1363983501859 145375dfb8ed1b7723376b467bd3f18f

UR Genomics Research Center

ic 9.0/10 Overall Rating 100% Positive
ic 30 Orders Completed
Rochester, New York, US

About UR Genomics Research Center

The GRC (grc-srl.urmc.edu) is a core resource that supports all aspects of genomics research at the University of Rochester and to external US academic institutions.

Instrumentation: Illumina Hiseq2500v4, 2 Illumina Miseqs, Fluidigm C1, 10X Genomics Chromium Controller, Agilent Bioanalyzers, Agilent... Show more »

The GRC (grc-srl.urmc.edu) is a core resource that supports all aspects of genomics research at the University of Rochester and to external US academic institutions.

Instrumentation: Illumina Hiseq2500v4, 2 Illumina Miseqs, Fluidigm C1, 10X Genomics Chromium Controller, Agilent Bioanalyzers, Agilent TapeStation, QuantStudio 12k Flex qPCR system with OpenArray capability, Covaris S2 system, QX100 digital droplet PCR system, Pippin Prep, Eppendorf EpMotion 5070 and 5075 liquid handling systems, and various thermocyclers.

RNA Sequencing:
Standard sample requirements: If providing tissue or cells, we require enough material to obtain at least 0.2 - 0.5ug of total RNA. For purified RNA, we recommed submiting at least 0.2ug of purified total RNA in ultra pure water. DNase treatment of RNA is necessary and can be done prior to submission using Turbo DNase or the GRC will perform this for a fee. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and the Agilent Bioanalyzer 2100 profile. RIN (RNA Integrity Number) values of >7.0 and OD260/280 = 2.0 - 2..2 are recommended for RNA-seq library preparation. For samples with low RNA abundance, there are alterantive methods that can be used for RNA inputs of 1ng and below.

Small RNA Sequencing
If providing tissue or cells, we require enough material to obtain at least 1-2ug of total RNA. For purified RNA, we recommed submiting at least 1-2ug of purified total RNA or enriched small RNA from 1-2ug total RNA (~50ng) in ultra pure water. DNase treatment of RNA is necessary and can be done prior to submission using Turbo DNase or the GRC will perform this for a fee. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and the Agilent Bioanalyzer 2100 profile.

DNA Sequencing:
If providing tissue, blood or cells, we require enough material to obtain at least 2ug of total gDNA. For purified gDNA, we recommed submiting at least 2ug of purified total gDNA in ultra pure water. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and the Agilent Bioanalyzer 2100 profile. We recommend DNA purity with an OD260/280=1.8-2.0 without degradation or RNA contamination.

ChIP Sequencing:
Please submit at least 20-50ng of ChIP or capture kit enriched DNA in ultra pure water. We strongly recommend verification of the ChIP samples with qPCR prior to submission for ChIP-seq library contruction. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and the Agilent Bioanalyzer 2100 profile. We recommend DNA purity with an OD260/280=1.8-2.0 without RNA contamination and a size profile os 200-500bp.

Standard deliverables:

Raw FASTQ files
Quality filtered FASTQ files
Alignment files
FASTQC quality metrics for each sample sequenced
FPKM normalized differential gene expression results
Gene counts
Differentially expressed genes filtered for significance (CI>95%)
Readme file describing the process

Show less

Certifications & Qualifications

Agilent Service Provider

Our Services (41)


ic

DNA Sequencing Data Analysis

Price on request
Request a quote for more information about this service.

ic

ATAC-Seq

Assay for Transposase-Accessible Chromatin with High Throughput Sequencing
Starting at $120.00 per sample

We require a consultation prior to performing or quote for ATAC-seq projects.

We require a consultation prior to performing or quote for ATAC-seq projects.

Show less

ic

Single Cell RNA-Seq

Price on request

Fluidigm C1 or 10X genomics platform

Highly viable cells required for capture. Fluidigm C1 is capable of capturing up to ~800 single cells and 10X genomics up to ~50,000 cells. Price includes basic data processing. Additional analyses available.

Fluidigm C1 or 10X genomics platform

Highly viable cells required for capture. Fluidigm C1 is capable of capturing up to ~800 single cells and 10X genomics up to ~50,000 cells. Price includes basic data processing. Additional analyses available.

Show less

ic

Low Input/Single Cell RNA Sequencing

Starting at $315.00 per sample

Standard sample requirements:

If providing tissue or cells, we require enough material to obtain at least 5-10ng of total RNA. For purified RNA, we recommed submiting at least 10ng of purified total RNA in ultra pure water. Sample quantity and quality will be verified with fluorometry (Qubit) and the Agilent Bioanalyzer 2100... Show more »

Standard sample requirements:

If providing tissue or cells, we require enough material to obtain at least 5-10ng of total RNA. For purified RNA, we recommed submiting at least 10ng of purified total RNA in ultra pure water. Sample quantity and quality will be verified with fluorometry (Qubit) and the Agilent Bioanalyzer 2100 profile. RIN (RNA Integrity Number) values of >7.0 and OD260/280 = 2.0 - 2.2 are recommended for RNA-seq library preparation.

Show less
Illumina HiSeq 2500 sequencing system QuantStudio 12K Flex

ic

Whole Genome Bisulfite Sequencing

Starting at $384.00 per sample

Sample requirements:
If providing tissue, blood or cells, we require enough material to obtain at least 1ug of total gDNA. For purified gDNA, we recommed submiting at least 1ug of purified total gDNA in ultra pure water. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and... Show more »

Sample requirements:
If providing tissue, blood or cells, we require enough material to obtain at least 1ug of total gDNA. For purified gDNA, we recommed submiting at least 1ug of purified total gDNA in ultra pure water. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and gel electropheresis. We recommend DNA purity with an OD260/280=1.8-2.0 without degradation or RNA contamination.

Show less
QuantStudio 12K Flex

ic

Truseq RNA Library Preparation

Starting at $250.00 per sample

TruSeq RNA v2 $250.00
TruSeq Stranded mRNA-seq $250.00
TruSeq Total stranded RNA-seq $350.00
(Human, Mouse, Rat)
TruSeq Small RNA-seq $350.00
TruSeq DNA-seq (nano kit) $284.00
TruSeq PCR Free DNA ... Show more »

TruSeq RNA v2 $250.00
TruSeq Stranded mRNA-seq $250.00
TruSeq Total stranded RNA-seq $350.00
(Human, Mouse, Rat)
TruSeq Small RNA-seq $350.00
TruSeq DNA-seq (nano kit) $284.00
TruSeq PCR Free DNA $294.00

Standard sample requirements:

If providing tissue or cells, we require enough material to obtain at least 0.2 - 0.5ug of total RNA. For purified RNA, we recommed submiting at least 0.2ug of purified total RNA in ultra pure water. DNase treatment of RNA is necessary and can be done prior to submission using Turbo DNase or the GRC will perform this for a fee. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and the Agilent Bioanalyzer 2100 profile. RIN (RNA Integrity Number) values of >7.0 and OD260/280 = 2.0 - 2.2 are recommended for RNA-seq library preparation. For samples with low RNA abundance, there are alterantive methods that can be used for RNA inputs of 1ng and below.

Show less
QuantStudio 12K Flex

ic

Whole Exome Sequencing (WES)

Starting at $600.00 per sample

We used the Agilent SureSelect WES V6+UTR capture kit. Typically we target >50-100x coverage per sample with pair end sequencing (PER125). This if the cost for library preparation only, sequencing is not included.

Deliverables: Raw and quality filtered data, alignment files, SNP and InDel calls using SAM tools.

We used the Agilent SureSelect WES V6+UTR capture kit. Typically we target >50-100x coverage per sample with pair end sequencing (PER125). This if the cost for library preparation only, sequencing is not included.

Deliverables: Raw and quality filtered data, alignment files, SNP and InDel calls using SAM tools.

Show less
QuantStudio 12K Flex Agilent SureSelect

ic

Illumina Sequencing

Starting at $1,070.00 per lane

Single End Read (SER) [Illumina HiSeq2500v4], per lane price
Sequencing 1x50: $1,070.00
Sequencing 1x100: $1,392.00

Pair End Read (PER) [Illumina HiSeq2500v4], per lane price
Sequencing 2x50: $2,005.00
Sequencing 2x125: $2,651.00
Sequencing 2x150: $3,181.00
Sequencing 2x250: $3,903.00

Sequencing costs include basic... Show more »

Single End Read (SER) [Illumina HiSeq2500v4], per lane price
Sequencing 1x50: $1,070.00
Sequencing 1x100: $1,392.00

Pair End Read (PER) [Illumina HiSeq2500v4], per lane price
Sequencing 2x50: $2,005.00
Sequencing 2x125: $2,651.00
Sequencing 2x150: $3,181.00
Sequencing 2x250: $3,903.00

Sequencing costs include basic data analysis:
* Demultiplexing
* Read processing (filtering based on complexity and end trimming based on quality scores)
* Mapping to reference genome
* Differential expression analysis

Show less
QuantStudio 12K Flex

ic

Nextera Library Preparation

Starting at $90.00 per sample

Instrumentation: Illumina HiSeq2500 or MiSeq

Sample requirements:
If providing tissue, blood or cells, we require enough material to obtain at least 2ug of total gDNA. For purified gDNA, we recommed submiting at least 2ug of purified total gDNA in ultra pure water. Sample quantity and quality will be verified with... Show more »

Instrumentation: Illumina HiSeq2500 or MiSeq

Sample requirements:
If providing tissue, blood or cells, we require enough material to obtain at least 2ug of total gDNA. For purified gDNA, we recommed submiting at least 2ug of purified total gDNA in ultra pure water. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and gel electropheresis. We recommend DNA purity with an OD260/280=1.8-2.0 without degradation or RNA contamination.

Show less
QuantStudio 12K Flex

ic

ChIP-Seq Library Preparation

Starting at $280.00 per sample

ChIP-seq Library Preparation:

We use the Illumina HiSeq2500 for the majority of our ChIP-seq projects.

Sample requirements:
Please submit at least 20-50ng of ChIP or capture kit enriched DNA in ultra pure water. We strongly recommend verification of the ChIP samples with qPCR prior to submission for ChIP-seq library... Show more »

ChIP-seq Library Preparation:

We use the Illumina HiSeq2500 for the majority of our ChIP-seq projects.

Sample requirements:
Please submit at least 20-50ng of ChIP or capture kit enriched DNA in ultra pure water. We strongly recommend verification of the ChIP samples with qPCR prior to submission for ChIP-seq library contruction. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and the Agilent Bioanalyzer 2100 profile. We recommend DNA purity with an OD260/280=1.8-2.0 without RNA contamination and a size profile of 200-500bp.

Show less
QuantStudio 12K Flex Illumina HiSeq 2500

ic

NGS Data Analysis

Next generation sequencing data analysis
Starting at $125.00 per hour

Raw data processing to remove low quality reads, alignment to reference genome using SHRIMP2 or BWA, and differential expression analysis using CuffDiff2 or EdgeR. We also can provide de novo assembly construction.

Raw data processing to remove low quality reads, alignment to reference genome using SHRIMP2 or BWA, and differential expression analysis using CuffDiff2 or EdgeR. We also can provide de novo assembly construction.

Show less
QuantStudio 12K Flex

ic

Truseq DNA Library Preparation

Starting at $284.00 per sample

TruSeq DNA-seq (Nano kit): $284.00
TruSeq PCR-free DNA: $294.00

Sample requirements: 250ng DNA for Nano or 2ug DNA for PCR-Free library.

Sample requirements:
If providing tissue, blood or cells, we require enough material to obtain at least 0.250 - 2ug of total gDNA. For purified gDNA, we recommed submiting at least... Show more »

TruSeq DNA-seq (Nano kit): $284.00
TruSeq PCR-free DNA: $294.00

Sample requirements: 250ng DNA for Nano or 2ug DNA for PCR-Free library.

Sample requirements:
If providing tissue, blood or cells, we require enough material to obtain at least 0.250 - 2ug of total gDNA. For purified gDNA, we recommed submiting at least 0.250 - 2ug of purified total gDNA in ultra pure water. Sample quantity and quality will be verified with spectrophotometry (NanoDrop 1000), fluorometry (Qubit), and gel electropheresis. We recommend DNA purity with an OD260/280=1.8-2.0 without degradation or RNA contamination.

Show less
QuantStudio 12K Flex

ic

RNA Extraction and Purification

Starting at $32.00 per sample

Trizol: $40.00 per sample
Qiagen: $32.00 per sample

Trizol: $40.00 per sample
Qiagen: $32.00 per sample

Show less
QuantStudio 12K Flex

ic

RNA Quality Control

Starting at $18.00 per sample

Includes Nanodrop or Qubit, and Agilent Bioanalyzer 2100 analysis

Includes Nanodrop or Qubit, and Agilent Bioanalyzer 2100 analysis

Show less
Agilent Bioanalyzer Qubit 2.0 fluorometer NanoDrop 2000 QuantStudio 12K Flex

ic

16S rRNA Sequencing

Starting at $60.00 per sample

The listed price is includes library construction, pooling, MiSeq 2x300 run, and data analysis through OTU table generation. MiSeq runs only with or without analysis is an option.

Instrumentation: Illumina MiSeq

We can multiplex up to 200 samples per run and we use v3 2x300 Illumina MiSeq reagents.

Turnaround... Show more »

The listed price is includes library construction, pooling, MiSeq 2x300 run, and data analysis through OTU table generation. MiSeq runs only with or without analysis is an option.

Instrumentation: Illumina MiSeq

We can multiplex up to 200 samples per run and we use v3 2x300 Illumina MiSeq reagents.

Turnaround time: ~4-6 weeks including 16s library construction (DNA is provided) or 3-4 weeks for just the MiSeq run. Other cycle options are available depending on need.

Deliverables:

  • Raw data through OTU table data.
  • Secondary analysis can be performed using our NGS Data analysis service.

We use the protocol described here for 16s Metagenomic Analysis:

Fadrosh et al.
Microbiome. 2014 Feb 24;2(1):6. doi: 10.1186/2049-2618-2-6.

Show less
QuantStudio 12K Flex

ic

Digital PCR

Price on request
Request a quote for more information about this service.
QuantStudio 12K Flex

ic

Plasmid Sequencing

Price on request
Request a quote for more information about this service.

ic

Genotyping Services

Price on request
Request a quote for more information about this service.

ic

DNA Sequencing

Price on request
Request a quote for more information about this service.

ic

DNA Fragmentation Assays

Price on request
Request a quote for more information about this service.

ic

Deep Sequencing

Price on request
Request a quote for more information about this service.

ic

Amplicon Sequencing

Price on request
Request a quote for more information about this service.

ic

DNA Library Preparation

Price on request
Request a quote for more information about this service.

ic

Biomolecular Interaction Analysis

Price on request
Request a quote for more information about this service.

ic

Biology

Price on request
Request a quote for more information about this service.

ic

RNA Services

Price on request
Request a quote for more information about this service.

ic

Next Generation Sequencing (NGS)

Price on request
Request a quote for more information about this service.

ic

PCR

Price on request
Request a quote for more information about this service.

ic

Targeted Gene Sequencing

Price on request
Request a quote for more information about this service.

ic

Biochemistry & Molecular Biology

Price on request
Request a quote for more information about this service.

ic

Cell-Based Assays

Price on request
Request a quote for more information about this service.

ic

RNA Sequencing

Price on request
Request a quote for more information about this service.

ic

Nucleic Acid Data Analysis

Price on request
Request a quote for more information about this service.

ic

Cell Death Assays

Price on request
Request a quote for more information about this service.

ic

DNA Services

Price on request
Request a quote for more information about this service.

ic

Protein-DNA Interaction Analysis

Price on request
Request a quote for more information about this service.

ic

Nucleic Acid Services

Price on request
Request a quote for more information about this service.

ic

Exome Sequencing Services

Price on request
Request a quote for more information about this service.

ic

Nucleic Acid Analysis

Price on request
Request a quote for more information about this service.

ic

Epigenetic Studies

Price on request
Request a quote for more information about this service.

ic

Sequencing Data Analysis

Price on request
Request a quote for more information about this service.

Not finding what you're looking for?

Get info on this provider's capabilities without requesting a quote.
Missing Avatar

John Ashton

Associate Director UR Genomics Research Center
Missing Avatar

Steven Gill

Director
Missing Avatar

Michelle Zanche

Laboratory Manager
FileType/PDF Created with Sketch.

truseq_dna_sampleprep_guide_15026486_c.pdf

FileType/PDF Created with Sketch.

truseq_mrna.pdf

FileType/PDF Created with Sketch.

truseq_nano_dna_sample_prep_kit.pdf

FileType/PDF Created with Sketch.

truseq_pcr_free_sample_prep.pdf

FileType/PDF Created with Sketch.

truseq-small-rna-sample-prep-guide-15004197-f.pdf

  • Positive review for Low Input/Single Cell RNA Sequencing:

    March 2017

    "Great service! I had an opportunity to discuss over the phone the details of my project which was important to me. Results are of very high quality. Thanks! Vasily."

  • Positive review for Low Input/Single Cell RNA Sequencing:

    October 2016

    "Quick service, through study and reasonable price. I think this is great!"

  • Positive review for RNA Sequencing:

    April 2015

    "John is a great guy and everything else is good."

  • Positive review for RNA Sequencing:

    October 2014

    "I highly recommend John and his group. The quote was very reasonable in terms of its cost, and the quality of analysis was superb. The analysis was done very professionally and much faster than we expected. Thank you! I would definitely use this service again."

  • Positive review for RNA Sequencing:

    May 2014

    "Yes I would"

  • Positive review for RNA Sequencing:

    February 2014

    "John was great."

UR Genomics Research Center has not received any endorsements.