DNA Sequencer
DNA Sequencer
| Model (Manufacturer) |
ABI SeqStudio Genetic Analyzer (Thermo Fisher Scientific) |
| Features and Specifications, etc. | Prior to initial use, it is necessary to undergo training.Please contact the following personnel for assistance: A device for reading the DNA nucleotide sequences 【Features】 - Capillary electrophoresis-based DNA sequencer - Up to four samples can be analyzed simultaneously in one analysis （run）. - Three types of run modules are available for selection based on the desired length (bp) of the DNA to be sequenced. ShortSeq (approximately 350 bp, 30-minute runtime) MediumSeq (approximately 500 bp, 45-minute runtime) LongSeq (approximately 700 bp, 120-minute runtime) 【Specifications】 - Number of capillaries: 4 - Number of fluorescent dyes for detection: 6 - Sample format: 96-well plate - Sanger sequencing (resequencing, verification of NGS data, detection of indels: heterozygous variants, detection of minor mutations) - Fragment analysis (microsatellite analysis, MLPA, compatibility with SNaPshot applications, cell authentication) - Sequencing analysis (Sequence waveform viewing software) Installed in March 2019. |
| Location | Central Research Center (Room 317, 3rd floor, University Building 1) |
| Remarks | - Prior to the initial use, it is necessary to undergo training. Please contact the following personnel for assistance: - Please ensure to book this equipment through the reservation system when using it. - When using the equipment, please be sure to fill out the logbook provided with it. - We conduct "DNA sequencing contract analysis" using this device. For more details, please refer to the "Analysis service" page on Open Facility Center website. |
| Equipment Manager Extension Number |
Tsukamoto (Laboratory for Proteins and Genes) 9928 |
| Usage Fee | 600 yen/run |
Equipment Photo
DNA Sequencer
| Model (Manufacturer) |
ABI 3500 Genetic Analyzer (Thermo Fisher Scientific) |
| Features and Specifications, etc. | Prior to initial use, it is necessary to undergo training.Please contact the following personnel for assistance: A device for reading the DNA nucleotide sequences 【Features】 - Capillary electrophoresis-based DNA sequencer - Up to eight samples can be analyzed simultaneously in one analysis run. - Four types of run modules are available for selection based on the desired length (bp) of the DNA to be sequenced. ShortReadSeq (CRL value approximately 300 bp, runtime 30 minutes) RapidSeq (CRL value approximately 500 bp, runtime 40 minutes) FastSeq (CRL value approximately 700 bp, runtime 65 minutes) StdSeq (CRL value approximately 850 bp, runtime 125 minutes) ※CRL value: Average QV ≥ 20 region 【Specifications】 - Capillary: 8 pieces, 50 cm - Polymer: POP7 - Number of fluorescent dyes for detection: 6 - Sample format: 96-well plate, 8-tube strip - Sanger sequencing (resequencing, verification of NGS data, detection of indels: heterozygous variants, detection of minor mutations) - Fragment analysis (microsatellite analysis, MLPA, compatibility with SNaPshot applications, cell authentication) - Sequencing analysis (Sequence waveform viewing software) - SeqScape (mutation analysis software) Installed in February 2022 |
| Location | Central Research Center (Room 317, 3rd floor, University Building 1) |
| Remarks | - Prior to the initial use, it is necessary to undergo training. Please contact the following personnel for assistance: - Please ensure to book this equipment through the reservation system when using it. - When using the equipment, please be sure to fill out the logbook provided with it. - We conduct "DNA sequencing contract analysis" using this device. For more details, please refer to the "Analysis service" page on Open Facility Center website. |
| Equipment Manager Extension Number |
Tsukamoto (Laboratory for Proteins and Genes) 9928 |
| Usage Fee | 1200 yen/run |
Equipment Photo
Next Generation Sequencer
| Model (Manufacturer) |
NextSeq2000 (Illumina) |
| Features and Specifications, etc. | 【Features】 - Mid-scale short-read next-generation sequencer made by Illumina. - High sequencing accuracy as it captures fluorescent dyes for each nucleotide base through imaging, with improved single-base quality compared to traditional sequencers from the same company. - Sequencing analysis is completed within 11 to 48 hours due to fast processing. - Suitable for gene panel sequencing, whole exome sequencing, RNA sequencing, ChIP sequencing, ATAC sequencing, and small-scale single-cell RNA sequencing. 【Specifications】 - Per run output of 40-330 Gb, 400 million to 1.1 billion reads, sequencing with read lengths of 50 bp x2, 100 bp x2, 150 bp x2. - Flow cell kits include P1, P2, P3 Reagent Kit, with selection based on required output. |
| Location | Central Research Center (Room 317, 3rd floor, University Building 1) |
| Remarks | When using this equipment, please consult the person in charge. |
| Equipment Manager Extension Number |
Sugihara (Laboratory of Genome Sequencing and Analysis) 9372 |
| Usage Fee | - |
Equipment Photo
Next Generation Sequencer
| Model (Manufacturer) |
PromethION 24 (Oxford Nanopore Technologies) |
| Features and Specifications, etc. | 【Features】 - High-throughput long-read sequencer made by Oxford Nanopore Technologies. - Analyzes the sequence of bases by measuring changes in electrical current as DNA or RNA passes through nanopores embedded in a non-conductive membrane. - Capable of directly analyzing nucleic acid bases, yielding very long sequence information of over 10,000 bases. - Suitable for whole genome sequencing, genome structural analysis, long-read metagenomic analysis, RNA sequencing analysis (splicing variant analysis), methylation analysis, plant genome analysis, and novel species genome analysis. 【Specifications】 - Capable of simultaneously analyzing up to 24 flow cells specifically designed for the PromethION. - Output per flow cell ranges from approximately 30 Gb to 120 Gb. - Read length: varies depending on the type of analysis. Approximately several kb to several hundred kb. |
| Location | Central Research Center (Room 317, 3rd floor, University Building 1) |
| Remarks | When using this equipment, please consult the person in charge. |
| Equipment Manager Extension Number |
Sugihara (Laboratory of Genome Sequencing and Analysis) 9372 |
| Usage Fee | - |
Equipment Photo
Next Generation Sequencer
| Model (Manufacturer) |
GridION (Oxford Nanopore Technologies) |
| Features and Specifications, etc. | 【Features】 - Mid-scale long-read sequencer made by Oxford Nanopore Technologies. - Analyzes the sequence of bases by measuring changes in electrical current as DNA or RNA passes through nanopores embedded in a non-conductive membrane. - Capable of directly analyzing nucleic acid bases, yielding very long sequence information of over 10,000 bases. - Suitable for whole genome sequencing, genome structural analysis, long-read metagenomic analysis, RNA sequencing analysis (splicing variant analysis), methylation analysis, plant genome analysis, and novel species genome analysis. 【Specifications】 - Capable of simultaneously analyzing up to 5 flow cells. - Output per flow cell ranges from approximately 5 to 20 Gb. - Read length varies depending on the type of analysis. Approximately several kb to several hundred kb. |
| Location | Laboratory of Genome Sequencing and Analysis (Room 303, 3rd floor, University Building 1) |
| Remarks | When using this equipment, please consult the person in charge. |
| Equipment Manager Extension Number |
Sugihara (Laboratory of Genome Sequencing and Analysis) 9372 |
| Usage Fee | - |
Equipment Photo
