Advanced Bioinformatics Services

NGS DATA ANALYSIS

CUSTOM BIOINFORMATIC ANALYSIS

Computational analyses of next-generation sequencing data obtained on Illumina, BGI/MGI or Ion Torrent platforms. Our bioinformatics support can be fully customized for your research needs, the scope and the objectives of the study. We apply only up-to-date well-proven software and pipelines working under Unix/Linux environment. Optionally, our experts can help to interpret the obtained results from the scientific point of view, provided some of them are working in a close research field. Below you could find the default workflows which we offer for the corresponding type of NGS data. The raw sequencing data is accepted in the forms of BCL, FASTQ or BAM files which are typically uploaded into the common web-cloud repositories. Alternatively, the data can be sent to our office on a hard drive or USB stick.

  • DNA-seq (WGS, WES, Amplicon or Targeted sequencing).
  • Bisulfite-seq (WGBS, RRBS, MeDIP-seq).
  • RNA-seq (WTS, mRNA-seq, small RNA-seq, single-cell RNA-seq).
  • ChIP-seq (Histones & TFs-bound DNA-seq, ATAC-seq).
  • Metagenomics.

STANDARD DATA ANALYSIS PACKAGES

NGS service providers usually deliver unprocessed FASTQ files containing raw reads. Before performing the actual analysis of DNA-seq or RNA-seq data, the raw reads within have to be trimmed from contaminating adapter sequences, aligned to a proper reference genome or transcriptome, quantified and, finally, converted into VCF tables or count matrices. The latter files can be directly imported and analyzed in e.g. Excel or R/Bioconductor software.

  • "FASTQ-TO-COUNTS"  - processing of raw FASTQ files from standard RNA-seq experiment into tables with raw read counts. 
  • "FASTQ-TO-VCF"  - processing of raw FASTQ files from standard DNA-seq experiment into VCF (variant calling format) tables.

Both packages include delivery of standard FASTQC reports, tables with mapping statistics and the exact scripts used for data processing.

SOFTWARE DEVELOPMENT AND CONTRACT RESEARCH

  • Assistance for organizations interested in the qualitative analysis of genetic data.
  • Custom research, scripting and software development.
  • Both one-time orders and long-term contracts.

The price for any custom project is calculated based on the hourly rate of a PhD-holding senior scientist in Germany before taxes according to TV-L E13 (Stufe 5).

The standard processing/analysis of RNA sequencing data (FASTQ-TO-COUNTS) costs 1.10 EUR per million of raw reads plus 11.00 EUR commission per sample. The downstream differential expression analysis will cost additionally 25.00 EUR per sample.

The standard processing/analysis of DNA sequencing data (FASTQ-TO-VCF) costs 1.20 EUR per million of raw reads plus 15.00 EUR commission per sample. The downstream variants annotation and statistical analysis will cost an additional 30.00 EUR per sample.

* The rates indicated above do not include VAT.

REQUEST A QUOTE

You could first send us a short project description by email or using the contact form below. Upon evaluating your request with we will offer an initial free-of-charge consultation to discuss the details of the project including the deliverables and the price. Alternatively, you could call us directly at +49 171 1908276 to discuss your project details and the terms of the contract.

 
 
 
 
 
By submitting my data, I give consent to the collection, processing and use of my personal data in accordance with the SciBerg e.Kfm Privacy Policy