Machines for multi-omics and molecular simulation | TEGAKARI, an information dissemination media for research and development

Machine for multi-omics and molecular simulation

A customer involved in bioinformatics research enquired about a machine that could be used for microbial flora analysis, NGS, de novo sequencing using RNA-seq, multi-omics analysis such as metabolomics, and simulation of compound production, assuming a 100V power supply.
Based on the information you provided, we proposed the following structure:

CPU	Intel Xeon W7-3555 2.70GHz (up to 3.0GHz at TB4.8) 28C/56T
memory	Total 512GB DDR5 5600 REG ECC 64GB x 8
Storage 1	4TB SSD M.2 NVMe Gen4 (No RAID)
Storage 2	4TB SSD M.2 NVMe Gen4 (No RAID)
Storage 3	15.36TB NVMe SSD
Video	NVIDIA Geforce RTX 4090 24GB
network	on board (1GbE x 1 /10GbE x 1)
Housing + power supply	Mid-tower chassis 1500W 80PLUS PLATINUM
OS	Microsoft Windows 11 Professional 64bit
Others(1)	Install Windows and Ubuntu on each 4TB SSD
Others(2)	Ubuntu22.04 dual boot setup

Bacterial flora analysis, RNA-seq de novo sequencing, multi-omics analysis, chemical synthesis simulation, etc.Diverse bioinformatics applicationsThis is a machine designed for the following:

In the multi-omics analysis (e.g. genome + transcriptome + proteome, etc.) used by our customers, multiple large-scale data sets are often handled simultaneously.Memory bandwidth and capacity play a major role in processing performanceTo do.

This model is equipped with the 28-core, 56-thread Xeon W7-3555.Ensuring processing speed even with heavy parallel processing.
Furthermore, Efficient for high-load multi-omics analysisIt also has a large memory capacity of 512GB.
Ubuntu and WindowsDual boot environmentThis allows for smooth operation of various data processing programs using R, Python, and Miniconda.

Scalability

It is equipped with a 1500W power supply unit in anticipation of future GPU expansion.
However, when used in a 100V power supply environment, the actual output that can be supplied is up toAbout 1200W.

This configuration is equipped with eight 64GB memory modules.Total 512GBThe memory capacity is .
The motherboard has eight more free slots, allowing you to add 8GB memory modules of the same specifications.1TB (64GB x 16 pieces) It can be expanded up to

If you would like to further expand the memory capacity, you can replace all 64GB memory modules with 128GB.Up to 2TB (128GB x 16)I can handle it.

For those who are active in these fields

Bioinformatics
Genomic science
Genetic analysis
Metabolomics
Data-driven Life Sciences

In addition to the above example configurations, we will propose optimal parts configurations based on your budget, the software you use, and your future operation methods.
Please feel free to contact us even if your conditions are different from those listed.

■ Keywords

・What is de novo sequencing?

De novo sequencing is a method of reading the base sequence of DNA or RNA and reconstructing its entire structure without using a known reference genome.
It is suitable for analyzing unknown organisms and highly variable regions, and is widely used in genome assembly and the discovery of new genes.

・What is NGS analysis?

NGS (Next Generation Sequencer) is a fundamental technology for determining the base sequence information of nucleic acids (DNA and RNA).
Capable of simultaneously sequencing millions of DNA molecules.
Since NGS can perform sequencing at high speed, it is used for identification of nucleotide sequences of RNA viruses that deteriorate quickly in clinical samples.

・What is R?

R is an open source, free software programming language and development environment for statistical analysis.
It is used for calculations and graphing for statistical processing.
Since many libraries exist, complex techniques can be handled by simply calling the library.