Our lab focuses on the interplay of coding and non-coding RNAs, such as the novel class of circular RNAs in heart disease.

Moreover, we develop new computational tools that can be used by other researchers in their field of interest.

Join Our Team!

We are looking for a Research Associate, Master’s, and PhD students.

We have open positions, contact us!

News

New bioinformatics course this fall semester

The new bioinformatics course (CTS 505, see teaching) serves as an introductory exploration into the fundamental principles, algorithms, and practical application of bioinformatics in hypothesis-driven research spanning basic and translational domains. The curriculum encompasses key protein and nucleotide alignment algorithms like BLAST and Smith-Waterman, essential public databases, RNA biology, and various approaches for DNA and RNA sequencing.

New circRNA benchmarking study shows circtools' high accuracy

A new, large-scale circRNA detection benchmarking studies has just been published in Nature Methods, including our circtools circRNA detection suite. The study is the largest to date including 16 circRNA detection tools. The paper is a very good read for everyone interested in optimizing circRNA detection accuracy and efficacy.

New paper published

Vivien Kmietczyk from the lab of Mirko Völkers in Heidelberg, Germany just published her newest paper, “Ythdf2 regulates cardiac remodeling through its mRNA target transcripts” in the Journal of Molecular and Cellular Cardiology! Congratulations! In the study we found that m6A the reader protein Ythdf2 controls cardiac function and identified a novel mechanism how reader proteins control gene expression and cardiac function.

Tobias receives career development grant

The University of Arizona Health Sciences Career Development Awards program recently selected Tobias as one of its five 2023 recipients.

Our lab will investigate the potential of this circRNA as a signature molecule, or a biomarker, which can be used to help physicians monitor the presence or progression of atrial fibrillation from a single blood sample. This new circRNA-based biomarker may provide us with a non-invasive and efficient way to detect atrial fibrillation early and potentially develop personalized therapies tailored to an individual’s unique genetic profile.

ABRC grant supports our RNA research

The lab received a research grant from the Arizona Biomedical Research Centre to examine the roles of different Ribonucleic acid (RNA) species in cardiovascular diseases. In our quest to find novel RNAs for therapeutic and diagnostic purposes the lab will also continue to work on the development of computational methods that can be used by other researchers with the goal of identifying diseases as early as possible.

Our lab was one of eight from the college to be awarded a grant by the Arizona Department of Health Services, Arizona Biomedical Research Commission. In total, $2.8 million in grants were awarded over a three-year period.

Research

Circular RNAs
Circular RNAs (circRNAs) are a novel class of RNAs that usually originate from within genes and are unique due to their circularity. The lab studies effects of circRNAs in the healthy and diseased heart and develops software for circRNA research.
Circular RNAs
circtools
Circtools is a software for circRNA research that covers the complete workflow of circRNA of detection, analysis, primer and siRNA design for follow-up wet lab experiments.
SARUMAN
SARUMAN is a software to align short sequencing reads against a genomic reference. To speed up the normally time-consuming alignment an NVIDIA graphics card is used exploit the massive parallel architecture of new graphics processing units (GPUs).

Teaching

CTS 505 - Introduction to Bioinformatics
The new bioinformatics course (CTS 505) serves as an introductory exploration into the fundamental principles, algorithms, and practical application of bioinformatics in hypothesis-driven research spanning basic and translational domains.

Principal Investigator

Dr. Jakobi is bioinformatician trained with an emphasis on the interconnection of wet lab research and computational research. His academic and research training included eukaryotic biology, genome research, and wet lab training in addition to comprehensive training in theoretical and applied bioinformatics to allow the fluent communication between wet lab and bioinformatics.

I am working as Assistant Professor in the Department of Internal Medicine and in the new Translational Cardiovascular Research Center (TCRC) at The University of Arizona College of Medicine – Phoenix .

Interests
  • Computational RNA biology
  • Bioinformatics
  • Networks and functions of RNAs in the heart
  • Systems cardiology
  • High performance computing
Education
  • Dr. rer. nat. in Bioinformatics, 2014

    Bielefeld University, Germany

  • MSc in Bioinformatics & Genome Research, 2009

    Bielefeld University, Germany

  • BSc in Bioinformatics & Genome Research, 2007

    Bielefeld University, Germany

The Team

Principal Investigator

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Tobias Jakobi

Assistant Professor

Computational RNA biology, Bioinformatics, Networks and functions of RNAs in the heart, Systems cardiology, High performance computing

Lab Members

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Cecily Haskell

Research Professional

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Maybe You?

We are looking for a Postdoctoral Research Associate, Master’s and PhD students.

Research Administration

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Bernadine Sadauskas

Director of Operations

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Tina Allen

Administrative Associate

Selected publications

Click for full list of publications

The full publication list can also be found in the NCBI Bibliography.

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