Transcript Next Generation 2100 Software

Next Generation 2100 Software A Wealth of New Features
Content of the E-seminar
• 2100 expert software concept
• New features
• How to use new features?
• New product structure
• Your upgrade to new 2100 expert SW
• Summary
Chairperson: Ingrid Ginnutt
Slide 2
The Agilent 2100 Bioanalyzer
RNA 6000 Pico LabChip kit
High Sensitivity QC (up to 6000 bases)
Total RNA, mRNA
Protein 200 Plus LabChip kit
Sizing and Analysis (14-200 kDa)
Proteins
RNA 6000 Nano LabChip kit
QC & Quantitation (up to 6000 bases)
Total RNA, mRNA, microarray samples
DNA 500 LabChip kit
Sizing and Quantitation (25-500bp)
PCR products, restriction digests
Protein 50 LabChip kit
Sizing and Analysis (5-50 kDa)
Proteins
Cell Fluorescence LabChip kit
Analysis of cell fluorescence parameters
Cells
DNA 1000 LabChip kit
Sizing and Quantitation (25-1000bp)
Small PCR products, small restriction digests
DNA 7500 LabChip kit
Sizing and Quantitation (100-7500bp)
Restriction digests, PCR products
DNA 12000 LabChip kit
Sizing and Quantitation (100-12000bp)
Restriction digests, larger DNA fragments
Chairperson: Ingrid Ginnutt
Slide 3
2100 Software Roadmap
SW for Molecular Assays:
“Bio sizing”
SW for Cell Assays:
“Cell fluorescence”
*
2100 expert security pack
- 21 CFR part 11compliance
- electronic records
- electronic signatures
- audit trails
2100 bioanalyzer
- IQ and OQ/PV services
- Declaration of conformity
HW and kits
Software
*
2100 expert software
- one version for all assays
- Decl. of system validation
Chips and reagents
- Declaration of conformity
Past
Dec 2003
Winter 2004
* Biosizing and Cell fluorescence will be made obsolete
Chairperson: Ingrid Ginnutt
Slide 4
2100 Expert Software – In Brief
• Replaces Biosizing and Cell fluorescence software
• One SW for electrophoresis and flow cytometry assays
supporting the platform idea:
“one platform – endless possibilities”
• Incl. all capabilities of the current “Biosizing” and
“Cell fluorescence” SW
• One look and feel for the analysis of RNA, DNA, proteins
and cells
• Support all existing and future LabChip kits and assays
• Import of old data files from Biosizing and
Cell Fluorescence possible
Chairperson: Ingrid Ginnutt
Slide 5
2100 Expert Software – In Brief (cont.)
• Control of all bioanalyzers (old A- & B- and current
C-versions)
• Data Organizer not compatible with 2100 expert
• License keys for software modules (electrophoresis,
flow cytometry, security pack), no license for data
review
• Runs on Windows 2000 and Windows XP
• Many new SW features
Chairperson: Ingrid Ginnutt
Slide 6
2100 Expert Requirements
• PC hardware (minimum requirements):
• CPU: Pentium III with 800 MHz
• RAM: 128 Mbyte
• Ports: 1-2 serial ports
• VGA: Resolution of 1024 x 768
• HDD: 10 GB
• Operating system:
• Windows 2000 Service Pack 4 (or higher)
• Windows XP Service Pack 1 (or higher)
• Not compatible with Windows NT
• 2100 bioanalyzer:
• A and B/C version, compliance services for B/C version only (serial
number DE13701001 or higher)
Chairperson: Ingrid Ginnutt
Slide 7
2100 Expert New Features
- Based on User Requirements
•
Improved integrator with manual integration
(change start/end point and baseline)
•
Color coded result flagging (e.g. “mark all samples in green
that contain a 38 kDa protein in a concentration above 75 ng/ul”)
•
Compare results from different chips within the improved
and integrated data comparison context
(previously Data Evaluation Tool)
•
Pattern recognition and smear analysis applicable to
RNA, DNA and protein assays
•
Normal and advanced user mode
•
Improved reporting and printing functions
•
Preview in file open window (e.g. gel-like image, sample names)
Chairperson: Ingrid Ginnutt
Slide 8
2100 Expert New Features
- Based on User Requirements (cont.)
•
Customizable result tables and gel like-image
•
More export formats (txt, pdf, wmf, jpg, tif, bmp, ...)
•
New context structure for easy access of
software functionalities
•
Extended diagnosis functionality
•
Support of IQ & OQ/PV
•
Prerequisite for 21 CFR part 11 compliance,
prepared for security pack (with user authentication/user
roles, archiving/revision control, audit trails, …..)
•
And many more ……
Chairperson: Ingrid Ginnutt
Slide 9
2100 Expert Contexts
Instrument context
• Connect to up to 2 instruments
• Run a demo assay
• Run an assay
Data and Assay context
• Enter sample info
• Review results (gel-like image, E-gram, dot plot, histogram, result table)
• Change assay set points on sample or chip level (e.g. Min. Peak Height)
• Result flagging
• Create/modify new assays
Validation context
• Run IQ and OQ for hardware and software
Comparison context
• Compare results from different chips (gel-like image, E-gram, result table)
Chairperson: Ingrid Ginnutt
Slide 10
Tree view for navigation between
samples and files
Tabs for different data
analysis functions
Context
menu bar
Task bar with context
sensitive icons for
different actions
Single gel lane
for selected
E-gram
Customizable
gel-like image
(change order)
Customizable result table
(change order and add
additional columns)
Chairperson: Ingrid Ginnutt
Slide 11
How to use old data files from Biosizing or Cell
Fluorescence?
• Go to File/Import
• Select old bioanalyzer files that
you would like to import
Note:
2100 expert files can not be imported in
Biosizing or Cell Fluorescence
Chairperson: Ingrid Ginnutt
Slide 12
Convenient switching between flow cytometric
and electrophoretic assays
• Flow cytometric and
electrophoretic assays are
available in the Assay menu
• depending on the inserted
cartridge
• and the entered license key(s)
Chairperson: Ingrid Ginnutt
Slide 13
Easy access to manual integration in
electropherogram tab
• Click on Electropherogram tab
• Switch to Manual Integration mode
• select Menu/Manual
integration
• or clicking on the “manual”
icon in the task bar
Chairperson: Ingrid Ginnutt
Slide 14
Integration of Soy Bean Protein
- Get better quantitation precision with manual integration
97.5
Biosizing
95.0
2100 expert
2100 expert
- automatic integration
- manual integration
3
2 4
92.5
3
2 4
1
90.0
1
3
2 4
1
1
85.0
82.5
Conc.
2
13
1
12
77.5 Peak
11
80.0
10
Fluorescence
87.5
3
4
29.7 38.0 34.7 24.8
28.5 29 29.5 30 30.5 31 31.5 32 32.5 33 33.5
[ug/ml]
Peak
1
2
3
4
Peak
Conc. 29.7 37.9 34.6 24.8
Conc.
[ug/ml]
[ug/ml]
1
2
3
4
33.6 44.4 38.0 28.6
Peak
1
Conc.
144.6
[ug/ml]
Time (seconds)
Chairperson: Ingrid Ginnutt
Slide 15
How to move peak start/end point in manual
integration mode?
(A)
• Peak start and end time are shown as
blue dots
• (A) blue dot is on signal :
• Click on blue dot
• Dot turns green
• Hold left mouse button and move
dot along signal
(B)
• (B) blue dot is on drop line (dotted line)
• Click on blue dot
• Dot turns green
• Press Ctrl and hold left mouse
button to move dot along drop line
• Create a new drop line
• Press Ctrl and hold left mouse
button to move dot along new drop
line
Chairperson: Ingrid Ginnutt
Slide 16
How to modify columns displayed in result table?
• Right mouse click on table
headers
• Select Configure columns
• Select to be displayed column
headers
Chairperson: Ingrid Ginnutt
Slide 17
How to change the column order in the result
table?
• Click on column header and move
it to desired place
• New location is indicated by green
arrow
Chairperson: Ingrid Ginnutt
Slide 18
How to apply set points from one data file to
another?
• Go to Assay Properties tab in the
data context
• Click on Import set points
• Select the file from which you
want to apply the set points from
Chairperson: Ingrid Ginnutt
Slide 19
How to get a quick result overview using colorcoded result flagging?
• Set up rules in Result flagging
(data and assay context)
• Apply rules
DNA fragment
with 25, 70, 93 bp found
DNA fragment
with 160, 206, 308 bp found
DNA fragment
with 500, 610, 1000 bp found
and total conc. > 50 ng/ul
Chairperson: Ingrid Ginnutt
Slide 20
How to re-arrange the gel-like image lanes for
better comparison?
Initial gel-like
image
• Select the lane that you would like
to move
• Hold left mouse click on lane
• Move lane to new location
Rearranged gel-like
image
Chairperson: Ingrid Ginnutt
Slide 21
How to zoom in the gel-like image?
• Hold left mouse click on gel-like image
• Two horizontal lines appear (one line is
fixed)
• Move mouse while holding left button
• Release left button (second line is
fixed
• Both line define the zooming window
• Double-click to undo the zoom
Chairperson: Ingrid Ginnutt
Slide 22
How to do smear analysis for RNA, DNA or
protein assays?
• Go to Assay properties
• Select Smear analysis in the
advanced sample set points
• Define size regions
• Results are displayed in new
Region table
• Regions are indicated by dotted
lines in the electropherogram
Chairperson: Ingrid Ginnutt
Slide 23
Compare chips in comparison context
Switch between comparison summary, gel
and electropherogram view
Save selected
samples in a
comparison file
Electropherogram
overlay
Single gel
lane for
selected
E-gram
Select sample
from different
chips
Legend for
electropherogram
overlay
Chairperson: Ingrid Ginnutt
Slide 24
New Product Structure - Start with flow cytometry or
electrophoresis functionality or both !
2100 Laptop System
G2943CA
2100 Desktop System
G2940CA
2100, PC, Accs., VM
2100, PC, Accs., VM
2100
G2938C
SW on CD
SW on CD
2100, Accs.
Electrophoresis Set
G2947CA
Electrode Cartridge
Electroph. License
Start-up service
Flow Cytometry Set
G2948CA
Pressure Cartridge
System IQ and
OQ/PV Services:
Check.&Test chip kit
Per incident:
IQ (R1015A)
OQ/PV (R1016A)
Flow Cyt. License
Start-up service
Chairperson: Ingrid Ginnutt
Slide 25
Your upgrade to 2100 expert software
• Free upgrade of current 2100 users, if registered
• after 2100 installation
• with LabChip kit fax back form
• Software and electrophoresis licenses are in the post or have been shipped already
• if you have not receive your copy by March 2004, please contact your local sales
representative
• current cell fluorescence users please contact your local sales representative
to acquire a flow cytometry license
• 2100 expert software can be run in parallel to Biosizing or Cell fluorescence software
Chairperson: Ingrid Ginnutt
Slide 26
Compliance for the Agilent 2100 bioanalyzer
systems - A 2-phased approach
• Phase I – GMP/GLP compliance:
• 2100 expert software
• IQ & OQ/PV services

• "Declarations of Conformity" for all LabChip kits
• Phase II – full compliance:
• Security Pack for full 21 CFR Part 11 compliance
Chairperson: Ingrid Ginnutt
Slide 27
Reasons to switch to 2100 expert software
• Nothing to loose – all features from Biosizing and Cell fluoresence
included
• Benefit from many new software features
• Take first step towards full 21 CFR part 11 compliance
• New assays and LabChip kits will only be developed for 2100 expert
“One software, one platform
for analysis of cells, proteins, RNA and DNA”
Chairperson: Ingrid Ginnutt
Slide 28