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UB Genomics and Bioinformatics Core

Buffalo, New York, US

UB's Genomics and Bioinformatics Core serves not only the University but Roswell Park Cancer Institute, WNY Businesses, and other institutions nationwide. They are proud to be the first next-generation sequencing service provider in Western New York. Next-Gen Sequencing services are provided using the illumina HiSeq 2500, and Ion Torrent PGM and Ion Proton platforms. The core also provides expression analysis services on all Affymetrix platforms including 3'expression, miRNA, exon, and gene arrays.

UB's Genomics and Bioinformatics Core maintains state of the art equipment as well as experienced staff to support the region's researchers. A direct connection to the Center for Computational Research's high performance computing cluster allows the Core to analyze data rapidly and provide timely results to researchers.

Recent Publications

  • (miRNA-seq – Illumina – HiSeq) Singhal, R.;... Show more »

UB's Genomics and Bioinformatics Core serves not only the University but Roswell Park Cancer Institute, WNY Businesses, and other institutions nationwide. They are proud to be the first next-generation sequencing service provider in Western New York. Next-Gen Sequencing services are provided using the illumina HiSeq 2500, and Ion Torrent PGM and Ion Proton platforms. The core also provides expression analysis services on all Affymetrix platforms including 3'expression, miRNA, exon, and gene arrays.

UB's Genomics and Bioinformatics Core maintains state of the art equipment as well as experienced staff to support the region's researchers. A direct connection to the Center for Computational Research's high performance computing cluster allows the Core to analyze data rapidly and provide timely results to researchers.

Recent Publications

  • (miRNA-seq – Illumina – HiSeq) Singhal, R.; Bard, J.E.; Nowak, N.J.; Buck, M.; Kandel, E.S. (2013) FOXO1 regulates expression of a microRNA cluster on X chromosome. Aging, 5(5): 347-356.
  • (Ultra-Low RNA-Seq – Illumina HiSeq) Patel M.; Hu, Z.; Bard, J.; Jamison, J.; Cai, Q.; Hu, B.H. (2013) Transcriptome characterization by RNA-Seq reveals the involvement of the complement components in noise-traumatized rat cochleae. Neuroscience, 248C: 1-16.
  • (ChIP-Seq – Illumina HiSeq) Garcia, H.; Miecznikowski, J.C.; Safina, A.; Commane, M.; Ruusulehto, A., Kilpinen, S.; Leach, R.W.; Attwood, K.; Li, Y.; Degan, S.; Omilian, A.R.; Guryanova, O; Papantonopoulou, O.; Wang, J.; Buck, M.; Liu, S., Morrison, C., Gurova, K.V. (2013) Facilitates chromatin transcription complex is an “accelerator” of tumor transformation and potential marker and target of aggressive cancers. Cell Rep., 4(1): 159-173.
  • (Affymetrix) Dolan, J.M.; Meng, H.; Sim, F.J., Kolega, J. (2013) Differential gene expression by endothelial cells under positive and negative streamwise gradients of high wall shear stress. Am J Physiol Cell Physiol. DOI:10.1152/ajpcell.00315.2012.
  • (Illumina HiSeq) Liu, X.; Hu, Q.; Liu, S.; Tallo, L.J.; Sadzewicz, L.; Schettine, C.A.; Nikiforov, M.; Klyushnenkova, E.N.; Ionov, Y. (2013) Serum antibody repertoire profiling using in silico antigen screen. PLoS ONE, 8(6): e67181. doi:10.1371/journal.pone.0067181
  • (RNA-Seq – Illumina HiSeq) Taylor, D.J.; Ballinger, M.J.; Bowman, S.M.; Bruenn, J.A. (2013) Virus-host co-evolution under a modified nuclear genetic code. PeerJ, e50 http://dx.doi.org/10.7717/peerj.50.
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RNA Sequencing
Price on request

Genomic alignment, and quantification of Gene and isoform level expression can be preformed via the HTSeq or Cufflinks algorithms and data visualization is optional via DESeq2 or CummeRBund.

Genomic alignment, and quantification of Gene and isoform level expression can be preformed via the HTSeq or Cufflinks algorithms and data visualization is optional via DESeq2 or CummeRBund.

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ChIP-Seq
Chromatin Immunoprecipitation Sequencing
Price on request

Genomic alignment, quality assessment using ENCODE standards, peak calling and visualization are offered as standard analysis for projects sequenced at our facility.

Genomic alignment, quality assessment using ENCODE standards, peak calling and visualization are offered as standard analysis for projects sequenced at our facility.

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Small RNA Sequencing
Price on request

miRNA quantifications against the most up-to-date miRBASE is available through our commercial license of the CLC Genomics Workbench product.

miRNA quantifications against the most up-to-date miRBASE is available through our commercial license of the CLC Genomics Workbench product.

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Illumina Sequencing
Price on request

illumina HiSeq2500

Researchers interested in illumina sequencing services are encouraged to contact us prior to submitting samples. During the consultation period we will address any researcher questions and discuss sample preparation, number of samples, multiplexing options, type of sequencing run, number of flow cell... Show more »

illumina HiSeq2500

Researchers interested in illumina sequencing services are encouraged to contact us prior to submitting samples. During the consultation period we will address any researcher questions and discuss sample preparation, number of samples, multiplexing options, type of sequencing run, number of flow cell lanes, and data analysis. When the experimental details are agreed upon, the core can provide the researcher with a custom cost estimate for the project if desired.

illumina MiSeq

The newest instrument in the core facility is the illumina MiSeq platform. This platform specializes in more targeted sequencing geared toward smaller genomes and smaller search space investigation. This includes Amplicon, Exome and Bacterial 16S sequencing. Through our partnership with Buffalo’s Women’s Health Initiative, we will be analyzing the microbiome of several thousand Western New York women.

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Biology
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Biochemistry & Molecular Biology
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Biomolecular Interaction Analysis
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Protein-DNA Interaction Analysis
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Chromatin Immunoprecipitation (ChIP) Assays
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Nucleic Acid Services
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DNA Services
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DNA Sequencing
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Next Generation Sequencing (NGS)
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RNA Services
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