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HomeScience & MedicineCores & ServicesFlow Cytometry


FLOW CYTOMETRY

The Flow Cytometry Core Facility is home to a variety of fluorescence-based
analytical and sorting cytometers, as well as a skilled staff who can offer
services, training, insight, and support.

Research applications of flow cytometry include:

 * Multi-color Immunophenotyping
 * High-Speed Cell Sorting
 * Plate-based Screening
 * Functional Cellular Assays
 * Assay Design Support
 * Introductory Flow Training 


Please read below to learn more about the services offered.



 * FLOW CYTOMETRY AT SCRIPPS RESEARCH

 * Instruments
 * Reservations
 * Resources
 * Events
 * Pricing
 * Contact/Staff


INSTRUMENTS

ASTRIOS A & B | BECKMAN COULTER | JET-IN-AIR SORTER


MOFLO ASTRIOS EQ JET-IN-AIR SORTING FLOW CYTOMETER




ASTRIOS (A)

Model: MoFlo Astrios EQ Software: Summit 6.3 Function: Cell Sorter Location:
Immunology & Microbial Science, Room R12 Optics: 3 detectors for a 355nm
Ultraviolet laser
4 detectors for a 405nm Violet laser
9 detectors for a 488nm Blue laser
5 detectors for a 561nm Green-Yellow laser
4 detectors for a 640nm Red laser Detector Layout: Nozzles: 70 µm - Up to 72
million cells per hour
100 µm - Up to 36 million cells per hour Sorting: 1 - 6 sort streams
1.5 ml, 5 ml, 15 ml, 50 ml tubes
Multiwell plates (up to 1536-well) FluoroFinder: [Click here] Brochure: [Click
here]


ASTRIOS (B)

Model: MoFlo Astrios EQ Software: Summit 6.3 Function: Cell Sorter Location:
Immunology & Microbial Science, Room R12 Optics: 3 detectors for a 405nm Violet
laser
9 detectors for a 488nm Blue laser
4 detectors for a 561nm Green-Yellow laser
4 detectors for a 640nm Red laser Detector Layout: Nozzles: 70 µm - Up to 72
million cells per hour
100 µm - Up to 36 million cells per hour Sorting: 1 - 6 sort streams
1.5 ml, 5 ml, 15 ml, 50 ml tubes
Multiwell plates (up to 1536-well) FluoroFinder: [Click here] Brochure: [Click
here]



AURORA A & B | CYTEK BIOSCIENCES | SPECTRAL ANALYZER


AURORA SPECTRAL ANALYTICAL FLOW CYTOMETER





AURORA A & B

Model: Aurora Software: SpectroFlo Function: Spectral Analyzer Location:
Immunology & Microbial Science, Room R12 Optics:

Proprietary high sensitivity Coarse Wavelength Division Multiplexing (CWDM)
semiconductor array per laser enabling more efficient spectrum capture in the
365-829 nm range. No filter changes required for any fluorochrome excited by the
355 nm, 405 nm, 488 nm, 561 nm, 640 nm lasers.
 
Utilizes
16 detectors from 355nm Violet laser
16 detectors from 405nm Violet laser
14 detectors from 488nm Violet laser
10 detectors from 561nm Violet laser
8 detectors from 640nm Violet laser

Detector Layout:





Brochure: [Click here]

BIGFOOT | INVITROGEN | SPECTRAL SORTER


PROPEL BIGFOOT

Model: Bigfoot Software: Sasquatch Software (SQS) Function: Cell Sorting
(Spectral and conventional) Location: Immunology & Microbial Science, Room R12
Optics: Excitation Lasers
349nm 405nm 445nm 488nm 532nm 561nm 594nm 640nm 785nm

Detectors
60 parameters including FSC and SSC Dector Layout:

349nm – 12 Parameters

405nm – 12 Parameter

488nm/532nm – 7 Parameters

561nm/594 – 12 Parameters

640nm – 4 Parameters

445nm – 4 Parameters

785nm – 3 Parameters

55 Total Fluorescent Parameters

Nozzles:

50, 70, 100, 120, and 150µm ceramic nozzle tips with adjustable pressure
settings

Sorting: 

Up to 6-way sorting into tubes; configurable tube holders include 1.5mL, 5mL,
15mL, and 50mL adapters. Multi-way micro-well plate sorting up to 1536 wells.
Temperature control (4-37°C) for all media types.

Brochure: [Click here]

CYTOFLEX S / BECKMAN COULTER / ANALYZER


CYTOFLEX S / BECKMAN COULTER / ANALYZER

Model: S V4-B2-Y4-R3 with plate loader Software: CytExpert Function: Analyzer
Location: Immunology & Microbial Science, Room R12 Optics: Excitation Lasers:
488nm, 640nm, 405nm, 561nm
Detection Parameters: 13 fluorescence + 2 scatter Detector Layout: CytoFlex S: 
[Click here]

CYTOFLEX SRT / BECKMAN COULTER / SORTER


CYTOFLEX SRT / BECKMAN COULTER / SORTER

Model: SRT V5-B2-Y5-R3 Software: CytExpert Function: Cell Sorter Location:
Immunology & Microbial Science, Room R12 Optics: Excitation Lasers: 488nm,
640nm, 405nm, 561nm
Detection Parameters: 15 fluorescence + 2 scatter Detector Layout: Nozzles: 100
μm - Up to 20 million cells per hour Sorting: 1-4 Sort Streams
1.5-mL, 5-mL and 15-mL tubes
96, 384 multi-well plates CytoFlex SRT:  [Click here]

NOVOCYTE A & B | ACEA BIOSCIENCES | ANALYZER


NOVOCYTE A & B

Model: NovoCyte 3000 with NovoSampler Pro Software: BD FACS Diva 6 Function:
Analyzer Location: Immunology & Microbial Science, Room R12 Optics: 6 detectors
for a 405nm Violet laser
7 detectors for a 488nm Blue laser
2 detectors for a 640nm Red laser Dector Layout: FluoroFinder:  [Click here]
Brochure: [Click here]

NOVOCYTE QUANTEON A / AGILENT / ANALYZER


NOVOCYTE QUANTEON A / AGILENT / ANALYZER

Model: Quanteon 4025 with NovoSampler Q Software: NovoExpress Function: Analyzer
Location: Immunology & Microbial Science, Room R12 Optics: Excitation Lasers:
488nm, 640nm, 405nm, 561nm
Detection Parameters: 25 fluorescence + 2 scatter Detector Layout: Quanteon: 
[Click here]

SONY MA900 A & B | SONY BIOSCIENCES | CHIP CUVETTE SORTER


SONY MA900 (A & B)

Model: MA900 Software: MA900 Software Function: Cell Sorter
Location: Immunology & Microbial Science, Room R12 Optics: Excitation Lasers:
488 nm, 638 nm, 405 nm, 561 nm

Detection Parameters:12 fluorescence + 2 scatter Detector Layout: Nozzles:

70 μm - Up to 50 million cells per hour

100 μm - Up to 30 million cells per hour

Sorting: 

1-4 Sort Streams

0.5-mL, 1.5-mL, 5-mL and 15-mL tubes
96 multiwell plates, PCR plates

FluoroFinder:  [Click here] Brochure: [Click here]

ZE5 (YETI) A & B | BIO-RAD LABORATORIES | ANALYZER


YETI (A)

Model: ZE5 Software: Everest Function: Analyzer Location: Immunology & Microbial
Science, Room R12 Optics: 5 detectors for a 355nm Ultraviolet laser
7 detectors for a 405nm Violet laser
5 detectors for a 488nm Blue laser
7 detectors for a 561nm Green-Yellow laser
4 detectors for a 640nm Red laser Dector Layout: Brochure: [Click here]


YETI (B)

Model: ZE5 Software: Everest Function: Analyzer Location: Immunology & Microbial
Science, Room R12 Optics: 7 detectors for a 405nm Violet laser
5 detectors for a 488nm Blue laser
7 detectors for a 561nm Green-Yellow laser
4 detectors for a 640nm Red laser Dector Layout: Brochure: [Click here]




RESERVATIONS

ANALYZER CALENDAR

Click here to login to Inifinity Calendar

Reservations for Analytical Cyometers are made using the IdeaElan, Infinity app.
The app can be accessed through the TSRI My Apps/Single Sign-on or through the
link above.

SORTING RESERVATIONS

Sorting reservations are made by email. You must email flowstaff@scripps.edu.

It is highly recommended that you plan ahead for your sorts. If you need a
specific instrument on a specific day, place reservations two weeks ahead. If
you're simply doing a single-color sort, you may be able to make the reservation
in less time, but try to place your reservation at least a week in advance.
Appointment availability varies throughout the year.

Do not start any upstream processes (i.e. injections, transfections, thaws,
stimulations) unless you have a reservation already made.

Please include the following information for all sort requests:

 * Name
 * Scripps Research Account Code
 * Principle Investigator
 * Organization
 * PO Number (if not affiliated with Scripps Research)
 * Desired Sort Dates/Times
 * Cell Origin/Species
 * Tissue or cell line name
 * Parameters (include all fluorescent antibodies, proteins, and dyes)
 * Number of Samples to sort
 * Estimated number of cells per sample
 * Collection methood (description of tubes or plates)
 * Purpose of sort (culture, DNA/RNA isolation, transplantation, etc.)


RESOURCES

GETTING STARTED

 * [Analyzer Login Request]
 * [Policies & Guidelines]

PROTOCOLS & PROCEDURES

 * [Analyzer Cleanup] - All users are responsible for properly cleaning and/or
   shutting down the analyzers when they finish. Click the link for details.
 * [Fluorochrome Index]
 * [Sort Buffer Recipe] - Use this recipe as a starting point for your sorting
   buffer.
 * [Sort Optimization] - Here are recommendations for cell preparation for
   sorting.
 * [Current Protocols in Cytometry] - Scripps Research Network or valid login
   only
 * [Cytometry Protocols] - Purdue University Cytometry Laboratories

FLUORESCENCE SPECTRA

 * [Fluorescence Spectrum Viewer] - BD Biosciences
 * [FluoroFinder] - Use this tool to develop fluorescent panels and source
   antibodies.
 * [Fluorescence Spectra Analyzer] - BioLegend
 * [FluorPlan] - eBioscience
 * [Spectra Viewer] - Chroma Technology Corp

TRAINING & E-LEARNING

 * [Introduction to Flow Cytometry Web-Based Training] - BD Biosciences
 * [Multicolor Flow Cytometry Resources] - BD Biosciences
 * [Multicolor Flow Cytometry Tools] - BD Biosciences
 * [Flow Cytometry Resource Center] - Life Technologies
 * [Introduction to Cytometry I] - J. Paul Robinson, 2005
 * [Introduction to Cytometry II] - J. Paul Robinson, 2005
 * [Multicolor Flow Cytometry Webinars] - BD Biosciences
 * [Flow Cytometry Webinars] - Molecular Probes
 * [Cytometry Data Analysis Tutorials] - FlowJo
 * [Flow Cytometry - A Basic Introduction] - Michael G Ormerod, 2008
 * [Practical Flow Cytometry] - Howard M. Shapiro, 2003

FLOW CYTOMETRY ORGANIZATIONS

 * [ISAC - International Society for Advancement of Cytometry]
 * [Southern California Flow Cytometry Association]
 * [Purdue Cytometry Discussion List]

INSTRUMENT MANUALS

Aurora

 * 5 Laser Aurora User Manual
 * 5L Fluorochrome Information Summary
 * 4L Fluorochrome Information Summary


LSR

 * BD FACSDiva v6_LSR_Quick Ref Guide
 * BD FACSDiva Software Basic Experiment Guide
 * BD FACSDiva_Software_v_8.0_manual
 * BD LSR II User Guide


NovoCyte

 * NovoCyte_Quick_Start_Guide
 * NovoExpress-Software-Guide
 * NovoCyte Operator Guide


Sony MA900

 * MA900_Operators_Guide


ZE5

 * ZE5 BioRad Cell Analyzer and Everest Software User Manual V3.1
   
 * ZE5 Quick Start Guide V3.1


EVENTS

2024 EVENTS


ADVANCES IN CELL SORTING SYMPOSIUM

Join us for a symposium and in-person networking as we explore current
innovations and trends in spectral and image cytometry on Thursday, September
19, 2024 from 9:00 a.m. to 5:00 p.m.



SPEAKERS

Nate Trujillo Thermo Fisher Scientific Title: Workflow Optimization for Flexible
Sorting Applications on the Bigfoot Spectral Cell Sorter

David Vrane Cytek Biosciences “Advances in Next Gen Cell Sorting - Cytek Aurora
CS”

Cedric Ait-Mansour Sony Biotechnology “FP7000 Spectral Cell Sorter – Usability
and Performance for High-Parameter Experiments”

Mirko Corselli Becton-Dickinson “BD FACSDiscover Cell Sorter”

Willem Westra ThinkCyte “VisionSort: Voyages in Sorting with Morphometric
Profiling & AI”

Rea Dabelic – Head of Application Development NanoCellect “The Future of
Image-Guided Cell Sorting”

SPONSORS

Sony Biotechnology BD Biosciences Cytek Biosciences Thermofisher Scientific

NanoCellect

HOST

Flow Cytometry Core Facility

LOCATION

Scripps Research Auditorium 10620 John Jay Hopkins Drive San Diego, CA 92121

Venue Map

REGISTER

To confirm your attendance, please click here to complete the registration form.

To attend virtually via Zoom, please use this link on the day of the event.

CONTACT

Al Saluk, Senior Scientific Director (asaluk@scripps.edu)

Brian Seegers, Sort Facility Manager (bseegers@scripps.edu)

(858) 784-8251

Event Flyer

--------------------------------------------------------------------------------


LUNCH AND LEARN BD BIOSCIENCES S8 CELL SORTER, JANUARY 11, 2024

Please join us for a lunch and learn seminar presented by BD Biosciences.

Seminar: Imaging and spectral capabilities of the BD FACSDiscovers S8 Cell
Sorter (S8 brochure attached)

Presented by: Mirko Corselli, PhD - Associate Director of Market Develop, BD
Biosciences

Date: Thursday, January 11

Time: Talk 12-1:00 PM, Lunch starts at 11:45am

Location: IMM East Conference Room (IMM-204X)

RSVP: Google Form

Contact: flowstaff@scripps.edu with any questions

Event Flyer

2023 EVENTS


LUNCH & LEARN BIOLEGEND, DECEMBER 12, 2023

Please join us for a lunch and learn seminar presented by BioLegend. 

Seminar: Flow Panel Design and the latest BioLegend updates

Presented by: Nadja Tessler, M.Sc., BioLegend Technical Application Scientist,

Date: Tuesday, December 12, 2023

Time: 12-1:00 PM

Location: Imm East Conference Room (IMM-204X)

RSVP: nadja.tessler@biolegend.com

Event Flyer

--------------------------------------------------------------------------------


LUNCH & LEARN THERMOFISHER, NOVEMBER 7, 2023

Please join us for a scientist-to-scientist lunch and learn seminar focusing on
spectral cell sorting.  Lunch provided by Thermo Fisher Scientific

Seminar: Employing panel design and control optimization best practices
to analyze and sort elusive cells from high parameter panels (Flyer Attached)

Presented by: Luise Sternberg, PhD, Staff Scientist, R&D, Protein and Cell
Analysis, Thermo Fisher Scientific

Date: Tuesday, November 7, 2023


Time: 12-1:00 PM

Location: IMM East Conference Room (IMM 204X)

RSVP: Email flowstaff@scripps.edu

Event Flyer

--------------------------------------------------------------------------------


LUNCH & LEARN: CYTEK BIOSCIENCES

Please join us for a lunch and learn seminar focusing on the Cytek Cloud and
other resources available to support Aurora users.

Seminar: Tips and Tricks from Cytek for using the Aurora 

Presented by: Matt McBrian, Cytek Technical Sales Representative and Sarah
Christy, Cytek Reagent Account Manager

Date: Tuesday, October 3, 2023

Time: 12-1:00 PM

Location: Tips and Tricks from Cytek for using the Aurora

RSVP: Register using link in flier or Click here.  Any questions contact
flowstaff@scripps.edu

Event Flyer

--------------------------------------------------------------------------------


LUNCH & LEARN: FLUOROFINDER

Please join us for a lunch and learn seminar to find out more about IntelliPanel
from FluoroFinder. 

Seminar: Tools for Panel Design and Spectral Visualization 

Does it feel like you have to be an expert regarding reagents, instrumentation
and biology to build an optimized multicolor flow cytometry panel? The
complexity can feel overwhelming as the technology progresses past 18
fluorescent parameters and into >30 color Spectral Flow Cytometry. IntelliPanel
from FluoroFinder is an application that automatically recommends reagent
combinations based on the specific instrument configurations in your lab,
antigen abundance, spectral spillover between fluorophores and overall spectral
complexity of co-expression groups within the panel. IntelliPanel is also driven
by machine learning, where experts make common changes and choices that inform
future recommendations. 

Presented by: Kelly Lundsten, Director Product Innovation, FluoroFinder

Date: Tuesday, August 15, 2023

Time: 12-1:00 PM

Location: Beckman Keck Amphitheater (Keck)

RSVP: (including any dietary restrictions): flowstaff@scripps.edu

--------------------------------------------------------------------------------


LUNCH & LEARN BIORAD

Please join us for a lunch and learn seminar to find out more about the Bio-Rad
StarBright Dyes. 

Seminar: Build Bigger, Better Panels with StarBrightTM Dyes from Bio-Rad

With the advancement of technology, flow cytometers are now able to detect a
much greater range of fluorescent dyes, facilitating the analysis of more
extensive and complex multicolor immunophenotyping assays. However, this has
also introduced more pitfalls to navigate during experimental design.

Join this lunch and learn seminar to find out how StarBright Dyes and best
practices can help circumvent many of these issues, enabling consistent and
reliable results.

Presented by: Anjilna Wali, Bio-Rad

Date: Tuesday, August 1, 2023

Time: 12-1:45 PM

Location: Immunology East Conference Room (IMM-204X)

RSVP: (including any dietary restrictions): flowstaff@scripps.edu

Event Flyer

2022 EVENTS


SPECTRAL CYTOMETRY SYMPOSIUM: THURSDAY, OCTOBER 6, 2022



Join us for a symposium and in-person networking as we explore current
innovations and trends in spectral cytometry on Thursday, October 6, 2022 from
9:00 a.m. to 5:00 p.m. 

View Event Program >> 

SPEAKERS
Thiago Alves da Costa, PhD
Thermo Fisher Scientific
Title: Novel tools and practical considerations for identifying and sorting
elusive cells with spectral cytometry

Maria Jaimes, PhD
Cytek Biosciences
Title: The road to a high resolution 40-color flow cytometry immunophenotyping
panel

Cedric Ait-Mansour, PhD
Sony Biotechnology
Title: ID7000 – Delivering intuitive tools for cell analysis of high dimensional
immune profiling applications

Geoff Kraker, PhD
OMIQ
Title: A more efficient path to results: Overcoming barriers to data analysis
with OMIQ

Kamila Czechowska, PhD
METAFlow by Metafora
Title: An innovative topological analysis platform for High-Dimensional Flow
Cytometry Data

SPONSORS 
Sony Biotechnology
BD Biosciences
Cytek Biosciences
Thermofisher Scientific

HOST
Flow Cytometry Core Facility

LOCATION
Scripps Research Auditorium 
10620 John Jay Hopkins Drive
San Diego, CA 92121

Venue Map>>

REGISTER
To confirm your attendance, please click here to complete the registration
form. 

To attend virtually via Zoom, please use this link on the day of the event. 

In order to attend, we do require proof of vaccination or a negative COVID-19
test result taken within 48 hours of the event. This information will be
collected on the day of the event at registration. Masks are not required but
may be worn based on personal preference. COVID-19 requirements are subject to
change based on campus policy.

CONTACT
Al Saluk, Senior Scientific Director
(858) 784-8251

--------------------------------------------------------------------------------


PRICING

CURRENT RATES PER HOUR




Scripps Research  

Academic

Pharma

Analyzers

$70

$180

$250

Sorting

$95

$250

$300

CONTACT/STAFF

ALAN SALUK

Senior Scientific Director

(858) 784-8251
Email

BRIAN SEEGERS

Sort Facility Manager

(858) 784-8396
Email

BRIAN MONTEVERDE

Operator

(858) 784-8396
Email

ALPHONSE OWIRKA

Operator

(858) 784-8396
Email

--------------------------------------------------------------------------------

FLOW CORE STAFF

OUR CORE FACILITY STAFF IS HAPPY TO HELP YOU WITH ANY QUESTIONS OR CONCERNS YOU
MAY HAVE. PLEASE DIRECT ALL INQUIRIES ABOUT FACILITY INSTRUMENTS OR SERVICES TO
OUR MAIN EMAIL ADDRESS, FLOWSTAFF@SCRIPPS.EDU OR OUR MAIN PHONE NUMBER, (858)
784-8396. OUR EMAIL ADDRESS WILL REACH ALL OF OUR STAFF MEMBERS, SO THAT ANY ONE
OF US MAY HELP YOU AS QUICKLY AS POSSIBLE.



PHYSICAL ADDRESS

SCRIPPS RESEARCH

IMS BUILDING, FLOOR 1, ROOM R12
10466 NORTH TORREY PINES ROAD
LA JOLLA, CA 92037

(858) 784-8396
EMAIL

MAILING ADDRESS

SCRIPPS RESEARCH

FLOW CYTOMETRY, IMM-20
104550 NORTH TORREY PINES ROAD
LA JOLLA, CA 92037

SHIPPING ADDRESS

SCRIPPS RESEARCH
9060 ACTIVITY ROAD, UNIT F
SAN DIEGO, CA 92126




ACCESSING OUR LAB

VISITOR PARKING IS LOCATED IN LOT 4 (TOWARD THE CENTER OF THE MAP). DURING
NORMAL BUSINESS HOURS A PARKING PERMIT IS REQUIRED. OBTAIN A PERMIT FROM A
SCRIPPS RESEARCH SECURITY STAFF-MEMBER STATIONED AT THE ENTRANCE TO THAT PARKING
LOT AND PARK IN AN AVAILABLE SPACE. DO NOT ENTER THE HOSPITAL PATIENT PARKING
LOT OR YOU WILL BE REQUIRED TO PAY FOR PARKING.

ENTER THE IMMUNOLOGY & MICROBIAL SCIENCE BUILDING THROUGH THE BREEZEWAY TO THE
SOUTH (LEFT ON THE MAP) OF LOT 4. IF THE DOOR IS LOCKED, USE THE CALL BOX
LOCATED TO THE LEFT OF THE FRONT ENTRANCE. THE CALL BOX ALLOWS US TO BUZZ YOU
IN. SIGN IN AT THE FRONT DESK AND TAKE THE ELEVATOR IN THE NORTHWEST CORNER
(TOP-RIGHT OF THE BUILDING ACCORDING TO THE MAP) TO THE FIRST FLOOR. THE
ELEVATOR NEAR THE FRONT DESK DOES NOT REACH OUR FACILITY. ON THE 1ST FLOOR YOU
WILL FIND THE FLOW CYTOMETRY CORE FACILITY IN ROOM R12.

CLICK HERE FOR CAMPUS MAP




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ADDRESS

10550 North Torrey Pines Road
La Jolla, CA 92037
(858) 784-1000

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