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How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

RNA (Cambridge), 2016-06, Vol.22 (6), p.839-851

2016

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The Spen Family Protein FPA Controls Alternative Cleavage and Polyadenylation of RNA

Developmental cell, 2010-02, Vol.18 (2), p.203-213

2010

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Arabidopsis, the Rosetta Stone of Flowering Time?

Science (American Association for the Advancement of Science), 2002-04, Vol.296 (5566), p.285-289

2002

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The autonomous pathway: epigenetic and post-transcriptional gene regulation in the control of Arabidopsis flowering time

Current opinion in plant biology, 2004-10, Vol.7 (5), p.570-574

Simpson, Gordon G

2004

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Transcription termination and chimeric RNA formation controlled by Arabidopsis thaliana FPA

PLoS genetics, 2013-10, Vol.9 (10), p.e1003867-e1003867

2013

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2passtools: two-pass alignment using machine-learning-filtered splice junctions increases the accuracy of intron detection in long-read RNA sequencing

Genome Biology, 2021-03, Vol.22 (1), p.72-72, Article 72

2021

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U6 snRNA m6A modification is required for accurate and efficient splicing of C. elegans and human pre-mRNAs

Nucleic acids research, 2024-05, Vol.52 (15), p.9139-9160

2024

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Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation

Nature structural & molecular biology, 2012-08, Vol.19 (8), p.845-852

2012

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Inter-species association mapping links splice site evolution to METTL16 and SNRNP27K

eLife, 2023-10, Vol.12

2023

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Crystal Structure of the SPOC Domain of the Arabidopsis Flowering Regulator FPA

PloS one, 2016-08, Vol.11 (8), p.e0160694-e0160694

2016

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Widespread premature transcription termination of Arabidopsis thaliana NLR genes by the spen protein FPA

eLife, 2021-04, Vol.10

2021

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Two zinc finger proteins with functions in m6A writing interact with HAKAI

Nature communications, 2022-03, Vol.13 (1), p.1127-1127, Article 1127

2022

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Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-Seq and ESTs

PloS one, 2014-04, Vol.9 (4), p.e94270-e94270

2014

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Arabidopsis RNA immunoprecipitation

The Plant journal : for cell and molecular biology, 2009-07, Vol.59 (1), p.163-168

2009

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The RNA-binding protein FPA regulates flg22-triggered defense responses and transcription factor activity by alternative polyadenylation

Scientific reports, 2013-10, Vol.3 (1), Article 2866

2013

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Caffeoyl Shikimate Esterase (CSE) Is an Enzyme in the Lignin Biosynthetic Pathway in Arabidopsis

Science (American Association for the Advancement of Science), 2013-09, Vol.341 (6150), p.1103-1106

2013

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Alternative polyadenylation of antisense RNAs and flowering time control

Biochemical Society transactions, 2010-08, Vol.38 (4), p.1077-1081

2010

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The Arabidopsis epitranscriptome

Current opinion in plant biology, 2015-10, Vol.27, p.17-21

2015

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Enter exitrons

Genome Biology, 2015-07, Vol.16 (1), p.136-136, Article 136

2015

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An allelic series reveals essential roles for FY in plant development in addition to flowering-time control

Development (Cambridge), 2005-08, Vol.132 (16), p.3597-3607

2005

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WHEN TO SWITCH TO FLOWERING

Annual review of cell and developmental biology, 1999-01, Vol.15 (1), p.519-550

1999

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Message ends: RNA 3′ processing and flowering time control

Journal of experimental botany, 2014-02, Vol.65 (2), p.353-363

2014

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FY Is an RNA 3′ End-Processing Factor that Interacts with FCA to Control the Arabidopsis Floral Transition

Cell, 2003-06, Vol.113 (6), p.777-787

2003

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How well do RNA-Seq differential gene expression tools perform in a complex eukaryote? A case study in Arabidopsis thaliana

Bioinformatics, 2019-09, Vol.35 (18), p.3372-3377

2019

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How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

The Spen Family Protein FPA Controls Alternative Cleavage and Polyadenylation of RNA

Arabidopsis, the Rosetta Stone of Flowering Time?

The autonomous pathway: epigenetic and post-transcriptional gene regulation in the control of Arabidopsis flowering time

Transcription termination and chimeric RNA formation controlled by Arabidopsis thaliana FPA

2passtools: two-pass alignment using machine-learning-filtered splice junctions increases the accuracy of intron detection in long-read RNA sequencing

U6 snRNA m6A modification is required for accurate and efficient splicing of C. elegans and human pre-mRNAs

Chromosome evolution and the genetic basis of agronomically important traits in greater yam

Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation

Inter-species association mapping links splice site evolution to METTL16 and SNRNP27K

Crystal Structure of the SPOC Domain of the Arabidopsis Flowering Regulator FPA

Widespread premature transcription termination of Arabidopsis thaliana NLR genes by the spen protein FPA

Two zinc finger proteins with functions in m6A writing interact with HAKAI

Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-Seq and ESTs

Arabidopsis RNA immunoprecipitation

The RNA-binding protein FPA regulates flg22-triggered defense responses and transcription factor activity by alternative polyadenylation

Caffeoyl Shikimate Esterase (CSE) Is an Enzyme in the Lignin Biosynthetic Pathway in Arabidopsis

Alternative polyadenylation of antisense RNAs and flowering time control

The Arabidopsis epitranscriptome

Enter exitrons

An allelic series reveals essential roles for FY in plant development in addition to flowering-time control

WHEN TO SWITCH TO FLOWERING

Message ends: RNA 3′ processing and flowering time control

FY Is an RNA 3′ End-Processing Factor that Interacts with FCA to Control the Arabidopsis Floral Transition

How well do RNA-Seq differential gene expression tools perform in a complex eukaryote? A case study in Arabidopsis thaliana

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