Genomics Resource Laboratory
Located on the 3rd floor in the Morrill Science Center the Genomics Resource Laboratory (GRL) provides services and advanced instrumentation support for nucleic acid (DNA and RNA) analysis.
The GRL provides a suite of services to address your high-throughput next-generation sequencing, including solutions for sample processing such as nucleic-acid isolation, nucleic-acid quantitative and qualitative analysis, NGS library preparation, quantitative-PCR analysis, etc.
We provide a sample processing and library preparation such as whole genome sequencing, shotgun metagenomics, metatranscriptomics, targeted amplicon sequencing, RNA-Seq, ChIP-Seq, Exome Sequencing, Methyl-seq, Single Cell Genomics, etc., to address your NGS projects.
The facility accepts samples and will perform requested analysis. We offer training to users to conduct experimentation for use on a fee for service basis to both internal and external researchers, academic or industry based.
Following an initial consultation, covering experimental parameters training and access is arranged through the director.
What Makes Us Unique
- Library preparation
- Whole genome sequencing
- Shotgun metagenomics
- 16S/18S rRNA amplicon library prep
- Other library preps
- DNA and RNA isolation
Illumina NextSeq 500 Sequencing System
High-throughput sequencer with quick turnaround time, capable of generating up to 120 Gb data, with 800 million paired-end sequencing reads and 150 bp read length. Used for large whole genome sequencing projects, Methyl-Seq, RNA-Seq, exome sequencing projects, etc.
Illumina MiSeq Sequencing System
Mid-throughput sequencer, capable of generating up to 15 Gb data with 50 million paired-end sequencing reads with 300 bp read length. Applied for applications such as 16S rRNA amplicon sequencing, targeted gene sequencing, small genome sequencing and targeted gene expression.
Fluidigm C1 Single-Cell Auto Prep System
The innovative C1 system carefully isolates single cells into individual reaction chambers in the exclusive Fluidigm integrated fluidic circuit (IFC). The optically clear IFC lets you automatically stain captured cells and examine them by microscopy for viability, surface markers or reporter genes. After staining, cells are automatically lysed and template is quickly prepared for qPCR or sequencing analysis—all in as little as four hours.
Bioruptor Pico Sonicator System
Sonication device for shearing DNA and RNA for NGS applications. Optimized for volumes of 20 - 100 μl.
BluePippin, Sage Science
DNA size selection system, capable of selecting to 100 bp – 50 kb for NGS applications. Has integrated pulsed-field electrophoresis for resolving and collecting high molecular weight DNA for PacBio library prep as well.
Agilent 2100 Bioanalyzer
Used for sizing, quantitation and quality control of DNA, RNA, and proteins.
FastPrep-24 5G Sample Homogenizer (MP Biomedicals)
An advanced, high-speed benchtop homogenizer used for lysis of any type of cells, tissues, bacteria, fungi, plants, soil samples, etc.
Qubit 3.0 Fluorometer
Used for the quantitation of DNA, RNA, microRNA, and protein, using the highly sensitive and accurate fluorescence-based assays. Used widely for NGS applictions.
Eppendorf epMotion 5070 Liquid Handling Workstation
Used for routine applications which involves automated pipetting systems such as serial dilutions, reagent distribution, sample transfer from tubes to plates, and sample normalization. to assist with nucleic-acid isolation, nucleic-acid quantitative and qualitative analysis, NGS library preparation, quantitative-PCR analysis, etc.
Agilent Mx3005P qPCR System
High-performance real-time qPCR system. Ideal for a wide variety of applications and chemistries. It has four optical channels, allowing multiplexing with most fluorescent dyes.
Thermo Scientific Savant DNA120 SpeedVac
High-performance concentrator for efficient concentration, and drying of small-volume DNA or RNA samples.
GRL maintains Supply Center and Freezer Program located in Morrill 4, N214. Bio-Rad, New England Biolab (coming soon).
GRL and Integrated DNA Technologies (IDT) have created a portal for Discounted Primer orders. Visit www.idtdna.com/umamherst for more information
|2100 Bioanalyzer Machine||$30/assay|
|2100 Bioanalyzer DNA 1000, 7500, 12000 assay||$95/assay|
|2100 Bioanalyzer DNA HS assay||$115/assay|
|2100 Bioanalyzer RNA 6000 nano assay||$120/assay|
|2100 Bioanalyzer RNA 6000 pico assay||$125/assay|
|2100 Bioanalyzer Small RNA assay||$150/assay|
|Qubit dsDAN BR, dsDNA HS, RNA BR, RNA HS||$4/assay|
|Bioruptor Pico machine||$20/hour|
|Bioruptor Pico sample processing (Minimum 10 samples)||$4/sample|
|Savant SpeedVac DNA120 machine||$20/hour|
|Fast Prep-24 5G machine||$20/hour|
|BluePippin sample prep||$35/sample|
|MiSeq Reagent Nano Kit v2 (300 Cycle kit) (51 SE, 51 PE, 101 SE, 201 SE, 201 SE, 301 SE, 151 PE)||$525/assay|
|MiSeq Reagent Nano Kit v2 (500 Cycle kit) (201 PE, 251 PE)||$600/assay|
|MiSeq Reagent Micro Kit v2 (300 Cycle kit) (51 SE, 101 SE, 201 SE 301 SE, 151 PE)||$700/assay|
|MiSeq Reagent kit v2 (50 Cycle kit) (25 SE, 51 SE, 25 PE)||$1,120/assay|
|MiSeq Reagent kit v2 (300 Cycle kit) (76 SE, 75 PE, 101 SE)||$1,360/assay|
|MiSeq Reagent kit v2 (300 Cycle kit) (151 PE, 251 SE, 201 SE, 301 SE)||$1,410/assay|
|MiSeq Reagent kit v2 (500 Cycle kit) (201 PE, 251 SE, 251 PE)||$1,510/assay|
|MiSeq Reagent Kit v3 (150 Cycle kit) (51 SE, 101 SE, 75 PE, 151 SE)||$1,200/assay|
|MiSeq Reagent kit v3 (600 Cycle kit) (101 PE, 201 SE, 251 SE)||$1,910/assay|
|MiSeq Reagent kit v3 (600 Cycle kit) (125 PE, 201 PE, 251 PE, 301 PE)||$2,100/assay|
|NextSeq 500 Mid-150 kit (26 SE, 51 SE, 76 SE, 100 SE 125 SE, 151 SE, 75 PE)||$1,425/assay|
|NextSeq 500 Mid-300 kit (125 PE, 151 PE)||$2,100/assay|
|NextSeq 500 High-75 kit (26 SE, 51 SE, 26 PE, 75 SE)||$1,850/assay|
|NextSeq 500 High-150 kit (101 SE, 151 SE, 51 PE, 75 PE)||$3,250/assay|
|NextSeq 500 High-300 kit (101 PE, 125 PE)||$5,100/assay|
|NextSeq 500 High-300 kit (151 PE)||$5,200/assay|
|Library Prep: DNA (Shotgun Metagenome / Genome, ChIP)||$120/sample|
|Library Prep: Total RNA (no rRNA reduction, no poly-A capture)||$250/sample|
|Library Prep: mRNA, - poly-A capture, non-stranded (human, mouse, rat)||$275/sample|
|Library Prep: mRNA, - poly-A capture, stranded (human, mouse, rat)||$285/sample|
|Library Prep: mRNA, rRNA depleted, non-stranded (human, mouse, rat)||$325/sample|
|Library Prep: mRNA, rRNA depleted, stranded (human, mouse, rat)||$330/sample|
|Library Prep: mRNA, bacterial rRNA depeleted, non-stranded (for microbial RNAseq)||$340/sample|
|Library Prep: QuantSeq 3′ mRNA-Seq Kit FWD or Rev for Illumina||$100/sample|
|Library Prep: Bacterial Targeted Amplicon (16S rRNA) Amplified target provided by PI||$30/sample|
|Library Prep: Bacterial Targeted Amplicon (16S rRNA)||$50/sample|
|Library Prep: Small RNA (microRNA)||$250/sample|
|NGS Library QC and DNA/RNA QC||$25/sample|
|NextSeq 500 Unassisted||$200/12 hr block|
Rates are subject to change, contact facility to verify current fees.
For failed unassisted NGS runs user may be charged full fee as well as a diagnostic fee of $120
Training for new users consists of:
- lab safety training as mandated by UMass EH&S,
- operation of the instrument and associated software,
- use of data analysis software,
- exporting or presenting data,
- clean up and shutdown of the instrumentation.
Once the training is complete, researchers may schedule their experiments through the director of the GRL (Ravi Ranjan).
Service Request Forms
- Agilent Mx3005P qPCR System
- Agilent 2100 Bioanalyzer
- Bioruptor Pico
- Blue Pippin, Sage Science
- DNA Isolation/Extraction
- FastPrep-24 5G High Speed Homogenizer
- Illumina MiSeq
- Illumina NextSeq 500
- NGS Library QC
- Qubit 3.0 Fluorometer
- RNA Isolation/Extraction
- Thermo Scientific Savant DNA 120 SpeedVac
Ravi Ranjan, MSc, PhD
Ravi joined IALS in 2017, as a Senior Research Fellow/Director of the Genomics Resource Laboratory at UMass Amherst. He is involved in managing the Genomics Facility, and providing Next-Generation Sequencing (NGS) services, from sample preparation to generation of high throughput sequencing data. He provides instrumentation training, NGS project consultation, technical assistance, and documentation for grants application and manuscripts. His research interests are in the field of Molecular Microbiology and Microbiome research. He is interested to introduce new technologies and develop new SOPs related to NGS.
Freezer Program and Supply Center
Dear UMass IDT Portal Users –
"UMass IDT Portal Temporarily Discontinue from July 01, 2018"
Due to ongoing logistical and technical issues with managing the portal from IDT, we plan to freeze (temporarily discontinue) the portal from July 01, 2018 onwards. IDT plans to roll out the renewed portal. Once we resolve the ongoing issues, we will be live again.
Meanwhile, users can plan to switch and place the orders from IDT directly or their preferred vendor.
We apologize for any inconvenience. Thank you for understanding and your kind cooperation.
Ravi Ranjan, PhD
Genomics Resource Lab, UMass Amherst
List of Reagents currently provided by Genomics Facility
|Vendor||Product Name||Cat/SKU #||Vol/Reaction||Fee|
|Life Tech||Qubit dsDNA BR Assay||Q38253||1 assay and tube||$1.10|
|Life Tech||Qubit dsDNA HS Assay Kit||Q32854||1 assay and tube||$1.10|
|Life Tech||Qubit RNA BR Assay Kit||Q10210||1 assay and tube||$1.90|
|Life Tech||Qubit RNA HS Assay Kit||Q32852||1 assay and tube||$1.90|
|Teknova||10 mMTris-HCl + 0.1% Tween 20||T7724||1 ml||$3.50|
|Beckman Coulter||Agencourt AMPure XP Beads||A63880||1 ml||$27.00|
|Diagenode||Bioruptor Pico Tube (0.2 ml)||C30010020||1 tube||$0.75|
|MP Biomedicals||FastPrep 24 5G Homogenizer
Tubes(2 ml tube with Green cap)
|Use the form (GRL-Reagent_v2) to request reagents.
Mention reagent amount and pick up time in the form. Contact GRL for reagent availability and pick-up.
Rates subject to change any time. Customers will be charged, based on the order date.
Reagents availability subject to change any time.
Updated January 21, 2018
The Genomics Research Laboratory at Institute for Applied Life Sciences, is looking for volunteer(s) to assist with day to day routine lab activities, managing inventory and instruments, assisting with protocol development (schedule and experience permitting). Ideal for students who are looking forward to pursue research. For more information visit www.umass.edu/ials/genomics
Requirements: Undergraduate (freshman) preferred with biology back ground. Flexible lab hours. Lab hours can be coordinated with class schedule. Please note this is temporary and an unpaid position. Interested candidates please send CV at email@example.com with subject heading: GRL_Volunteer_(your name)
For further information contact
Ravi Ranjan, PhD,
Director, Genomics Research Laboratory
Morrill 1, N330
Phone Office: 413-577-4501