Publications

Next-generation RNA Sequencing of Archival Formalin-fixed Paraffin-embedded tissue

rna-seq

Molecular profiling of individual cancers is key to personalised medicine. While sequencing technologies have required stringent sample collection and handling, recent technical advances offer sequencing from tissues collected in routine practice and tissues already stored in archives. In this paper, ...

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RNA-Seq of the Nucleolus Reveals Abundant SNORD44-Derived Small RNAs

rna-seq

Small non-coding RNAs represent RNA species that are not translated to proteins, but which have diverse and broad functional activities in physiological and pathophysiological states. The knowledge of these small RNAs is rapidly expanding in part through the use of ...

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RNA Sequencing Analysis Reveals HeLa Cell Contamination

rna-seq

Nasopharyngeal carcinoma (NPC) cell lines are important model systems for analyzing the complex life cycle and pathogenesis of Epstein-Barr virus (EBV). Using an RNA-seq-based approach, researchers from Tulane University Health Sciences Center found HeLa cell contamination in several NPC cell ...

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International Review of Neurobiology – The Brain Transcriptome

rna-seq

The Brain Transcriptome International Review of Neurobiology – Volume 116, Pages 2-352 (2014) Chapter One – Introduction to Sequencing the Brain Transcriptome Pages 1-19 Robert Hitzemann, Priscila Darakjian, Nikki Walter, Ovidiu Dan Iancu, Robert Searles, Shannon McWeeney Chapter Two – ...

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Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study

rna-seq

High-throughput RNA sequencing (RNA-seq) greatly expands the potential for genomics discoveries, but the wide variety of platforms, protocols and performance capabilitites has created the need for comprehensive reference data. Here the authors describe the Association of Biomolecular Resource Facilities next-generation ...

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Correction of gene expression data: performance-dependency on inter-replicate and inter-treatment biases

rn-seq

This report investigates for the first time the potential inter-treatment bias source of cell number for gene expression studies. Cell-number bias can affect gene expression analysis when comparing samples with unequal total cellular RNA content or with different RNA extraction ...

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Transcriptome Sequencing reveals that species diversity is predictable

rna-seq

Genetic diversity is the amount of variation observed between DNA sequences from distinct individuals of a given species. This pivotal concept of population genetics has implications for species health, domestication, management and conservation. Levels of genetic diversity seem to vary ...

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Transcriptome sequencing uncovers altered long intergenic non-coding RNAs

Long intergenic non-coding RNAs (lncRNAs) represent an emerging and under-studied class of transcripts that play a significant role in human cancers. Due to the tissue- and cancer-specific expression patterns observed for many lncRNAs it is believed that they could serve ...

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Genomic-scale exchange of mRNA between a parasitic plant and its hosts

rna-seq

Movement of RNAs between cells of a single plant is well documented, but cross-species RNA transfer is largely unexplored. Cuscuta pentagona (dodder) is a parasitic plant that forms symplastic connections with its hosts and takes up host messenger RNAs (mRNAs). ...

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Characterization of long non-coding RNA transcriptome in clear-cell renal cell carcinoma by next-generation deep sequencing

rna-seq

Long non-coding RNA (lncRNA) have proven to play key roles in cell physiology from nuclear organization and epigenetic remodeling to post-transcriptional regulation. Last decade, gene expression based-classifications have been developed in clear-cell renal cell carcinoma (ccRCC) to identify distinct subtypes ...

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