Instruments and Services

Agilent Tape Station

Instrument:

tape station

Agilent Tape Station

Capability:

DNA, RNA, protein, and Genomic DNA Qualification and Quantification

Pricing:

Tape Station

  • Self service (inside* user rate): $2 per sample
  • Self service (outside user rate): $4 per sample
  • Full service (inside* user rate): $4 per sample
  • Full service (outside user rate): $8 per sample

Tape Station (including reagents)

  • Self service (inside* user rate): $4 per sample
  • Self service (outside user rate): $8 per sample
  • Full service (inside* user rate): $8 per sample
  • Full service (outside user rate): $16 per sample

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Tape station protocols linked here

Covaris E220 Focused Ultra Sonication

Instrument:

covaris

Covaris E220 

Capability:

DNA Fragmentation, Chromatin Shearing

Pricing:

Covaris E220

  • Self service (inside* user rate): $26 per hour (minimum .5 hour)
  • Self service (outside user rate): $52 per hour (minimum .5 hour)
  • Full service (inside* user rate): $52 per hour (minimum .5 hour)
  • Full service (outside user rate): $104 per hour (minimum .5 hour)

Covaris E220

  • Self service (inside* user rate): Full plate $100
  • Self service (outside user rate): Full plate $200
  • Full service (inside* user rate): Full plate $200
  • Full service (outside user rate): Full plate $400

Microtubes

  • Self service (inside* user rate): $5 each
  • Self service (outside user rate): $10 each
  • Full service (inside* user rate): $5 each
  • Full service (outside user rate): $10 each

Reagents and consumables not included. 

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Covaris protocols linked here

Fluidigm BioMark

Instrument:

biomark

Fluidigm BioMark

Capability:

Gene ExpressionSingle-Cell Gene ExpressionSNP Genotyping, Copy Number Variation, Sample Quantification for Sequencing

High-throughput qPCR

96 assays by 96 samples =  9,216 reactions

48 assays by 48 samples = 2,304 reactions

*Protocols for TaqMan and EvaGreen available. Not compatible with SYBRGreen.

Pricing:

  • Self service (inside* user rate): $300
  • Self service (outside user rate): $600
  • Full service (inside* user rate): $600
  • Full service (outside user rate): $1,200

Reagents and consumables not included. 

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Fluidigm protocols linked here

Fluidigm C1 Single Cell Auto Prep System

Instrument:

c1

Fluidigm C1

Capability:

Gene Expression, Single-Cell Gene ExpressionSingle-Cell mRNA Sequencing Application, provides cDNA from single cell, utilizes NEXTera XT kit for subsequent manual library prep

Pricing:

C1 Fluidigm

  • Self service (inside* user rate): $600
  • Self service (outside user rate): $1,200
  • Full service (inside* user rate): $1,200
  • Full service (outside user rate): $2,400

C1 Fluidigm-Failed Run/Insufficient Load

  • Self service (inside* user rate): $75
  • Self service (outside user rate): $150
  • Full service (inside* user rate): $150
  • Full service (outside user rate): $300

Reagents and consumables not included. 

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Fluidigm protocols linked here 

Illumina Library Prep

Instrument:

illumina 2

Illumina

Capability:

Highly multiplexed amplicon sequencing, Targeted Resequencing, Small Genome Sequencing, De Novo sequencing, CHiP Seq, Small RNA Sequencing, Library QC for HiSeq

Sample prep for MiSeq or HiSeq, Nextera XT, Nextera, TruSeq DNA, TruSeq RNA, NEB Next

*Please provide Bioanalyzer results when submitting samples for library prep, including RIN values for RNA samples

*For kit not listed, please contact sonaik@ucsd.edu for a custom quote

Pricing:

  • Self service (inside* user rate): Custom Quote
  • Self service (outside user rate): Custom Quote
  • Full service (inside* user rate): Custom Quote
  • Full service (outside user rate): Custom Quote

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Illumina protocols linked here

Liquid Handling Automation

Instrument:

epmotion

EpMotion 5075

Capability:

High throughput for TruSeq RNA library preps (24 or more samples) for MiSeq or HiSeq

*Please provide Bioanalyzer results when submitting samples for library prep, including RIN values for RNA samples

Pricing:

Epimotion 5075

  • Self service (inside* user rate): $55 per hour (minimum 1 hour)
  • Self service (outside user rate): $110 per hour (minimum 1 hour)
  • Full service (inside* user rate): $110 per hour (minimum 1 hour)
  • Full service (outside user rate): $220 per hour (minimum 1 hour)

Epimotion 5075 - HT Library Preps

  • Self service (inside* user rate): 
  • Self service (outside user rate): 
  • Full service (inside* user rate): Custom Quote
  • Full service (outside user rate): Custom Quote

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

MiSeq Sequencing

Instrument:

miseq illumina

Illumina - MiSeq

Capability: 

Highly multiplexed amplicon sequencing, Targeted Resequencing, Small Genome Sequencing, De Novo sequencing, CHiP Seq, Small RNA Sequencing, Library QC for HiSeq

*MiSeq not recommended for deep sequencing or sequencing of large genomes. For deep sequencing on the HiSeq, please contact IGM

Pricing:

MiSeq Sequencing 50 cycle

  • Self service (inside* user rate): $200
  • Self service (outside user rate): $400
  • Full service (inside* user rate): $400
  • Full service (outside user rate): $800

MiSeq Sequencing 100 cycle

  • Self service (inside* user rate): $250
  • Self service (outside user rate): $500
  • Full service (inside* user rate): $400
  • Full service (outside user rate): $800

MiSeq Sequencing 150 cycle

    • Self service (inside* user rate): $300
    • Self service (outside user rate): $600
    • Full service (inside* user rate): $400
    • Full service (outside user rate): $800

MiSeq Sequencing 300 cycle

  • Self service (inside* user rate): $350
  • Self service (outside user rate): $700
  • Full service (inside* user rate): $400
  • Full service (outside user rate): $800

MiSeq Sequencing 500 cycle

  • Self service (inside* user rate): $375
  • Self service (outside user rate): $750
  • Full service (inside* user rate): $400
  • Full service (outside user rate): $800

MiSeq Sequencing 600 cycle

  • Self service (inside* user rate): $400
  • Self service (outside user rate): $800
  • Full service (inside* user rate): $400
  • Full service (outside user rate): $800

MiSeq Sequencing Nano and Micro

  • Self service (inside* user rate): $250
  • Self service (outside user rate): $500
  • Full service (inside* user rate): $400
  • Full service (outside user rate): $800

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Illumina protocols linked here

MiSeq Reagents and Kits

MiSeq Support here

NanoDrop 2000

Instrument:

Nano Drop

NanoDrop 2000 - UV-Vis Spectrophotometer

Capability: 

Measure concentration and purity of DNA, RNA or protein samples.

Pricing:

  • Self service (inside* user rate): $0
  • Self service (outside user rate): $0
  • Full service (inside* user rate): $0
  • Full service (outside user rate): $0

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Olympus FluoView FV1000 Confocal Microscope

Instrument:

olympus fv1000

Olympus FluoView FV1000 Confocal Microscope

Capability: 

The Olympus FluoView FV1000 opens new frontiers in live cell imaging with advanced technologies that provide improved sensitivity and high scan speeds for imaging live organisms with minimal specimen damage.

The innovative, Olympus-developed SIM Scanner incorporates two independent, fully synchronized laser scanners in a single compact design for simultaneous laser stimulation and confocal observation. Rapid cellular reactions that occur during or immediately following laser stimulation may now be captured without a time lag. Such studies of rapid cellular responses can provide important insight into how various cellular mechanisms operate. This makes the FV1000 ideal for such advanced techniques as FRAP, FLIP, uncaging, photoactivation and photoconversion.

Pricing:

  • Self service (inside* user rate): $45 per hour
  • Self service (outside user rate): $90 per hour
  • Full service (inside* user rate): $45 per hour
  • Full service (outside user rate): $90 per hour

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Qubit 3.0 Fluorometer

Instrument:

qubit

Qubit 3.0 Fluorometer

Capability: 

Powerful, dual-core processor quickly and accurately quantifies DNA, RNA, and protein, in <5 seconds per sample. Uses as little as 1 μL of sample.

Pricing:

Qubit 3.0 Fluorometer

  • Self service (inside* user rate): $2 per sample
  • Self service (outside user rate): $4 per sample
  • Full service (inside* user rate): $4 per sample
  • Full service (outside user rate): $8 per sample

Qubit 3.0 Fluorometer (including reagents)

  • Self service (inside* user rate): $4 per sample
  • Self service (outside user rate): $8 per sample
  • Full service (inside* user rate): $8 per sample
  • Full service (outside user rate): $16 per sample

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Qubit protocols linked here

Training and Technical Assistance

Pricing:

  • Self service (inside* user rate): 
  • Self service (outside user rate): 
  • Full service (inside* user rate): $55 per hour (minimum 1 hour) in addition to instrument run charge
  • Full service (outside user rate): $110 per hour (minimum 1 hour) in addition to instrument run charge

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Please contact Sonal Naik for further training information

Zeiss LSM 710 Confocal Microscope

Instrument:

zeiss lsm 710

Zeiss LSM 710 Confocal Microscope

Capability:

The PTC laser concept of LSM 710 is revolutionary in confocal microscopy: the system uses pigtailed lasers directly on the scanning head. With up to eight ports, you couple near-UV, VIS and IR lasers in many combinations.

The 34-channel QUASAR detector by Carl Zeiss allows the optimal acquisition strategy for various emission spectra, without being bound to filters and dichroic mirrors – you simply configure your experiment in the software.

The spectral signal you obtain is an excellent basis for high-resolution spectral imaging and the parallel detection of up to ten colors. If needed, you can direct any parts of the spectrum to the required detector.

When it comes to excitation, the new TwinGate main beam splitter has two dichroic filter wheels and high transmission of up to 100 combinations of laser lines – allowing for the optimum fluorescence excitation of your samples.

The spectral recycling loop of LSM 710 amplifies signals by feeding the unseparated part of the emission light through the grid a second time before adding it to the complete signal. When used with the QUASAR detector, you will reduce dark noise by two-thirds and significantly improve the sensitivity of your microscope.

Pricing:

  • Self service (inside* user rate): $40 per hour
  • Self service (outside user rate): $80 per hour
  • Full service (inside* user rate): $40 per hour
  • Full service (outside user rate): $80 per hour

*Inside users include UC San Diego, Salk Institute for Biological Studies, Sanford-Burnham Medical Research Institute, La Jolla Institute for Allergy & Immunology, and The Scripps Research Institute

Note: Some consumables are also available for purchase. Please inquire with Sonal Naik for more information.

Protocols:

Stem Cell Genomics Core