LUDC Bioinformatics unit – areas of expertise

The LUDC Bioinformatics unit provides researchers, students, and technical personnel affiliated with LUDC with bioinformatics, biostatistics, and computational support. The unit also offers access to a high-performance computing environment.

Please contact Dmytro Kryvokhyzha, head of the LUDC Bioinformatics unit, for general questions about support. For specific questions or support requirements, please click the link below for relevant contact information.

Link to webpage with more information about support and contact details

Bioinformatics support

Our bioinformaticians can help you with the following:

Study design (sample size, sequencing type, sequencing depth, etc.)
Reproducible and scalable analysis pipeline development
Programming (Python, R, Bash, Awk, Snakemake)
Selection of appropriate bioinformatics tools
Manuscript preparation (methods description, figures, tables, data publishing, etc.)

Bioinformaticians:
Dmytro Kryvokhyzha, head of the LUDC Bioinformatics unit
Dmytro Kryvokhyzha's profile in Lund University's research portal

Mikael Åkerlund
Mikael Åkerlund's profile in Lund University's research portal

Alexandros Karagiannopoulos
Alexandros Karagiannopoulos' profile in Lund University's research portal

Biostatistics

Our biostatistician can help you with the following:

Study design (prospective, retrospective, cross-sectional, longitudinal, case-control, case-cohort, nested case-control, etc.)
Selecting the appropriate statistical methods for your study design and scientific question(s)
Performing statistical analyses in R, SAS, SPSS, and STATA using reproducible research practices
Results interpretation
Manuscript preparation (statistical methods and results sections, tables, and figures)
Responding to reviewers (maximum one hour)

Biostatistician:
Marlena Maziarz
Marlena Maziarz's profile in Lund University's research portal

Servers and high-performance computing

Our systems engineers can help you with the following:

Creating tools, webapps, and scripts for users and groups/studies
Programming (PHP, Perl, JavaScript, Bash)
Databases (PostgreSQL, MySQL, MariaDB, DB2, SQLite)
System administration of our server systems
General Linux knowledge
Installation and maintenance of a software repository for our HPC cluster
Maintaining backups of servers, databases, and all data stored in GPFS, our storage for the HPC cluster
Guiding and helping users who work in the HPC cluster environment

Systems engineers:
Johan Hultman, IT coordinator
Johan Hultman's profile in Lund University's research portal

Matthias Jeppsson
Link to Matthias Jeppsson's profile on Lund University's website

Database management

Our database administrator can help you with the following:

Assisting and developing questionnaires/forms, ensuring they meet the requirements for entering and reporting of clinical data of varying complexity
Defining and creating datasets in the database for receiving, processing, and tracking data
Transforming/coding, cleaning, and uploading the collected data from different studies/sources
Controlling access to the database, setting data privacy, and ensuring data integrity
Generating data retrievals and summaries for national and international projects
Providing statistical summaries of data

Database administrator:
Jasmina Kravić
Jasmina Kravić's profile in Lund University's research portal