study non-motor symptoms in parkinsonism (EPIPARK).

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Efficient, long term production of monocyte-derived macrophages from human pluripotent stem cells under partly-defined and fully-defined conditions

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Smart-seq2 for sensitive full-length transcriptome profiling in single cells.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The influence of age and gender on motor and non-motor features of early Parkinson's disease: initial findings from the Oxford Parkinson Disease Center (OPDC) discovery cohort

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Glucocerebrosidase mutations and the pathogenesis of Parkinson disease

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Long-term survival and biomarker correlates of tasquinimod efficacy in a multicenter randomized study of men with minimally symptomatic metastatic castration-resistant prostate cancer

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Improved workflows for high throughput library preparation using the transposome-based Nextera system

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

HDAC4 reduction: a novel therapeutic strategy to target cytoplasmic huntingtin and ameliorate neurodegeneration

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Parkinson's disease-associated human ATP13A2 (PARK9) deficiency causes zinc dyshomeostasis and mitochondrial dysfunction

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

iPSC-derived neurons from GBA1-associated Parkinson's disease patients show autophagic defects and impaired calcium homeostasis.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Unbiased functional clustering of gene variants with a phenotypic-linkage network

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

HISAT: a fast spliced aligner with low memory requirements

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Protein Phosphatase 2A Inhibition with LB100 Enhances Radiation-Induced Mitotic Catastrophe and Tumor Growth Delay in Glioblastoma.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

ER Stress and Autophagic Perturbations Lead to Elevated Extracellular α-Synuclein in GBA-N370S Parkinson's iPSC-Derived Dopamine Neurons.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

HDAC and PI3K Antagonists Cooperate to Inhibit Growth of MYC-Driven Medulloblastoma

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Near-optimal probabilistic RNA-seq quantification

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Randomized, Double-Blind, Placebo-Controlled Phase III Study of Tasquinimod in Men With Metastatic Castration-Resistant Prostate Cancer

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Pseudotime estimation: deconfounding single cell time series

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Diffusion pseudotime robustly reconstructs lineage branching

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Functional Impairment in Miro Degradation and Mitophagy Is a Shared Feature in Familial and Sporadic Parkinson's Disease

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The Transcriptional Changes of trim Genes Associated with Parkinson's Disease on a Model of Human Induced Pluripotent Stem Cells

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

switchde: inference of switch-like differential expression along single-cell trajectories

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Scater: pre-processing, quality control, normalization and visualization of single-cell RNA-seq data in R

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Transcriptomic profiling of purified patient-derived dopamine neurons identifies convergent perturbations and therapeutics for Parkinson's disease

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

SC3: consensus clustering of single-cell RNA-seq data

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Decreased circulating Zinc levels in Parkinson's disease: a meta-analysis study

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

MAPT Genetic Variation and Neuronal Maturity Alter Isoform Expression Affecting Axonal Transport in iPSC-Derived Dopamine Neurons.

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Excess α-synuclein compromises phagocytosis in iPSC-derived macrophages

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gene co-expression network analysis for identifying genetic markers in Parkinson's disease - a three-way comparative approach

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

1 reference

https://pubmed.ncbi.nlm.nih.gov/30503143

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1016/J.STEM.2018.10.023

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30503143%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30503143%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30503143%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

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