Proteogenomics

Connecting genotype with proteome

 

 

Cancer Proteomics

Landscapes and predictive markers


In-depth proteomics

HiRIEF LC-MS/MS

About LehtiöLab

Our group engages in developing mass spectrometry based methods to improve the depth of proteome analysis. Additionally, we apply multilayer bioinformatic analyses to examine the proteome in the context of the genome and transcriptome. Interpreting multilevel “omics” data provides an understanding of how genome aberrations impact the proteome. We apply this understanding to identify biomarkers which aid in selecting the most effective therapies for cancer patients.

Selected Publications

Latest articles...

Discovery of coding regions in the human genome by integrated proteogenomics analysis workflow

Yafeng Zhu, Lukas M. Orre, Henrik J. Johansson, Mikael Huss, Jorrit Boekel, Mattias Vesterlund, Alejandro Fernandez-Woodbridge, Rui M. M. Branca & Janne Lehtiö

A novel workflow for quantitative phosphoproteomics analysis using HiRIEF LC-MS

Panizza E, Branca RMM, Oliviusson P, Orre LM & Lehtiö J

Proteogenomics produces comprehensive and highly accurate protein-coding gene annotation in a complete genome assembly of Malassezia sympodialis.

Zhu Y, Engström PG, Tellgren-Roth C, Baudo CD, Kennell JC, Sun S, Billmyre RB, Schröder MS, Andersson A, Holm T, Sigurgeirsson B, Wu G, Sankaranarayanan SR, Siddharthan R, Sanyal K, Lundeberg J, Nystedt B, Boekhout T, Dawson TL Jr, Heitman J, Scheynius A, Lehtiö J.

 

A multi-step peptidolytic cascade for amino acid recovery in chloroplasts, Nature Chemical Biology, 31 Oct 2016.

Pedro F Teixeira, Beata Kmiec, Rui M M Branca, Monika W Murcha, Anna Byzia, Aneta Ivanova, James Whelan, Marcin Drag, Janne Lehtiö & Elzbieta Glaser

Doctoral Courses:

We arrange two doctoral courses every year:

"Omics data analysis: From quantitative data to biological information" (link to course syllabus) given in November each year. Course directors: Erik Fredlund and Lukas Orre

"Mass spectrometry based proteomics: When and How" (link to course syllabus) given in October every year. Course directors: Rozbeh Jafari and Mattias Vesterlund

 

Master Thesis Projects

"Using Total Proteome Profiling for evaluating therapeutics in Childhood Acute Lymphoblastic Leukemia"

"Developing click-based work flow for isolation of small molecule binding proteins in Neuroblastoma"

 

 

Infrastructure

Funding

Research Areas

Plasma proteomics
Dr. Maria Pernemalm

 

Breast cancer
 TEAM lEADER Dr. Henrik Johansson

 

Proteomics Methods
Dr. Rui Branca
Childhood Cancer

DR. ROZBEH JAFARI, DR. MATTIAS VESTERLUND and DR. JÜRGEN EIRICH

 

Lung cancer
Dr. Lukas Orre

 

Cancer bioinformatics
DR. ERIK FREDLUND