1348434310000

Genomics Core Facility

Providence, Rhode Island, US

The Genomics Core Facility provides state-of-the-art genomics and proteomics equipment to researchers at Brown University and to the entire Rhode Island research community, as well as assistance with experimental design, trouble shooting, and data analysis.

The Genomics Core Facility offers Affymetrix microarray and Illumina NextGeneration services to the academic community and external customers.

This facility has received partial support from the National Institutes of Health (NCRR grant Numbers P30RR031153, P30 RR031153, P20RR018728, and S10RR02763), National Institute of Genermal Medical Sciences P30GM103410, National Science Foundation (EPSCoR grant No 0554548), Lifespan Rhode Island Hospital, and the Division of Biology and Medicine, Brown University.

Publications:
Next Generation Sequencing manuscripts
Reich A, Klatsky P, Carson S, Wessel G. (2011) The transcriptome of a human polar body accurately... Show more »

The Genomics Core Facility provides state-of-the-art genomics and proteomics equipment to researchers at Brown University and to the entire Rhode Island research community, as well as assistance with experimental design, trouble shooting, and data analysis.

The Genomics Core Facility offers Affymetrix microarray and Illumina NextGeneration services to the academic community and external customers.

This facility has received partial support from the National Institutes of Health (NCRR grant Numbers P30RR031153, P30 RR031153, P20RR018728, and S10RR02763), National Institute of Genermal Medical Sciences P30GM103410, National Science Foundation (EPSCoR grant No 0554548), Lifespan Rhode Island Hospital, and the Division of Biology and Medicine, Brown University.

Publications:
Next Generation Sequencing manuscripts
Reich A, Klatsky P, Carson S, Wessel G. (2011) The transcriptome of a human polar body accurately reflects its sibling oocyte. J Biol Chem
PMID: 21953461

Stephen A. Smith, Nerida G. Wilson, Freya E. Goetz, Caitlin Feehery, Sónia C. S.
Andrade, Greg W. Rouse, Gonzalo Giribet, Casey W. Dunn (2011) Resolving the
evolutionary relationships of molluscs with phylogenomic tools. Nature
PMID: 22031330

Stefan Siebert, Mark D. Robinson, Sophia C. Tintori, Freya Goetz, Rebecca R. Helm,
Stephen A. Smith, Nathan Shaner, Steven H. D. Haddock, Casey W. Dunn (2011) Differential Gene Expression in the Siphonophore Nanomia bijuga (Cnidaria) Assessed with Multiple Next-Generation Sequencing Workflows. PLoS ONE 6(7):e22953
PMCID: PMC3146525

Other Manuscripts
Wood JG, Hillenmeyer S, Lawrence C, Chang C, Hosier S, Lightfoot W, Mukherjee E, Jiang N, Schorl C, Brodsky AS, Neretti N, Helfand SL (2010) Chromatin remodeling in the aging genome of Drosophila. Aging Cell 9(6):971-8. doi: 10.1111/j.1474-9726.2010.00624.x. Epub 2010 Oct 21.

John E. McGeary, Volkan Gurel, Valerie S. Knopik, James Spaulding, John McMichael (2011) Effects of nerve growth factor (NGF), fluoxetine, and amitriptyline on gene expression profiles in rat brain. Neuropeptides 245(5):317-22
PMID:21820738

GV Gee, ML Stanifer, BC Christensen, WJ Atwood, D Ugolini, S Bonassi, MB Resnick, HH Nelson, CJ Marsit and KT Kelsey (2010) SV40 associated miRNAs are not detectable in mesotheliomas. British Journal of Cancer 103(6):885-8
PMID:20717113

Johannes Bauer, Michael Antosh, Chengyi Chang, Christoph Schorl, Santharam Kolli, Nicola Neretti, and Stephen L. Helfand (2010) Comparative transcriptional profiling identifies takeout as a gene that regulates life span. Aging 2(5): 298-310
PMID:20519778

Michael W. Bronson, Sara Hillenmeyer, Richard W. Park, and Alexander S. Brodsky (2010) Estrogen Coordinates Translation and Transcription, Revealing a Role for NRSF in Human Breast Cancer Cells. Molecular Endocrinology 24(6):1120-35
PMID:20392875

Gretchen V. Gee, Devin C. Koestler, Brock C. Christensen, David J. Sugarbaker, Donatella Ugolini, Giovanni P. Ivaldi, Murray B. Resnick, E. Andres Houseman, Karl T. Kelsey and Carmen J. Marsit (2010) Downregulated microRNAs in the differential diagnosis of malignant pleural mesothelioma. International Journal of Cancer 127(12):2859-69 PMID:21351265

Işin Çakir, Mario Perello, Omar Lansari, Norma J. Messier, Charles A. Vaslet, Eduardo A. Nillni (2009) Hypothalamic Sirt1 Regulates Food Intake in a Rodent Model System. PloS ONE 4(12):e8322. doi:10.1371/journal.pone.0008322 PMID:20020036

Lindsay A. Lovasco, Kimberly A. Seymour, Kathleen Zafra, Colin W. O’Brien, Christoph Schorl and Richard N. Freiman (2009) Accelerated Ovarian Aging in the Absence of the Transcription Regulator TAF4B in Mice1. Biology of Reproduction 82(1):23-34 PMID:19684329

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Affymetrix Microarray
Price on request

(Note: We will be changing our rates. Please request a quote for an updated price.)

Human/Mouse/Rat ST Microarrays: $302 total
Arrays: $175
Expression: $52
Stain and Wash: $20
Labeling: $35
Affymetrix User Fee: $20

Rhesus Macaque Array: $535 total
Array: $400
Expression: $95
... Show more »

(Note: We will be changing our rates. Please request a quote for an updated price.)

Human/Mouse/Rat ST Microarrays: $302 total
Arrays: $175
Expression: $52
Stain and Wash: $20
Labeling: $35
Affymetrix User Fee: $20

Rhesus Macaque Array: $535 total
Array: $400
Expression: $95
Stain and Wash: $20
Affymetrix User Fee: $20

Drosophila Genome 2.0: $385 total
Array: $250
Expression: $95
Stain and Wash: $20
Affymetrix User Fee: $20

Human Genome U133 Plus 2.0: $535 total
Array: $400
Expression: $95
Stain and Wash: $20
Affymetrix User Fee: $20

Mouse Genome 430 2.0: $535 total
Array: $400
Expression: $95
Stain and Wash: $20
Affymetrix User Fee: $20

GeneChip miRNA 2.0 Array: $305 total
Array: $265
Stain and Wash: $20
Affymetrix User Fee: $20

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Affymetrix RNA microarray
Price on request

(Note: We will be changing our rates. Please request a quote for an updated price.)

Mouse/Human/Rat ST Arrays Total per Array $301
(Includes Array $175, Expression $52, Stain/Wash $20, Labeling $35, Affymetrix User Fee $19)

Rhesus Macaque Arrays Total per Array $534
(Includes Array $400, Expression $95, Stain/Wash $20,... Show more »

(Note: We will be changing our rates. Please request a quote for an updated price.)

Mouse/Human/Rat ST Arrays Total per Array $301
(Includes Array $175, Expression $52, Stain/Wash $20, Labeling $35, Affymetrix User Fee $19)

Rhesus Macaque Arrays Total per Array $534
(Includes Array $400, Expression $95, Stain/Wash $20, Affymetrix User Fee $19)

Drosophila Genome 2.0 Total per Array $384
(Includes Array $250, Expression $95, Stain/Wash $20, Affymetrix User Fee $19)

Human Genome U133 Plus 2.0 Total per Array $534
(Includes Array $400, Expression $95, Stain/Wash $20, Affymetrix User Fee $19)

Mouse Genome 430 2.0 Total per Array $534
(Includes Array $400, Expression $95, Stain/Wash $20, Affymetrix User Fee $19)

Genomics Core Facility processes RNA and DNA for hybridization to Affymetrix arrays such as 3' IVT arrays, Gene ST arrays and tiling arrays to investigate global gene expression as well as the transcriptional profiling in a wide range of organisms. Depending on the array type the amount of required input nucleic supplied by the interested experimentator varies from less than 50 ng to several ug. Each nucleic acid sample will be analyzed for its quality and quantity, amplified, fragmented, and terminally labeled before being hybridized to an array, following a standardized protocol. Bound nucleic acids will be visualized by fluorescent dye conjugated antibody detection of biotinylated nucleic acid using a powerful high resolution scanner. The end user will be provided with "Cel" files containing all experimental data required for end user bioinformatics analysis.

If desired, the Core Facility can also provide data analysis for expression arrays using Partek's Genomics Suite software. Please contact the facility to discuss any planned microarray projects.

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Affymetrix microRNA (miRNA) Microarray
Price on request

(Note: We will be changing our rates. Please request a quote for an updated price.)

GeneChip miRNA Array Total per Array $239
(Includes Array $200, Stain/Wash $20, Affymetrix User Fee $19)

(Note: We will be changing our rates. Please request a quote for an updated price.)

GeneChip miRNA Array Total per Array $239
(Includes Array $200, Stain/Wash $20, Affymetrix User Fee $19)

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DNA/RNA Analysis and Quality Control
Price on request

(Note: We will be changing our rates. Please request a quote for an updated price.)

BioAnalyzer Set Up Fee Run $522
BioAnalyzer High Sensitivity DNA Chip Sample $6.56
BioAnalyzer RNA 6000 Nano Kit Sample $3.65
BioAnalyzer DNA 1000 Kit Sample $3.88
BioAnalyzer RNA 6000 Pico Kit Sample $3.96

The Core Facility staff offers... Show more »

(Note: We will be changing our rates. Please request a quote for an updated price.)

BioAnalyzer Set Up Fee Run $522
BioAnalyzer High Sensitivity DNA Chip Sample $6.56
BioAnalyzer RNA 6000 Nano Kit Sample $3.65
BioAnalyzer DNA 1000 Kit Sample $3.88
BioAnalyzer RNA 6000 Pico Kit Sample $3.96

The Core Facility staff offers analysis of nucleic acid samples (both RNA and DNA) using the Agilent 2100 Bioanalyzer. This instrument provides an objective measure of nucleic acid quality that is more informative than traditional agarose gel results, is faster, and eliminates the use of ethidium bromide. The bioanalyzer chip uses microfluidics technology and voltage induced size separation in gel-filled chambers detecting nucleic acids with laser induced fluorescence. The resulting electropherogram trace is converted into a gel like image. For RNA, the Agilent software computes a RNA Integrity Number (RIN) using a number of features from the electropherogram, such as the ratio of 28S to 18S ribosomal RNA. This value provides a qualitative assessment of the RNA. DNA assays on the bioanalyzer can be used to assess the size and purity of DNA for downstream applications such as cloning or NextGen sequencing.

The user provides samples at the required concentration and Core Facility staff will run the samples on the bioanalyzer chip and email the results to the user in a easily viewable PDF file format. Analysis can usually be arranged within 2 business days. Please contact the facility staff for specifics on sample preparation.

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Agilent 2100 Bioanalyzer
Bioinformatics
Price on request

(Note: We will be changing our rates. Please request a quote for an updated price.)

Analysis for expression arrays using Partek's Genomics Suite software.

(Note: We will be changing our rates. Please request a quote for an updated price.)

Analysis for expression arrays using Partek's Genomics Suite software.

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qPCR
Quantitative PCR
Price on request

(Note: We will be changing our rates. Please request a quote for an updated price.)

ABI 7900 qPCR Run $85

(Note: We will be changing our rates. Please request a quote for an updated price.)

ABI 7900 qPCR Run $85

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DNA Microarrays
Price on request
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MicroRNA (miRNA) Microarray
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RNA Microarray Platforms
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Computational Modeling
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Biology
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Biostatistics & Bioinformatics
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PCR
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RNA Microarray
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DNA
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RNA
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Biochemistry & Molecular Biology
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Nucleic Acid Services
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2017-08-24 12:39:58 -0500

Net Promoter Score of 10 received for Affymetrix RNA microarray.

Additional Ratings: satisfaction with deliverable: 10, satisfaction with timeliness: 10.
August 14, 2015

Positive review received for Affymetrix RNA microarray:

"I am very happy with this service. They always keep you updated and the job was well done. I would like to ask them for array again."

February 7, 2015

Positive review received for Affymetrix RNA microarray:

"Very fast, very reasonably priced, very professional, and willing to answer questions about the results. I think they are a great outfit and gave me extreme confidence that the quality of data was top notch."

August 13, 2013

Positive review received for RNA Microarray Platforms:

"Christoph Schorl made our first experience using Science Exchange very pleasant. Our first impression was the very reasonable price! Working through the project with his lab was quite easy and he readily answered questions or provided feedback as we needed. We will happily work with him again in the future!"

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