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RNA Sequencing

RNA sequencing (RNA-Seq) refers to experimental approaches that use next-generation sequencing technologies to profile transcriptomes. To address limitations that come along with the particular design of these techniques, sophisticated computational methods are needed. Our work focuses on the development of tools for data processing (spliced read alignment) as well as tools suitable for quantitative data analysis, with main interest in revealing alternative transcripts and understanding alternative splicing.

Related pages

  • The spliced alignment tool for short reads QPALMA is described here.
  • More information on rQuant, a method for quantitative detection of transcripts, can be found here.
  • We have developed an approach for detecting differential RNA transcript expression call rDiff, detailed here.

People specializing in this area

Graduate Students

Jonas Behr

I am currently working on inference of alternative transcripts from RNA-Seq data using multiple RNA-Seq samples simultaneously.

Alumnae and Alumni

Regina Bohnert, Ph.D.

I have been working on the development of a technique based on quadratic programming, called rQuant, to quantitatively detect alternative and novel transcripts from RNA-Seq data.

Publications