Next-generation sequencing (NGS) data analysis workstation | TEGAKARI, an information dissemination media for research and development

TEGSYS Next Generation Sequencing (NGS) Data Analysis Workstation

A customer involved in genetic research contacted us for a workstation to handle genome assembly, polymorphism analysis including NGS data analysis, and RNA-seq analysis.
After looking at Case No. PC-12218, we received a request from a client who wanted to ensure memory expandability within a budget of 100 million to 150 million yen.

Based on the information you provided, we proposed the following structure:

CPU	Intel Xeon W7-3545 2.70GHz (up to 3.0GHz at TB4.8) 24C/48T
memory	Total 256GB DDR5 5600 REG ECC 32GB x8
storage	4TB SSD M.2 NVMe Gen4
Storage 2	16TB HDD S-ATA
Video	NVIDIA RTX A400 4GB (MiniDisplayPort x4)
network	on board (1GbE x1 /10GbE x1)
Housing + power supply	Tower type case 1000W 80PLUS PLATINUM
OS	Ubuntu 24.04

Expandable memory configurations

The CPU is the latest model as of May 2025.Xeon W7-3545 24 cores" was adopted to fit the budget.

The memory is a total of 256GB (32 x 8GB).
8 free slotsBecause there isYou can add eight more 32GB memory modules for a total of 8GB..
For screen drawing, we chose the "RTX A400 4GB," the successor to the "NVIDIA T400 4GB."

(Reference)
If you are using software that prioritizes VRAM capacity (such as Helixer), we can suggest a configuration that prioritizes GPU memory.
Helixer requires a GPU with at least 11 GB of VRAM.
The official Helixer GitHub is click here. (※Jump to external page)

The configuration of this case study is based on the conditions given by the customer.
We offer flexible quotes based on customer requests.
Please feel free to contact us even if your purpose or budget is different from what is listed.

■ Keywords

What is Polymorphism Analysis?
A method for detecting and analyzing differences (polymorphisms) in DNA sequences between individual organisms. It is used to explore the genetic causes of individual differences, as well as to infer phylogenetic relationships and evolutionary processes.

What is Helixer?
Helixer is an open source tool that combines deep learning and hidden Markov models (HMMs) to perform structural annotation of eukaryotic genomes (prediction of gene structure).
By utilizing the GPU, high-speed processing is possible.

reference: weberlab-hhu_Helixer *Jumps to an external site

What is BWA?
BWA is a software package for mapping low divergence sequences against large reference genomes such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW, and BWA-MEM.

reference: Burrows-Wheeler Aligner *Jumps to an external site

What is GATK?
GATK (Genome Analysis Toolkit) is a group of analysis tools for analyzing variants (gene mutation analysis) from nucleotide sequence data output from next-generation sequencers.The contained tools can be used individually or in conjunction.