List of works - Ann E. Loraine

A Comparison of transgenic and wild type soybean seeds: analysis of transcriptome profiles using RNA-Seq

scientific article published on October 2015

A protocol for visual analysis of alternative splicing in RNA-Seq data using integrated genome browser

scientific article (publication date: 2014)

An 'eFP-Seq Browser' for visualizing and exploring RNA sequencing data

scientific article published on 23 August 2019

Analysis and visualization of RNA-Seq expression data using RStudio, Bioconductor, and Integrated Genome Browser

scientific article

Analysis of pollen-specific alternative splicing in Arabidopsis thaliana via semi-quantitative PCR.

scientific article published on 28 April 2015

Cell-specific cis-natural antisense transcripts (cis-NATs) in the sperm and the pollen vegetative cells of Arabidopsis thaliana.

scientific article

Characterization of the cytokinin-responsive transcriptome in rice

scientific article

Commonality of functional annotation: a method for prioritization of candidate genes from genome-wide linkage studies

scientific article published on 7 February 2008

Comparisons of computational methods for differential alternative splicing detection using RNA-seq in plant systems

scientific article

Consistency analysis of redundant probe sets on affymetrix three-prime expression arrays and applications to differential mRNA processing

scientific article

Coordination of Chloroplast Development through the Action of the GNC and GLK Transcription Factor Families

scientific article published on 12 July 2018

CressExpress: a tool for large-scale mining of expression data from Arabidopsis

scientific article

Cytokinin induces genome-wide binding of the type-B response regulator ARR10 to regulate growth and development in Arabidopsis.

scientific article published on 3 July 2017

Exploring alternative transcript structure in the human genome using blocks and InterPro

scientific article published in July 2003

Genome of Mycoplasma arthritidis

scientific article published on 23 June 2008

Genome-wide characterization of differential transcript usage in Arabidopsis thaliana

scientific article published on 14 October 2017

Genoviz Software Development Kit: Java tool kit for building genomics visualization applications

scientific article

Integrated genome browser: visual analytics platform for genomics

scientific article published on 16 March 2016

Large-scale transposon mutagenesis of Mycoplasma pulmonis

scientific article

Many rice genes are differentially spliced between roots and shoots but cytokinin has minimal effect on splicing

scientific article published on 17 May 2019

Mining Arabidopsis thaliana RNA-seq data with Integrated Genome Browser reveals stress-induced alternative splicing of the putative splicing regulator SR45a

scientific article

NetAffx: Affymetrix probesets and annotations

scientific article

Prevalence of alternative splicing choices in Arabidopsis thaliana

scientific article

ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins

scientific article published on 07 April 2016

Protein-based analysis of alternative splicing in the human genome.

scientific article

RNA-Seq Links the Transcription Factors AINTEGUMENTA and AINTEGUMENTA-LIKE6 to Cell Wall Remodeling and Plant Defense Pathways.

scientific article published on 20 May 2016

RNA-Seq analysis and annotation of a draft blueberry genome assembly identifies candidate genes involved in fruit ripening, biosynthesis of bioactive compounds, and stage-specific alternative splicing

scientific article

RNA-seq of Arabidopsis pollen uncovers novel transcription and alternative splicing

scientific article published on 16 April 2013

Structure-based comparison of four eukaryotic genomes.

scientific article published in January 2002

The Arabidopsis transcription factor AINTEGUMENTA orchestrates patterning genes and auxin signaling in the establishment of floral growth and form

scientific article published on 12 April 2020

The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets

scientific article

Visualization techniques for genomic data.

scientific article

Visualizing the genome: techniques for presenting human genome data and annotations

scientific article

List of works by Ann E. Loraine

A Comparison of transgenic and wild type soybean seeds: analysis of transcriptome profiles using RNA-Seq

A protocol for visual analysis of alternative splicing in RNA-Seq data using integrated genome browser

An 'eFP-Seq Browser' for visualizing and exploring RNA sequencing data

Analysis and visualization of RNA-Seq expression data using RStudio, Bioconductor, and Integrated Genome Browser

Analysis of pollen-specific alternative splicing in Arabidopsis thaliana via semi-quantitative PCR.

Cell-specific cis-natural antisense transcripts (cis-NATs) in the sperm and the pollen vegetative cells of Arabidopsis thaliana.

Characterization of the cytokinin-responsive transcriptome in rice

Commonality of functional annotation: a method for prioritization of candidate genes from genome-wide linkage studies

Comparisons of computational methods for differential alternative splicing detection using RNA-seq in plant systems

Consistency analysis of redundant probe sets on affymetrix three-prime expression arrays and applications to differential mRNA processing

Coordination of Chloroplast Development through the Action of the GNC and GLK Transcription Factor Families

CressExpress: a tool for large-scale mining of expression data from Arabidopsis

Cytokinin induces genome-wide binding of the type-B response regulator ARR10 to regulate growth and development in Arabidopsis.

Exploring alternative transcript structure in the human genome using blocks and InterPro

Genome of Mycoplasma arthritidis

Genome-wide characterization of differential transcript usage in Arabidopsis thaliana

Genoviz Software Development Kit: Java tool kit for building genomics visualization applications

Integrated genome browser: visual analytics platform for genomics

Large-scale transposon mutagenesis of Mycoplasma pulmonis

Many rice genes are differentially spliced between roots and shoots but cytokinin has minimal effect on splicing

Mining Arabidopsis thaliana RNA-seq data with Integrated Genome Browser reveals stress-induced alternative splicing of the putative splicing regulator SR45a

NetAffx: Affymetrix probesets and annotations

Prevalence of alternative splicing choices in Arabidopsis thaliana

ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins

Protein-based analysis of alternative splicing in the human genome.

RNA-Seq Links the Transcription Factors AINTEGUMENTA and AINTEGUMENTA-LIKE6 to Cell Wall Remodeling and Plant Defense Pathways.

RNA-Seq analysis and annotation of a draft blueberry genome assembly identifies candidate genes involved in fruit ripening, biosynthesis of bioactive compounds, and stage-specific alternative splicing

RNA-seq of Arabidopsis pollen uncovers novel transcription and alternative splicing

Structure-based comparison of four eukaryotic genomes.

The Arabidopsis transcription factor AINTEGUMENTA orchestrates patterning genes and auxin signaling in the establishment of floral growth and form

The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets

Visualization techniques for genomic data.

Visualizing the genome: techniques for presenting human genome data and annotations