Team

rensow_2013

Lab retreat to MeckPom 2016

 

As in the previous three years the group went to the idyllic Gutshaus Rensow in Mecklenburg-Vorpommern in September to enjoy stimulating scientific discussions in a beautiful setting.

 

(Click on the picture for a larger version)

 

Nikolaus Rajewsky

Head of the Group

 

Contact information:

E-mail: rajewsky at mdc-berlin dot de

 

 

Evgeniia Afanasieva

Postdoctoral Researcher

Contact information:

E-mail: evgeniia dot afanaseva at mdc-berlin dot de

Phone: +49 30 9406 2972

Start date:

December 2014

 

Funding:

HFSP

"Role of circRNAs in the development of C.elegans"

salah

Salah Ayoub

Technician

Contact information:

E-mail: salah dot ayoub at mdc-berlin dot de

Phone: +49 30 9406 2973

Start date:

December 2008

 

Funding:

MDC

"I am mainly involved in Planaria projects, implementing diverse techniques (RNAi, injections, FACS, etc.). My tasks include lab organization; monitoring and establishment of lab processes, implementation and optimization of protocols, data generation and verification, import/export of biological materials, purchasing of supplies, contact to commercial representatives, management of equipment, next-generation sequencing (NGS) technologies, maintenance of animals (S. mediterranea, C. elegans), and running internal databases (development and administration)."

 

Anastasiya Boltengagen

Technician

Contact information:

E-mail: anastasiya dot boltengagen at mdc-berlin dot de

Phone: +49 30 9406 2972

Start date:

November 2014

 

Funding:

DFG

"research statement to follow"

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Andrei Filipchyk

Ph.D. Student

Contact information:

E-mail: andrei dot filipchyk at mdc-berlin dot de

Phone: +49 30 9406 4267

Start date:

August 2012

 

Funding:

DZHK

"I work on post-transcriptional gene regulation, specifically on RNA-RNA interactions. I computationally recover them from new generation sequencing data, which triggers my side interest in data processing, data filtering and machine learning. My major aim is a discovery of RNA-RNA interactions networks, relevant for both homeostatic and pathological processes."

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Jonathan Fröhlich

Ph.D. Student

Contact information:

E-mail: jonathan dot froehlich at mdc-berlin dot de

Phone: +49 30 9406 2996

Start date:

January 2014

 

Funding:

MDC

"I am investigating the biological role of regulatory elements in RNA.  For this, I work with the roundworm C. elegans and establish methods for efficient genome editing."

elef22

Petar Glazar

Ph.D. Student

Contact information:

E-mail: petar dot glazar at mdc-berlin dot de

Phone: +49 30 9406 3044

Start date:

November 2013

 

Funding:

DEEP

"My research focuses on understanding the biogenesis and functions of circRNAs, particularly in early neurogenesis. I am also developing methods and tools for circRNA analysis and quantification from RNA-seq data."

maggy

Margareta Herzog

Lab Manager

Contact information:

E-mail: margareta dot herzog at mdc-berlin dot de

Phone: +49 30 9406 2972 (lab), -2973 (lab)

Start date:

March 2011

 

Funding:

MDC

 

Cledi Cerda Jara

Ph.D. Student

Contact information:

E-mail: cledi dot cerdajara at mdc-berlin dot de

Phone: +49 30 9406 2972

Start date:

February 2016

 

Funding:

MDC Graduate School

"research statement to follow"

marvin

Marvin Jens

Postdoctoral Reseacher

Contact information:

E-mail: marvin dot jens at mdc-berlin dot de

Phone: +49 30 9406 2989

Start date:

October 2013

 

Funding:

MDC

"I studied physics in cologne and joined the computational team of the lab as a PhD student in 2009. Besides developing tools for stringent filtering and analysis of high-throughput data, I also study theoretical aspects of gene regulation. I am particularly interested in the flow of information between the transcriptome as a whole and RNA-binding proteins and small RNAs, and how to reconstruct details of these interactions."

 

Nikolaos Karaiskos

Postdoctoral Researcher

Contact information:

E-mail: nikolaos dot karaiskos at mdc-berlin dot de

Phone: +49 30 9406 2993

Start date:

February 2015

 

Funding:

DFG

"Theoretical aspects of single-cell gene expression. Investigation of tumor heterogeneity."

 

Filippos Klironomos

Postdoctoral Researcher

Contact information:

E-mail: filippos dot klironomos at mdc-berlin dot de

Phone: +49 30 9406 2992

Start date:

November 2013

 

Funding:

DEEP

"My background is in theoretical condensed matter physics. My research in biology started by investigating stochastic fluctuations in the cell, enabled by a fast evolving single-cell sequencing technology. I am focused currently on the properties and functions of non-coding RNAs, like microRNAs or lincRNAs. I am interested particularly in identifying novel types of small RNAs that are found processed by Dicer and loaded on Argonautes, e.g. the promoter associated small RNAs, and in inferring possible functional roles for them using an integrative systems biology framework of analysis. Parallel to my research, I develop computational and statistical methods tailored to analyze the high-throughput data generated by projects of our lab."

 

Luisa Schreyer

Technician

Contact information:

E-mail: luisa dot maier at mdc-berlin dot de

Phone: +49 30 9406 2973

Start date:

September 2011

 

Funding:

DFG

Sebastian Memczak

Sebastian Memczak

almost Postdoctoral Researcher

Contact information:

E-mail: sebastian dot memczak at mdc-berlin dot de

Phone: +49 30 9406 2973

Start date:

September 2011

 

Funding:

DFG

"circRNA biology and functions."

 

Panagiotis Papavasileiou

Ph.D. Student

Contact information:

E-mail: panagiotis dot papavasileiou at mdc-berlin dot de

Phone: +49 30 9406 2991

Start date:

August 2013

 

Funding:

MDC NYU Exchange programme

"In order to improve the understanding of biogenesis and function of circular RNAs, I am working on their screening in a variety of organisms and cell cultures. In particular, I'm interested in the impact of circular RNAs in development and differentiation of D. melanogaster."

 

Monika Piwecka

Postdoctoral Researcher

Contact information:

E-mail: monika dot piwecka at mdc-berlin dot de

Phone: +49 30 9406 2972

Start date:

February 2015

 

Funding:

MDC

"research statement to follow"

 

Marta Rodriguez-Orejuela

Ph.D. Student

Contact information:

E-mail: marta dot rodriguez at mdc-berlin dot de

Phone. +49 30 9406 2979

Start date:

July 2013

 

Funding:

Helmholtz

"I am interested in post-transcriptional regulation in stem cells and differentiation, with a main focus on 3'UTR dynamics and regulation. I use computational methods to integrate high-throughput data in the in vivo stem cell system planaria to study these processes."

agnieszka

Agnieszka Rybak-Wolf

Postdoctoral Researcher

Contact information:

E-mail: agnieszka dot rybak at mdc-berlin dot de

Phone: +49 30 9406 2972

Start date:

October 2009

 

Funding:

BIH

"I am interested in the circular RNAs expression, biogenesis and function in mammalian brain. A particular focus is on investigating their possible role in the control of neuronal identity and regulation of  adult neurogenesis."

jordiWS

Marcel Schilling

Ph.D. Student

Contact information:

E-mail: marcel dot schilling  at mdc-berlin dot de

Phone: +49 30 9406 4267

Start date:

November 2013

 

Funding:

DFG (as of 01/2016)

"I am interested in the post-transcriptional code, with a focus on small RNAs. In silico prediction of miRNA genes and target sites have been challenging tasks for computational biologists over the last years. I am trying to identify small regulatory RNAs and the mechanisms underlying their function based on sequencing data. Using this knowledge I want to help understanding disease pathogenesis, particularly the transition from acute to chronic inflammation."

jordiWS

Jordi Solana Garcia

Postdoctoral Researcher

Contact information:

E-mail: jordi dot solana at mdc-berlin dot de

Phone: +49 30 9406 2973

Start date:

April 2011

 

Funding:

DFG/MDC

"I am interested in the regulation of stem cells from an evolutionary point of view. I use planarians as an illustrating model since they have totipotent stem cells –neoblasts– that drive their tissue homeostasis and their striking regeneration capabilities. Planarians also offer an evolutionary point of view to discern the conservation of these mechanisms in other metazoans, including vertebrates."

 

Mireya Plass Portulas

Postdoctoral Researcher

Contact information:

E-mail: mireya dot plassportulas at mdc-berlin dot de

Phone: +49 30 9406 4248

Start date:

January 2016

 

Funding:

MDC

"research statement to follow"

 

Samantha Praktiknjo

Postdoctoral Researcher

Contact information:

E-mail: samantha dot praktiknjo at mdc-berlin dot de

Phone: +49 30 9406 3027

Start date:

February 2016

 

Funding:

MDC

"research statement to follow"

kathrin4 2010

Christin Stottmeister

Ph.D. Student

Contact information:

E-mail: christin dot stottmeister at mdc-berlin dot de

Phone: +49 30 9406 2973

Start date:

April 2014

 

Funding:

Boehringer Ingelheim

"My aim is to elucidate the role of circular RNAs in neuronal differentiation and disease. Therefore I use human cell culture in gain- and loss-of-function studies, as well as pulldown approaches."

kathrin4 2010

Kathrin Theil

Ph.D. Student

Contact information:

E-mail: kathrin dot theil at mdc-berlin dot de

Phone: +49 30 9406 2972

Start date:

September 2010

 

Funding:

MDC (as of 01/2016)

"I am interested in the role of RNA-binding proteins (RBPs) in posttranscriptional gene regulation. My research centres on i) the mechanisms underlying translational control by RBPs and on ii) competition effects in posttranscriptional gene regulation. To address my questions, I employ cell culture and transgenics in C. elegans combined with high-throughput methods like mass spectrometry and transcriptome-wide methods like PAR-CLIP."

 

Alex Tschernycheff

Administration

Contact information:

E-mail: tschernycheff at mdc-berlin dot de

Phone: +49 30 9406 2999

Fax: +49 30 9406 3068

Start date:

May 2006

 

Funding:

MDC

 

Marco Uhrig

Ph.D. Student

Contact information:

E-mail: marco dot uhrig at mdc-berlin dot de

Phone: +49 30 9406 2996

Fax: +49 30 9406 3068

Start date:

February 2015

 

Funding:

MDC Graduate School

"My PhD project is dealing with coding and regulatory functions of small open reading frames (ORFs) that are evolutionary conserved in animals. In order to elucidate their uncharacterized properties and the functional role of encoded micropeptides, I am using a combination of computational and experimental approaches including genome engineering via CRISPR/Cas9 in both cell lines and model organisms."

 

Vera Zywitza

Ph.D. Student

Contact information:

E-mail: vera dot zywitza at mdc-berlin dot de

Phone: +49 30 9406 2973

Fax: +49 30 9406 3068

Start date:

April 2014

 

Funding:

MDC

"My research centers on the question how stem cells are regulated post transcriptionally. Therefore, I study RNA-protein interactions in the stem cell model system S. mediterranea."

Associated PI

christine3 230312

Christine Kocks

Associate PI

Contact information:

E-mail: christine dot kocks at mdc-berlin dot de

Phone: +49 30 9406 3537

Start date:

January 2012

 

Funding:

MDC

"I am interested in systems biology approaches to study gene regulation in tissue development, repair and regeneration. I will use C. elegans and Planaria as model systems and try to apply or refine genetic techniques for the microscopic tracking of individual RNA-protein complexes. In close collaboration with the Rajewsky lab I hope to uncover evolutionarily conserved mechanisms that will further our understanding of human stem cells and cancer."

Max Delbrueck Fellowship

Benedikt Obermayer

Max Delbrueck Fellow

Contact information:

E-mail: benedikt dot obermayer at mdc-berlin dot de

Phone: +49 30 9406 2970

Start date:

December 2012

 

Funding:

MDC

"We study coding and regulatory functions of conserved small ORFs in animals by means of computational and experimental approaches."

Former Lab Members

Catherine Adamidi

was a Senior Scientist in our lab and after that in Tom Tuschl's lab. Catherine is back in Berlin now.

Current address:

Berlin

 

Kevin Chen

was a Postdoc in our lab

is now Assistant Professor with his own group

Current address:

Rutgers University, New York, USA

 

Antigoni Elefsinioti

was a Postdoc in our lab

is now a Postdoc at Bayer Health Care

Current address:

Bayer Health Care, Berlin, Germany

 

Marc Friedländer

was a Ph.D. student and for a time a Postdoc in our lab and subsequently an EMBO PostDoc with Roderic Guigo

is now Assistant Professor in RNA Biology at Stockholm University

Current Address:

Stockholm University, Science for Life Laboratory, Solna, Sweden

 

Stefanie Grosswendt

was a Ph.D. Student in our lab and worked shortly as a Postdoc in our lab, is now working for the BMBF

Current address:

BMBF, Bundesministerium für Bildung und Forschung, Berlin, Germany

 

Dominic Grün

was a Postdoc in our lab and a Postdoc in Alexander van Oudenaarden's lab

is now an Independent Group Leader at the MPI in Freiburg

Current address:

Max Planck Institut, Freiburg, Germany

 

Andranik Ivanov

was a Ph.D. student in our lab and is now a Postdoc, working for Dieter Beule at the Bioinformatics Core Unit at the BIH

Current address:

Berlin Institut of Health (BIH), Berlin, Germany

 

Anna-Carina Jungkamp

was a Ph.D. student in our lab, then joined McKinsey & Company, and after that Nils Bluethgen's lab as a Postdoc. Works now at the BMBF

Current Address:

BMBF - Bundesministerium fuer Bildung und Forschung

 

Toshiaki Kogame

was a Ph.D. student

is now a doctor at Kyoto Medical University

Current Address:

Kyoto Medical University, Kyoto, Japan

 

Azra Krek

was a Ph.D. student

is now a staff scientist at Sloan-Kettering, New York

Current Address:

Memorial Sloan-Kettering Cancer Center, New York, USA

 

Svetlana Lebedeva

was a Ph.D. Student

is now a Postdoc with Rene Ketting

Current address:

IMB Mainz, Germany

 

Jonas Maaskola

was a Ph.D in our lab

is now a Postdoc at KTH Royal Institute of Technology in Stockholm

Current address:

KTH Royal Institute of Technology, Stockholm, Sweden

 

Sebastian Mackowiak

was a Ph.D in our lab

is now a Postdoc in Marc Friedlaender's lab in Stockholm

Current address:

Stockholm University, Science for Life Laboratory, Solna, Sweden

 

Pinar Önal

was a Ph.D in our lab

is now a Postdoc with Steve Small

Current address:

New York University, New York USA

 

Lena von Oertzen

was a TA in our lab and is now working at the FMP in Berlin-Buch

Current address:

FMP

 

Marlon Stoeckius

was a Ph.D. student and susequently a Postdoc in our lab, left for the USA to work with Antonio Girald. He is now working at the New York Genome Center.

Current Address:

New York Genome Center, NYU, New York, USA

 

Nadine Thierfelder

was a Ph.D. Student

is now an account executive at Hill+Knowlton Strategies GmbH

Current address

Hill+Knowlton Strategies GmbH, Frankfurt a.M., Germany 

 

Francesca Torti

was a Ph.D. Student

Current address

tbc

 

Ulrike Ziebold

was working as a Postdoc in our lab

Current address

tbc

 

Minnie Zhou Fang

was a PostDoc in our lab and a PostDoc in Ria Baumgrass' lab. She moved back to China and is now a Principle Scientist at Eli Lilly Research and Development in Shanghai

Current address:

Eli Lilly Research and Development, Shanghai, China