Systematic evaluation of RNA quality, microarray data reliability and pathway analysis in fresh, fresh frozen and formalin-fixed paraffin-embedded tissue samples

The Reactome Pathway Knowledgebase

(2017) Antonio Fabregat et al.   NUCLEIC ACIDS RESEARCH

RNA extraction for RNA sequencing of archival renal tissues

(2016) Lea Landolt et al.   SCANDINAVIAN JOURNAL OF CLINICAL & LABORATORY INVESTIGATION

Straightforward and sensitive RT-qPCR based gene expression analysis of FFPE samples

(2016) Fjoralba Zeka et al.   Scientific Reports

Transcriptome Sequencing (RNAseq) Enables Utilization of Formalin-Fixed, Paraffin-Embedded Biopsies with Clear Cell Renal Cell Carcinoma for Exploration of Disease Biology and Biomarker Development

(2016) Oystein Eikrem et al.   PLoS One

Regulation of astrocyte activation by glycolipids drives chronic CNS inflammation

(2014) Lior Mayo et al.   NATURE MEDICINE

Accurate Data Processing Improves the Reliability of Affymetrix Gene Expression Profiles from FFPE Samples

(2014) Maurizio Callari et al.   PLoS One

Quantitative assessment of short amplicons in FFPE-derived long-chain RNA

(2014) Hui Kong et al.   Scientific Reports

Disease-specific molecular events in cortical multiple sclerosis lesions

(2013) Marie Therese Fischer et al.   BRAIN

The Reactome pathway knowledgebase

(2013) David Croft et al.   NUCLEIC ACIDS RESEARCH

Gene Expression, Single Nucleotide Variant and Fusion Transcript Discovery in Archival Material from Breast Tumors

(2013) Nadine Norton et al.   PLoS One

NADPH oxidase expression in active multiple sclerosis lesions in relation to oxidative tissue damage and mitochondrial injury

(2012) Marie T. Fischer et al.   BRAIN

Prospects of Transcript Profiling for mRNAs and MicroRNAs Using Formalin-Fixed and Paraffin-Embedded Dissected Autoptic Multiple Sclerosis Lesions

(2012) Sylvia Eisele et al.   BRAIN PATHOLOGY

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

The Effect of Formaldehyde Fixation on RNA

(2011) David L. Evers et al.   JOURNAL OF MOLECULAR DIAGNOSTICS

Gene Expression Profiles from Formalin Fixed Paraffin Embedded Breast Cancer Tissue Are Largely Comparable to Fresh Frozen Matched Tissue

(2011) Lorenza Mittempergher et al.   PLoS One

Comparison of gene expression profiling by reverse transcription quantitative PCR between fresh frozen and formalin-fixed, paraffin-embedded breast cancer tissues

(2010) Iker Sánchez-Navarro* et al.   BIOTECHNIQUES

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Identification of methods for use of formalin-fixed, paraffin-embedded tissue samples in RNA expression profiling

(2009) Lisa Roberts et al.   GENOMICS

Optimization of RNA extraction from FFPE tissues for expression profiling in the DASL assay

(2008) Mark Abramovitz et al.   BIOTECHNIQUES