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Functional Genomics (Sanford Burnham Prebys Medical Discovery Institute)

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La Jolla, California, US

About Functional Genomics (Sanford Burnham Prebys Medical Discovery Institute)

The SBP Functional Genomics Shared Resources contains screening laboratory and viral vectors laboratory. The screening lab provides the infrastructure for cell-based gain-of-function (ORF and CRISRPa) and loss-of-function (siRNA, miRNA, shRNA, CRISPRko, and CRISPRi) libraries screening services, starting with assay development and carrying all the way through to verification of identified targets. The large scale screen is accomplished via ready-to-use genome-wide or pathway-specific library platforms, with choice of arrayed or pooled libraries. The screening lab is equipped to perform custom CRISPR gene activation, knock-down, knock-out and editing services. The lab also adopts CRISPR-mediated nucleotide base editor and offers custom-built CRISPR domain library. This approach can reveal the specific domain of a target protein interacting with another molecule, such as protein, lncRNA, or drug in a native cellular environment. The viral vectors lab closely works with the screening lab and provides state-of-the-art viral vector-based gene/shRNA delivery technology. Its portfolio ranges from lentivirus, retrovirus, adenovirus, adeno-associated virus, sindbis virus, zika virus, coronavirus, and vesicular stomatitis virus products as well as customized “The Works” viral vector construction and swapping service packages. There are over fifty ready-to-transduce reporter viruses available for live cell imaging and 2D/3D cell-based assays. For custom virus production, the viral lab is able to achieve high-titer, top-quality viral particles suitable for in vitro and in vivo studies. In addition, the automated mini-scale preparations of vector plasmids and viruses in 96-well formats can immediately allow the downstream viral array screening. The viral lab also extends technical expertise in non-viral nanoparticles which includes large extracellular vesicles and exosome purification, analysis, and engineering. Together, the SBP Functional Genomics combines the powers of scalable genomic library screening and viral vectors to enhance novel gene function, mechanism and drug discovery in cancer research.  

Our Services (11)


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RNAi Screening

Price on request

1. siRNA library preparation and siRNA/CRISPR arrayed screen

2. miRNA mimic and antagonist arrayed screen

3. CRISPR library preparation and pooled screen

4. shRNA arrayed screen

5. open reading frame (ORF) overexpression arrayed screen




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Custom siRNA Library

Price on request
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shRNA Plasmid Construction

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Doxycycline inducible shRNA of interest with constitutively expressed puromycin or neomycin selection marker in lentiviral format


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CRISPR Screening

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CRISPR sgRNA Libraries

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CRISPR/Cas9 Vector Construction

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CRISPR gene disruption, editing, base-editing, activation, and inhibition.


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Cas9-Expressing Cell Lines

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CRISPR/Cas9 Genome Editing

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Illumina NGS Library Preparation

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Automation Consulting

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Automated mini-scale production


The robotic high throughput mini-scale preparations of mammalian genomic DNA, vector plasmids and lentiviruses/retroviruses in 96-well formats can immediately allow the downstream viral array screening.


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Barcoding

Price on request

Cell population barcoding


Retrievable barcode technology such as CloneTracer barcoding lentiviral pooled library (Stegmeier lab) is available to create individually barcoded cell populations for linage tracing. Monitoring the unique barcode and number of individual barcode provides a quantitative analysis to study the clonal origin and heterogeneity in cell proliferation, differentiation, as well as resistance to the drug treatment.


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