The Genomics Shared Resource (GSR), directed by Olivier Couronne, is operated jointiy by the HICCC and the Judith H. Sulzberger Columbia Genome Center, in the newly created Department of Systems Biology, chaired by Dr. Andrea Califano. The GSR occupies approximately 3,000 sq. ft on the 4th and 5th floor of the Berrie Research Building at Columbia University Medical Center. The GSR provides three highly complementary services to HICCC Investigators, Including: (a) high-quality, highly cost-effective next-generation (Nextgen) sequencing services, (b) High-Throughput Screening, High-Content Microscopy (HTS/HCM) services, and (c) access to dedicated, state-of-the-art equipment for medium-throughput biological assays. Clients and collaborators include investigators from numerous departments at Columbia University and from the HICCC, the latter constituting the majority of the GSR user base. The facility also makes its services available to investigators at other universities. For the Nextgen component, in addition to standard services such as RNA-Seq, exome, and whole-genome profiling, at a variety of coverage depths, the facility continues to develop cutting edge protocols, including single cell, stranded, low-depth highmultiplexing, and FFPE based molecular profiling assays. For the HTS/HCM component, managed by Charles Karan, Ph.D., we provide access to a variety of microfluidics and robotic platforms to perform smallmolecule, siRNA, shRNA, and cDNA library screens in cells cultures, with quantitative output profiled by a variety of readout technologies, including high-throughput/high-content microscopy. Finally, the facility provides access to several state-of-the-art technologies, such as Fluidigm Mark IV, Luminex, and Nanostring platforms for the implementation of multiplexed medium-throughput assays. The total operating budget of this co-shared facility is $2,500,000 (non including instruments purchase), of which we are requesting $34,455 from the CCSG. The HICCC has provided $645,000 in capital support for the purchase of an additional lllumina 2500 and service contract, thus justifying a 20% discount over standard user rates for its investigators.
Availability of GSR services has been critical to the competitive application for several NCI funded centers of excellence, including the Columbia IBCP, CTD2, ISRCE, and LINCS centers. In addition, it has made it possible to provide individual investigators with the ability to rapidly generate preliminary data from molecular profile and HTS/HCM screening assays for grant filing purposes. Its tremendous growth over the last three years, from <$100K/year to >$1.5M/year is a testimony to the tremendous increase in utilization.
| Sengillo, Jesse D; Lee, Winston; Bakhoum, Mathieu F et al. (2018) CHOROIDEREMIA ASSOCIATED WITH A NOVEL SYNONYMOUS MUTATION IN GENE ENCODING REP-1. Retin Cases Brief Rep 12 Suppl 1:S67-S71 |
| Kratchmarov, Radomir; Viragova, Sara; Kim, Min Jung et al. (2018) Metabolic control of cell fate bifurcations in a hematopoietic progenitor population. Immunol Cell Biol 96:863-871 |
| Xu, Christine L; Park, Karen Sophia; Tsang, Stephen H (2018) CRISPR/Cas9 genome surgery for retinal diseases. Drug Discov Today Technol 28:23-32 |
| Gartrell, Robyn D; Marks, Douglas K; Hart, Thomas D et al. (2018) Quantitative Analysis of Immune Infiltrates in Primary Melanoma. Cancer Immunol Res 6:481-493 |
| Moayedi, Yalda; Duenas-Bianchi, Lucia F; Lumpkin, Ellen A (2018) Somatosensory innervation of the oral mucosa of adult and aging mice. Sci Rep 8:9975 |
| Sengillo, Jesse D; Lee, Winston; Bilancia, Colleen G et al. (2018) Phenotypic expansion and progression of SPATA7-associated retinitis pigmentosa. Doc Ophthalmol 136:125-133 |
| Kroeger, Heike; Grimsey, Neil; Paxman, Ryan et al. (2018) The unfolded protein response regulator ATF6 promotes mesodermal differentiation. Sci Signal 11: |
| Hopkins, Benjamin D; Pauli, Chantal; Du, Xing et al. (2018) Suppression of insulin feedback enhances the efficacy of PI3K inhibitors. Nature 560:499-503 |
| Jauregui, Ruben; Thomas, Amanda L; Liechty, Benjamin et al. (2018) SCAPER-associated nonsyndromic autosomal recessive retinitis pigmentosa. Am J Med Genet A : |
| Ghorpade, Devram S; Ozcan, Lale; Zheng, Ze et al. (2018) Hepatocyte-secreted DPP4 in obesity promotes adipose inflammation and insulin resistance. Nature 555:673-677 |
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