Bulk & single-cell RNA-seq
From raw FASTQ to differential expression and pathways, with statistics that hold up: proper normalisation, batch handling and donor-level testing.
Molecular Biotechnology · Bioinformatics · Germany
Amanullah
I trained at the bench in biotechnology and genetic engineering, and I am now building the computational side: turning sequencing data into answers a lab can act on.
Currently: M.Sc. Molecular Biotechnology, Hochschule Anhalt
01Focus
Variant analysis
Germline and somatic calling, annotation and benchmarking against truth sets, the way diagnostics labs need it.
Reproducible pipelines
Containerised, tested workflows that other scientists can run, and validation written for regulated environments.
02Path
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Now
M.Sc. Molecular Biotechnology
Hochschule Anhalt, Germany
Molecular genetics and genetic engineering, cell culture and tissue engineering, cellular signal transduction, recombinant protein production, pharmaceutical biotechnology. Electives in NGS & bioinformatics and omics technologies.
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Since 2022
Founder & mentor, GISAC
I teach GRE and IELTS and guide Bangladeshi students through Master's and PhD applications worldwide.
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Bachelor
B.Sc. (Hons.) Biotechnology & Genetic Engineering
Mawlana Bhashani Science and Technology University, Bangladesh
Molecular biology, human and molecular genetics, immunology, recombinant DNA technology, bioinformatics and computational biology, analytical methods, molecular diagnostics.
03Work in progress
Each project will be published here with its code, data source and an honest note on limitations.
- RNA-seqPlanned
Glucocorticoid response in airway smooth muscle
End-to-end bulk RNA-seq on public data: Salmon, DESeq2, gene-set enrichment.
- PipelinePlanned
A tested Nextflow RNA-seq workflow
Containerised, with test data and continuous integration, compared against nf-core/rnaseq.
- Single-cellPlanned
Disease versus healthy, donor by donor
Single-cell RNA-seq with integration, annotation and pseudobulk differential expression.
- VariantsPlanned
Germline calling, benchmarked on GIAB HG002
GATK and DeepVariant, measured for precision and recall against the truth set.
- QualityPlanned
Validating a variant pipeline
A validation report in the style of ISO 15189: accuracy, precision, coverage limits, change control.
04Toolbox
- Wet lab
- DNA & RNA isolation, PCR, gel electrophoresis, Southern & Western blotting, ELISA, cell and tissue culture
- Learning now
- Python, Linux & bash, Git, R
- Languages
- Bengali (native) · English · German (B2, in progress)
05Contact
Open to a Master's thesis, a working-student role or a conversation about bioinformatics in Germany.