(Q33558324)

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Strand-specific RNA-Seq reveals widespread and developmentally regulated transcription of natural antisense transcripts in Plasmodium falciparum

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8 March 2020

Strand-specific RNA-Seq reveals widespread and developmentally regulated transcription of natural antisense transcripts in Plasmodium falciparum (English)

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8 March 2020

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Plasmodium falciparum

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based on heuristic

inferred from title

Tim Nicolai Siegel

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8 March 2020

José Juan López-Rubio

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8 March 2020

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Chung-Chau Hon

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8 March 2020

Qinfeng Zhang

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8 March 2020

Christine Scheidig-Benatar

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8 March 2020

Rafael M Martins

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8 March 2020

Odile Sismeiro

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8 March 2020

Jean-Yves Coppée

8

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8 March 2020

Artur Scherf

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8 March 2020

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22 February 2014

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8 March 2020

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8 March 2020

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8 March 2020

150

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8 March 2020

describes a project that uses

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EdgeR

1 reference

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

https://scigraph.springernature.com/pub.10.1186/1471-2164-15-150

0 references

Quantification of stochastic noise of splicing and polyadenylation in Entamoeba histolytica

1 reference

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21 June 2018

Two long non-coding RNAs generated from subtelomeric regions accumulate in a novel perinuclear compartment in Plasmodium falciparum.

1 reference

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21 June 2018

Strand-specific RNA-seq applied to malaria samples

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Optimizing Illumina next-generation sequencing library preparation for extremely AT-biased genomes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

A global transcriptional analysis of Plasmodium falciparum malaria reveals a novel family of telomere-associated lncRNAs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Noncoding RNAs in gene regulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

RNA-Seq analysis of splicing in Plasmodium falciparum uncovers new splice junctions, alternative splicing and splicing of antisense transcripts

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

H2A.Z demarcates intergenic regions of the plasmodium falciparum epigenome that are dynamically marked by H3K9ac and H3K4me3

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Comprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

HMMSplicer: a tool for efficient and sensitive discovery of known and novel splice junctions in RNA-Seq data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Comprehensive comparative analysis of strand-specific RNA sequencing methods

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

New class of gene-termini-associated human RNAs suggests a novel RNA copying mechanism

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Universal features of post-transcriptional gene regulation are critical for Plasmodium zygote development

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

To localize or not to localize: mRNA fate is in 3'UTR ends

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Pervasive transcription constitutes a new level of eukaryotic genome regulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Regulatory roles of natural antisense transcripts

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Transcriptome analysis by strand-specific sequencing of complementary DNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Molecular genetics and comparative genomics reveal RNAi is not functional in malaria parasites

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Bidirectional promoters generate pervasive transcription in yeast

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Chromatin associated sense and antisense noncoding RNAs are transcribed from the var gene family of virulence genes of the malaria parasite Plasmodium falciparum

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Mapping and quantifying mammalian transcriptomes by RNA-Seq

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Antisense RNA stabilization induces transcriptional gene silencing via histone deacetylation in S. cerevisiae.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Antisense transcription controls cell fate in Saccharomyces cerevisiae

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Transcriptional interference--a crash course

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

PfMyb1, a Plasmodium falciparum transcription factor, is required for intra-erythrocytic growth and controls key genes for cell cycle regulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Global analysis of transcript and protein levels across the Plasmodium falciparum life cycle

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

The transcriptome of the intraerythrocytic developmental cycle of Plasmodium falciparum

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Discovery of gene function by expression profiling of the malaria parasite life cycle

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Genome sequence of the human malaria parasite Plasmodium falciparum

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Transcriptional collision between convergent genes in budding yeast.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Characterisation and expression of a PP1 serine/threonine protein phosphatase (PfPP1) from the malaria parasite, Plasmodium falciparum: demonstration of its essential role using RNA interference

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Natural antisense RNA inhibits the expression of BCMA, a tumour necrosis factor receptor homologue

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Plasmodium falciparum possesses a cell cycle-regulated short type replication protein A large subunit encoded by an unusual transcript

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Serial analysis of gene expression in Plasmodium falciparum reveals the global expression profile of erythrocytic stages and the presence of anti-sense transcripts in the malarial parasite

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Heterogeneity in polyadenylation cleavage sites in mammalian mRNA sequences: implications for SAGE analysis.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Lineage-specific loss and divergence of functionally linked genes in eukaryotes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

21 June 2018

Widespread distribution of antisense transcripts in the Plasmodium falciparum genome

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-15-150

21 January 2018

Identification of mRNA polyadenylation sites in genomes using cDNA sequences, expressed sequence tags, and Trace.

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-15-150

21 January 2018

RNA polymerase II synthesizes antisense RNA in Plasmodium falciparum

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-15-150

21 January 2018

Inhibition of Plasmodium falciparum clag9 gene function by antisense RNA.

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-15-150

21 January 2018

RNA interference (RNAi) inhibits growth of Plasmodium falciparum

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-15-150

21 January 2018

Double-stranded RNA-mediated gene silencing of cysteine proteases (falcipain-1 and -2) of Plasmodium falciparum

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-15-150

21 January 2018

Analysis of short RNAs in the malaria parasite and its red blood cell host.

1 reference

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21 January 2018

Optimal enzymes for amplifying sequencing libraries.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

31 October 2018

Nuclear non-coding RNAs are transcribed from the centromeres of Plasmodium falciparum and are associated with centromeric chromatin.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4007998

31 October 2018

Identifiers

10.1186/1471-2164-15-150

1 reference

Europe PubMed Central

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8 March 2020

Dimensions Publication ID

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2164-15-150

9 September 2019

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Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24559473%20AND%20SRC:MED&resulttype=core&format=json

8 March 2020

1 reference

Europe PubMed Central

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8 March 2020

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