Bioinformatics Unit at the Core Facility
Epigenomics, Genomics, Transcriptomics, Single-cell omics - Multi-Omics data analysis
The Unit
The Team
Jyotirmoy Das
Principal Research Engineer
Computational Biologist | System Administrator | Application Developer
Ph.D. (Tech.) in Bioinformatics
- Area Of Expertise - DNA methylation; microRNAs; RNAseq; WGS; Molecular Evolution; Functional Genomics.
- Open-source Community Developer;
- Front- and Back-end Developer;
- System Administration and Management.
- Student supervision, and Teaching/training in Bioinformatics.
Massimiliano Volpe
Principal Research Engineer
Bioinformatician | Data miner | Pipeline developer | Biotechnologist
Ph.D. in Bioinformatics
- Area Of Expertise – circular RNAs, Transposable Elements (TE), Genome Evolution, Nervous System, non-model organism assembly
- Bioinformatician with extensive experience in Next Generation Sequencing (NGS) data analysis.
- Experience with Python, R and Snakemake, Hydra-genetics pipeline development.
- Experience with manipulation and analysis of big data.
- Familiarity with different several relevant computational biology tools.
Debojyoti Das
Principal Research Engineer
Computational Biologist | Biostatistician
Ph.D. (Science) in Physical Chemistry
- Area Of Expertise - Genomics, RNAseq, Single-Cell RNAseq, Biostatistics
- Genome assembly of model species.
- Bulk and single-cell RNA-seq data analysis pipeline.
- Proteomics data (OLINK) analysis
- Biostatistics of large (epidemiological) cohort data
- Conversant in Python, R, and bioinformatics data analysis pipeline development.
Leila Nasirzadeh
Principal Research Engineer
Bioinformatician | Molecular Biologist
Ph.D. in Molecular Biology
- Area Of Expertise - NGS Data Analysis, Metagenomics and AMR detection; Genomics; Transcriptomics
- Azure Cloud Computing for bioinformatics project
- Bioinformatics tools and languages, including R, Python
- SQL for database management
- Supervising, mentoring, and teaching
Workstation
Server
Storage solution
Tools/Softwares/Pipelines
Services
Epigenomics
DNA Methylation, MicroRNAs
- Illumina Arrays
- BiSulfite sequencing
- Nanopore sequencing
- Twist NGS sequencing
- PacBio sequencing
Transcriptomics
Microarrays, Bulk RNA sequencing
- Gene expression quantification
- Differential expression analysis
- Transcriptome assembly
- Gene Fusion Detection
- Alternative Splicing Analysis
Genomics
Whole Genome Analysis - Bacteria, Virus, Human
- Genome Assembly
- Variant Calling
- CNV analysis
- Structural Variant (SV) analysis
- Genome-Wide Association Studies (GWAS)
scRNAseq
Single-cell RNAseq analysis and visualization
- Raw reads into expression values
- QC, normalization, filtration
- Dimensionality reduction, clustering
- Cell type annotation, Differential Gene expression
- Visualization
Data Visualization
Customized plots
- Statistical Plots
- Custom figures
- Journal supported figure format
- Interactive figures
Others
And many more ...
- Statistical Analysis
- Gene Ontology/ Pathway Enrichment Analysis
- Network Interaction Analysis
- Olink Data Analysis
- Microarray Data Analysis
Special thanks to -
The Core Facility, Faculty of Medcine and Health Sciences
Clinical Genomics Linköping
Our Esteemed Users
Reach Us!
Office Bioinformatics Unit, KEF, Floor-10, Hus-463
Bioinformatics Unit, Core Facility at Linköping University
Clinical Genomics Linköping, Linköping University
Email us
jyotirmoy.das@liu.se | debojyoti.das@liu.se | leila.nasirzadeh@liu.se
clinical.genomics@liu.se
Drop-in session: One hour online - Free of Charge
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