Research

Facility Resources

Master
Heading

Genomic Sequencing

Terms
Illumina

Item Term
Illumina NovaSeq 6000 Sequencing System

Item Definition

The NovaSeq platform is a powerful instrument capable of sequencing anywhere from 167 billion bases in a single flow cell up to 6 trillion bases in a single run. This technology supports microbiome applications for any sequencing method, species and scale at a very low cost per sample. See Illumina NovaSeq specifications for further information.

HiSeq

Item Term
Illumina HiSeq 3000 Sequencing System

Item Definition

The Illumina HiSeq 3000 sequencer is designed for processing more samples in greater depth to generate richer, more meaningful data to accomodate a wide range of ultra-high throughput sequencing applications. Its flow cell features a capacity of processing over 200 Gb per day or 750 Gb per run, with up to 2.5 billion single reads from microbiome samples. Check the Illumina HiSeq 3000 Specifications

HiSeqX/

Item Term
Illumina HiSeq X Sequencing System

Item Definition

The HiSeq X system can sequence the human genome at 30x coverage or greater. It is also very cost-effective WGS for non-human species, thus enabling research in many areas including the microbiome, agriculture and model organism research. Visit Illumina HiSeq X Specifications for further information. 

Illumina

Item Term
Illumina NextSeq Sequencing System

Item Definition

The NextSeq 550 System is efficient and flexible to handle a range of different types of projects. It delivers on-demand whole-genome, transcriptome, and targeted resequencing applications with a rapid, one-day turnaround. Easily switch between two flow cell configurations to tune your output based on your current research needs for microbiome applications or sample batch sizes. Check the Illumina NextSeq Specifications for further information.

Illumina

Item Term
Illumina MiSeq Sequencing System

Item Definition

The MiSeq system performs the widest breadth of sequencing applications, including highly multiplexed PCR amplicon sequencing, small genome resequencing and de novo sequencing, small RNA sequencing, library quality control, and 16S metagenomics. This system is used for small genome sequencing and comprehensive analysis of microbial or viral genomes for public health, epidemiology, and disease studies. Read the Illumina MiSeq Specifications for further information.

MiSeq

Item Term
Illumina MiSeqDX Sequencing System

Item Definition

The MiSeqDx System delivers a broad range of sequencing applications and it has been used in our lab for microbiome studies. Illumina offers two FDA-cleared cystic fibrosis assays and an FDA-approved companion diagnostic to aid in the identification of patients with colorectal cancer. See the Illumina MiSeqDX Specifications for further information.

iSeq

Item Term
Illumina iSeq 100 Sequencing System

Item Definition

It is the smallest Illumina sequencing instrument and it delivers faster and more cost-effective benchtop sequencing solution for our collaborators. The iSeq 100 provides up to four million reads in about 17 hours for a 2x1500 basepair run. This supports a wide array of microbiome applications such as viral sequencing, small panels, and small whole genomes. Check out Illumina iSeq 100 Specifications

PacBio/

Item Term
PacBio SMRT Sequencing System

Item Definition

This system provides high-quality sequencing for genomes, transcriptomes and epigenomes through long-read sequencing and high consensus accuracy for your microbiome study. Read the PacBio SMRT Specifications for further information.

Heading

Supporting Equipment

Terms
Echo

Item Term
Labcyte Echo 525 Acoustic Liquid Handler

Item Definition

The Echo 525 Liquid Handler transfers a wide range of fluids including distilled water, buffers, nucleic acids, and reagents containing up to 50% glycerol. The Echo acoustic droplet ejection (ADE) technology is based on sound waves to eject precisely-sized droplets from the source plate onto the destination plate. It is a powerful equipment that supports a wide range of genomic assays.

Automated

Item Term
Automated Liquid Handling

Item Definition

Automated liquid handling robots dispense and sample liquids in tubes or wells, which are critical for labor saving devices and offer precision sample preparation for high throughput screening/sequencing (HTC), liquid or powder weighing, sample preparation, and bio-assays of many kinds.

Beckman

Item Term
Biomek Liquid Handler

Item Definition

This compact liquid handler can work with two pipetting models: Multichannel (96 or 384) or Span-8. Both combine the benefits of a small footprint with the increased efficiency and flexibility of a medium- to high-throughput instrument capability based on the workflow needs.

Fragment

Item Term
Fragment Analyzer

Item Definition

The Fragment Analyzer is a parallel capillary electrophoresis instrument designed to eliminate laboratory bottlenecks caused by slow and unreliable QC analysis of nucleic acids. These bottlenecks are resolved by the automation of key steps such as gel loading and sample injection. After separations are complete, nucleic acid fragment analysis is simplified with a software data analysis, thus offering the ability to quickly and reliably QC samples.

Tape

Item Term
TapeStation Automated Electrophoresis

Item Definition

This is an automated electrophoresis solution for the sample quality control of DNA and RNA samples. The system integrates an instrument, data processing software, reagents, and ScreenTape devices specific for DNA and RNA. It is suitable to analyze size, quantity, and integrity of samples, which is very effective for next-generation sequencing (NGS) or biobanking workflows.

Pippin

Item Term
Pippin HT System

Item Definition

The Pippin systems from SageScience allow for precise automated size selection of nucleic acid samples, sequencing libraries, and even protein samples. Our core uses Pippin HT to enable high-throughput workflows to scale up sample preparation.

qPCR/

Item Term
Fast Real-Time PCR cycler

Item Definition

Real-Time PCR Thermal Cyclers/ Thermocyclers, also referred to as Quantitative PCR (qPCR), from Applied Biosystems calculate PCR amplification as it occurs. Relevant applications in our core include quantitative gene expression analysis, SNP analysis, drug target validation and genotyping.

PCR

Item Term
PCR working station

Item Definition

PCR Thermocyclers are instruments used to amplify DNA and RNA samples by the polymerase chain reaction. Amplified genetic material can be used in many downstream applications such as cloning, sequencing, expression analysis, and genotyping.

Cold

Item Term
Cold Storage

Item Definition

Cryogenic refrigerators ensure long-term storage of samples kept at cryogenic temperatures. Our core uses multiple monitoring systems to ensure temperature control storage for all samples received.