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Sample & Assay Technologies QIAcube ® —Pure Efficiency Automated Sample Preparation on the QIAcube
76

QIAcube Seminar

Dec 19, 2014

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Technology

QIAGEN

The slides describe the plug-and-play features of the QIAcube — QIAGEN’s automated answer to manual spin-column purification. They demonstrate how quick and easy the transition from manual to fully automated purification is, while still continuing to use QIAGEN’s trusted spin-column kits. The QIAcube allows you to purify DNA, RNA, and protein from a wide range of sample types, freeing up your valuable time, giving you the flexibility you need, and the excellence your lab requires.
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Page 1: QIAcube Seminar

Sample & Assay Technologies

QIAcube®—Pure Efficiency

Automated Sample Preparation on the QIAcube

Page 2: QIAcube Seminar

Sample & Assay Technologies- 2 -

Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

Page 3: QIAcube Seminar

Sample & Assay Technologies- 3 -

Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

Page 4: QIAcube Seminar

Sample & Assay Technologies- 4 -

QIAGEN at a Glance: A Focused Market Leader

Revenues and growth

Presence Global

Sales 2009 $1010 MUSD

Industry-leading growth 20%+ p.a

# Customer 400.000

Revenues and growth

Presence Global

Sales 2009 $1010 MUSD

Industry-leading growth 20%+ p.a

# Customer 400.000

Innovation and Employees

R&D 12% of revenues

Patents (2) & Licenses >2.100

Products < 3 years old 16%

Employees ~3’500

Innovation and Employees

R&D 12% of revenues

Patents (2) & Licenses >2.100

Products < 3 years old 16%

Employees ~3’500

(2) Issued and Pending

Page 5: QIAcube Seminar

Sample & Assay Technologies- 5 -

Global set-up with three headquarters in major markets

Switzerland = Automation Center of ExcellenceHamburg = Assay Center of ExcellenceCalifornia = Customer satisfaction centerSingapore = Customer satisfaction center>30 Subs = Direct sales and marketing

Germantown & Gaithersburg~ 800 employees

Shanghai/Shenzhen~400 employees

Düsseldorf~ 1.000 employees

Page 6: QIAcube Seminar

Sample & Assay Technologies- 6 -

Sample and Assay TechnologiesSample Assay

Technologies

Results

Information

Virus detected

Yes

No

SamplePreparation

Golgi apparatus, Glycoproteins, Microtubules, Mitochondria, Mitochondrial nucleic

acids, Vacuoles, Talin, Nucleolus, Polymerases, Ceramides, Chromosomes,

Chromatin, mRNA, Cytoplasm, Leucocytes, Sugars, Lipids, Salts, Urea, Carbonic

acids, Cofactors, Precursors, Hemoglobins, Erythrocytes, Monocytes, Smooth

endoplasmatic reticulum, Macrophages, Thrombocytes, Platelets, Lymphocytes,

Basophils, Eosinophils, Neutrophils, Megacaryocytes, Plasma, Clotting factors,

Actin, Microfilaments, Serum, Fibrin, Lysosomes, Ezrin, DNA, Hemaglobins,

Heptaglobins, Transferrin, Fibrinogen, Serum albumin, tRNA, Salts, Polymerases,

Centrioles, Immunoglobulins, DNA,, Cytokines, Angiotensins, Chemokines,

Bradykines, Plasma membranes, Ribosomes, Actin, Vesicles, Complement

components, Nuclei, Rough endoplasmatic reticulum, Nucleoli, Golgi apparatus,

Glycoproteins, Microtubules, Mitochondria, Mitochondrial nucleic acids, Vacuoles,

Talin, Nucleolus, Polymerases, Ceramides, Chromosomes, Chromatin, mRNA,

Cytoplasm, Leucocytes, Sugars, Lipids, Salts, Urea, Carbonic acids, Cofactors,

Precursors, Hemoglobins, Erythrocytes, Monocytes, Smooth endoplasmatic

reticulum, Macrophages, Thrombocytes, Platelets, Lymphocytes, Basophils,

Eosinophils, Neutrophils, Megacaryocytes, Plasma, Clotting factors, Actin,

Microfilaments, Serum, Fibrin, Lysosomes, Ezrin, Hemaglobins, Heptaglobins,

Transferrin, Fibrinogen, Serum albumin, tRNA, Carrier proteins

DNA

Pure Genes

DNA

ComplexBiological Sample

Golgi apparatus, Glycoproteins, Microtubules, Mitochondria, Mitochondrial nucleic

acids, Vacuoles, Talin, Nucleolus, Polymerases, Ceramides, Chromosomes,

Chromatin, mRNA, Cytoplasm, Leucocytes, Sugars, Lipids, Salts, Urea, Carbonic

acids, Cofactors, Precursors, Hemoglobins, Erythrocytes, Monocytes, Smooth

endoplasmatic reticulum, Macrophages, Thrombocytes, Platelets, Lymphocytes,

Basophils, Eosinophils, Neutrophils, Megacaryocytes, Plasma, Clotting factors,

Actin, Microfilaments, Serum, Fibrin, Lysosomes, Ezrin, DNA, Hemaglobins,

Heptaglobins, Transferrin, Fibrinogen, Serum albumin, tRNA, Salts, Polymerases,

Centrioles, Immunoglobulins, DNA,, Cytokines, Angiotensins, Chemokines,

Bradykines, Plasma membranes, Ribosomes, Actin, Vesicles, Complement

components, Nuclei, Rough endoplasmatic reticulum, Nucleoli, Golgi apparatus,

Glycoproteins, Microtubules, Mitochondria, Mitochondrial nucleic acids, Vacuoles,

Talin, Nucleolus, Polymerases, Ceramides, Chromosomes, Chromatin, mRNA,

Cytoplasm, Leucocytes, Sugars, Lipids, Salts, Urea, Carbonic acids, Cofactors,

Precursors, Hemoglobins, Erythrocytes, Monocytes, Smooth endoplasmatic

reticulum, Macrophages, Thrombocytes, Platelets, Lymphocytes, Basophils,

Eosinophils, Neutrophils, Megacaryocytes, Plasma, Clotting factors, Actin,

Microfilaments, Serum, Fibrin, Lysosomes, Ezrin, Hemaglobins, Heptaglobins,

Transferrin, Fibrinogen, Serum albumin, tRNA, Carrier proteins

SAMPLETechnologies

ASSAYTechnologies

Page 7: QIAcube Seminar

Sample & Assay Technologies- 7 -

Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

Page 8: QIAcube Seminar

Sample & Assay Technologies- 8 -

How Everything BeganThe Evolution of Nucleic Acid Purification

2007

QIAGEN introduces the

QIAcube

1953 1993

QIAGEN introduces the Spin Column

DNA structure determined &

published

Purification of DNA with ultracentrifuge

Phenol chloroformextractions

Page 9: QIAcube Seminar

Sample & Assay Technologies- 9 -

QIAcube – It’s Just The Next Logic Step The Idea

The world of sample processing is changing!

City Map Navigation System

Abacus Calculator

Washing Dishes Dish Washer

Manual Processing QIAcube

Page 10: QIAcube Seminar

Sample & Assay Technologies- 10 -

Safety and ConvenienceUsing the most proven chemistry technology

Application FlexibilityMore than 80 protocols for sample purification

Time efficiencyFreeing up time from routine work

StandardizationIncreased reproducibility through automation

Main Benefits The Next Dimension Of Sample Purification Technology

Page 11: QIAcube Seminar

Sample & Assay Technologies- 11 -

Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

Page 12: QIAcube Seminar

Sample & Assay Technologies- 12 -

1. DNA, RNA and Protein purification

2. 1 to 12 samples per run

3. Sample lysis included

4. Easy download and transfer of new protocols

5. Load check before each run

6. Interaction via touch screen (no computer)

7. Small benchtop system

8. Individual centrifuge & shaker functionality

Automation Of Routine ProcessesKey Features Of The QIAcube

Page 13: QIAcube Seminar

Sample & Assay Technologies- 13 -

It’s a little Lab on a WorktableOverview

1

1

2

2

3

3

4

4

5

5

6

67

7

8

8

9

9

Centrifuge Lid

Centrifuge

Shaker

Reagent Bottle Rack

Tip Sensor

Microtube Slots

Tip Racks

Disposal Slots for Tips & Columns

Robotic Arm

Page 14: QIAcube Seminar

Sample & Assay Technologies- 14 -

Understanding The RotorAdaptor

Position 1: Used for binding and all wash steps Possible because position 1 is

connected with the waste container (see red arrows) which is big enough to catch all the flow-through volumes

Position 2: Optional position for shredder column

Position 3: Elution Position

1

12

3

2

3

Page 15: QIAcube Seminar

Sample & Assay Technologies- 15 -

Understanding The RotorAdaptor

Page 16: QIAcube Seminar

Sample & Assay Technologies- 16 -

Understanding The RotorAdaptor

Page 17: QIAcube Seminar

Sample & Assay Technologies- 17 -

Understanding The RotorAdaptor

Page 18: QIAcube Seminar

Sample & Assay Technologies- 18 -

www.QIAGEN.com/myQIAcube

Page 19: QIAcube Seminar

Sample & Assay Technologies- 19 -

3 Simple Steps System Setup Process

Loading the

Samples

Loading

Buffers

Loading the

Rotor

1 2 3

Page 20: QIAcube Seminar

Sample & Assay Technologies- 20 -

Highest Convenience & Ease Of UseProtocol Selection & Process Monitoring

Easy Selection Target analyte Protocol Kit (Starting material)

Protocol & Parameter Selection

Settings

DNARNA

MoreCentrifuge

Protein

LA

ST QIAprep : One

Step Lysis : Standard 100

LA

ST QIAamp :

Blood Mini : High Yield

Page 21: QIAcube Seminar

Sample & Assay Technologies- 21 -

Loadcheck Reducing Human ErrorsSafety Features Ensuring Smooth Sample Processing

Verifying the number of samples

Page 22: QIAcube Seminar

Sample & Assay Technologies- 22 -

Loadcheck Reducing Human ErrorsSafety Features Ensuring Smooth Sample Processing

Verifying the number of spin columns/rotor adapters

Page 23: QIAcube Seminar

Sample & Assay Technologies- 23 -

Loadcheck Reducing Human ErrorsSafety Features Ensuring Smooth Sample Processing

Proving the right tip size is loaded

Page 24: QIAcube Seminar

Sample & Assay Technologies- 24 -

Loadcheck Reducing Human ErrorsSafety Features Ensuring Smooth Sample Processing

Proving the right tip size is loaded Verifying the number of available tips

Page 25: QIAcube Seminar

Sample & Assay Technologies- 25 -

Loadcheck Reducing Human ErrorsSafety Features Ensuring Smooth Sample Processing

Positive tip check after uptake

Page 26: QIAcube Seminar

Sample & Assay Technologies- 26 -

Small But SmartSafety Features Ensuring Smooth Sample Processing

Load check avoiding human errors

Verifying the number of samples

Verifying the number of spin columns/rotor

adapters

Checking Buffer if volumes are sufficient

Proving the right tip size is loaded

Verifying the number of available tips

Positive tip check after uptake

Page 27: QIAcube Seminar

Sample & Assay Technologies- 27 -

Highest Convenience & Ease Of UseProtocol Selection & Process Monitoring

Monitoring the process

Continuous Information Active protocol Remaining time Actual processing step

Abort

3. Incubate

4. Lyse

6. Wash

7. Elute

5. Bind

Remaining time 0:20 min

DNA:QIAampBlood Mini:Standard 100

Page 28: QIAcube Seminar

Sample & Assay Technologies- 28 -

Mimicking The Manual ProcedureThe QIAcube Workflow

Page 29: QIAcube Seminar

Sample & Assay Technologies- 29 -

Mimicking The Manual ProcedureThe QIAcube Workflow

Page 30: QIAcube Seminar

Sample & Assay Technologies- 30 -

Mimicking The Manual ProcedureThe QIAcube Workflow

Page 31: QIAcube Seminar

Sample & Assay Technologies- 31 -

Mimicking The Manual ProcedureThe QIAcube Workflow

Page 32: QIAcube Seminar

Sample & Assay Technologies- 32 -

Mimicking The Manual ProcedureThe QIAcube Workflow

Page 33: QIAcube Seminar

Sample & Assay Technologies- 33 -

Mimicking The Manual ProcedureThe QIAcube Workflow

Page 34: QIAcube Seminar

Sample & Assay Technologies- 34 -

Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

Page 35: QIAcube Seminar

Sample & Assay Technologies- 35 -

35 Standard Protocols for 17 RNA Kits QIAcube – Streamlining RNA Applications

RNA purification from a range of samples RNeasy Mini Kit RNeasy MinElute Cleanup Kit RNeasy Plus Mini Kit RNeasy Micro Kit RNeasy Lipid Tissue Mini Kit RNeasy Fibrous Tissue Kit RNeasy Protect Bacteria Mini Kit RNeasy Protect Animal Blood Kit miRNeasy Protect Animal Blood Kit miRNeasy Mini Kit PAXgene Blood RNA Kit (IVD) PAXgene Blood miRNA Kit (RUO) QIAamp RNA Blood Mini Kit

FFPE samples RNeasy FFPE Kit

Plant samples RNeasy Plant Mini Kit

Multiple analyte purification AllPrep DNA/RNA Kit

Cleanup for Microarray Application Multiple Customized Protocols

Viral RNA purification QIAamp Viral RNA Mini Kit

Page 36: QIAcube Seminar

Sample & Assay Technologies- 36 -

Total RNA PurificationHigh-quality RNA – High RIN

RNeasy Standard

RNeasy Standard +DNase digestion

RNeasyQIAshredder

RNeasyCleanup

Manual QIAcube

RIN 9.5 RIN 9.4

RIN 10 RIN 10

RIN 10 RIN 10

RIN 9.7 RIN 9.7

Page 37: QIAcube Seminar

Sample & Assay Technologies- 37 -

RNeasy Micro KitHigh-quality RNA – comparable yields

Kidney (frozen)

0

2

4

6

8

10

Standard DNase Digest

RN

A [

µg

]

QIAcube

Manual

Consistent yields of RNA. RNA was purified from 5 x 105 Jurkat cells and 5 mg rat kidney (frozen), respectively, using the RNeasy Micro Kit on the QIAcube with and without DNase digestion. RNA yields are comparable between the QIAcube samples and the samples from the manual procedure, demonstrating the efficiency and reproducibility of the automated procedure.

Page 38: QIAcube Seminar

Sample & Assay Technologies- 38 -

RNeasy Micro KitHigh-quality RNA – high RNA Integrity Numbers

Manual QIAcube

RIN 10RIN 9,8

RIN 9,9RIN 9,9

RIN 8,7

RIN 8,8Lung (stabilized)

Spleen (frozen)

Thymus (stabilized)

RIN 10RIN 10Jurkat cells

RNA was purified using the RNeasy Micro Kit using the manual procedure or automated on the QIAcube. RNA was purified from 5 mg rat tissue (lung-stabilized, lung-frozen, spleen-frozen and thymus-stabilized) as well as 5 x 105 Jurkat cells. In all cases a DNA digestion step was carried out. Purified RNA was analyzed on the Agilent 2100 bioanalyzer. The high RNA Integrity Number (RIN) indicates the high quality of the RNA.

Page 39: QIAcube Seminar

Sample & Assay Technologies- 39 -

miRNeasy Tissue Kit QIAcube vs Manual

miRNA was purified manually or using the QIAcube from 25 mg of different types of stabilized tissue (kidney, lung, muscle, brain and liver) applying the miRNeasy Mini Kit. Purified RNA was used as a template in quantitative, real-time RT-PCR assays for the miRNA miR-16, miRNA miR 25. Results showed successful detection of both targets from the same eluates.

miR 16 Assay

0

5

10

15

20

25

Kidney Lung Muscle Brain Liver

Ct

val

ue

QIAcube

Manual

miR 25 Assay

0

5

10

15

20

25

Kidney Lung Muscle Brain Liver

Ct

val

ue

QIAcube

Manual

Page 40: QIAcube Seminar

Sample & Assay Technologies- 40 -

RNeasy FFPE KitQIAcube vs Manual

QIAcube Manual

Liver

Heart

Comparison of automated and manual RNA purification. RNA was purified using the RNeasy FFPE Kit with the manual procedure or automated on the QIAcube. RNA was purified from FFPE material (2 sections liver/ 3 sections heart). Purified RNA was analyzed on the Agilent 2100 bioanalyzer and showed similar quality for RNA isolated manually and on the QIAcube, respectively.

Page 41: QIAcube Seminar

Sample & Assay Technologies- 41 -

PAXgene Blood RNA On The QIAcubeAvailable For Diagnostic Use In Specific Countries

Page 42: QIAcube Seminar

Sample & Assay Technologies- 42 -

mR

NA

co

py

nu

mb

er

Blood collectionTime

Induction

In vivo transcript level at to

Cell Death/Enzymatic Degradation

Transcript Level Over Time In BloodPreservation Of Transcription Is Key

Page 43: QIAcube Seminar

Sample & Assay Technologies- 43 -

QuantiTect® RT-PCR *

DetectionData

AssayIsolationPurification

TransportStorage

CollectionStabilization

Preanalytical Steps Analytical Steps

The PAXgene Blood RNA SystemA System To Rely On

Page 44: QIAcube Seminar

Sample & Assay Technologies- 44 -

Gene Expression: 50 Months Blood Storage At -20°CHighly Consistent And Reliable Gene Expression Results

Relative transcript levels of [A] FOS and [B] IL1B in RNA purified from blood stored in situ at -20°C in PAXgene Blood RNA Tubes. Blood, collected from 10 donors, each with two RNA sample preparation replicates, was analyzed. The means and standard deviations of all storage test time points are plotted as orange lines with black vertical bars. Assay precision (±3 x total precision of the assay with consideration of single data ([A] 2.34 CT, [B] 1.93 CT) is shown as dashed red lines.

Page 45: QIAcube Seminar

Sample & Assay Technologies- 45 -

RNA Integrity Number (RIN): 50 Months At -20°C Highly Consistent and Reliable RNA Integrity Results

Integrity of RNA purified from whole blood stored in PAXgene Blood RNA Tubes at -20°C. Means of RINs of duplicates of all samples from all donors are presented as columns. The ends of upper and lower bars indicate the individual RINs of duplicate samples or, in the case of means, the standard deviations of RINs of all samples from all donors. Blood samples of donors 9 and 10 were excluded from study due to invalid WBC counts which were outside of the acceptance criteria (4.8x10 6-1.1x107 leukocytes/ml).

Page 46: QIAcube Seminar

Sample & Assay Technologies- 46 -

PAXgene Blood RNA

Manual RNA PreparationProcedure

Page 47: QIAcube Seminar

Sample & Assay Technologies- 47 -

PAXgene Blood RNA On The QIAcubeAutomated Protocol

Page 48: QIAcube Seminar

Sample & Assay Technologies- 48 -

High And Reproducible RIN ValuesHigh-Quality RNA With The PAXgene Blood RNA System

RNA integrity (RIN) as criterion of product performance. Replicate blood samples from eight donors were processed in several runs with both RNA preparation protocols, by three users, using three equipment sets and QIAcube instruments and three different kit lots. Samples from two donors were randomly selected ([A] donor 2 and [B] donor 6) for RNA integrity analysis. The means and standard deviations of RIN values from quadruplicate (=replicates processed within identical RNA preparation run) and from 36 samples (=replicates processed with several RNA preparation runs by different users, using different lots with different equipment sets and QIAcubes) are presented as columns with bars. The combination of user (uA, uB, uC), kit lot (l1, l2, l3), mean for all combination (mean) and the use of automated and manual RNA preparation protocol (LTA=low-throughput automated protocol, man=manual protocol) is indicated on the x-axis and with the legend.

Page 49: QIAcube Seminar

Sample & Assay Technologies- 49 -

High A260/A280 RatiosPure RNA With The PAXgene Blood RNA System

Blood samples from 48 different donors were collected in PAXgene Blood RNA Tubes (6 tubes per donor, 288 tubes in total). The contents of the tubes from 6 donors were pooled and subsequently realiquoted into 36 samples. These 36 samples per 6-donor-pool were processed by 3 different operators (A, B, C). Each operator used 3 different lots (1, 2, 3) of the PAXgene Blood RNA Kit for automated extraction and processed quadruplicate samples from each of the 8 donor pools.A260/A280 values of all individual samples are shown for every operator–lot combination.

Page 50: QIAcube Seminar

Sample & Assay Technologies- 50 -

Less Than 1% gDNA ContaminationPure RNA With The PAXgene Blood RNA System

Blood samples from 48 different donors were collected in PAXgene Blood RNA Tubes (6 tubes per donor, 288 tubes in total). The contents of the tubes from 6 donors were pooled and subsequently realiquoted into 36 samples. These 36 samples per 6-donor-pool were processed by 3 different operators (A, B, C). Each operator used 3 different lots (1, 2, 3) of the PAXgene Blood RNA Kit for automated extraction and processed quadruplicate samples from each of the 8 donor pools.Genomic DNA amounts (w/w) in all individual samples are shown for every operator–lot combination.

Page 51: QIAcube Seminar

Sample & Assay Technologies- 51 -

Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

Page 52: QIAcube Seminar

Sample & Assay Technologies- 52 -

>40 Standard Protocols for 19 DNA Kits QIAcube – Streamlining DNA Applications

Genomic DNA from human samples QIAamp DNA Blood Mini Kit QIAamp DNA Mini Kit QIAamp DNA Stool Mini Kit QIAamp DNA Micro Kit QIAamp MinElute Media Kit

Forensic samples QIAamp DNA Investigator Kit

Viral DNA QIAamp MinElute Virus Kit

Genomic DNA From Animal/Plant Samples DNeasy Blood & Tissue Kit DNeasy Plant Mini Kit

Plasmid DNA purification QIAprep Spin Miniprep Kit

DNA Cleanup QIAquick PCR Purification Kit QIAquick Gel Extraction Kit QIAquick Nucleotide Removal Kit MinElute PCR Purification Kit MinElute Reaction Cleanup Kit MinElute Gel Extraction Kit

FFPE Samples QIAamp DNA FFPE

Bisulfite conversion and cleanup EpiTect Bisulfite Kit

Multiple analyte purification AllPrep DNA/RNA Kit

Page 53: QIAcube Seminar

Sample & Assay Technologies- 53 -

Automated purification of genomic DNA from blood treated with different anticoagulants

0

2

4

6

8

donor 1 donor 2 donor 3

yiel

d [µ

g]

EDTAcitrateheparin

1 µl

5 µl

10 µl

EDTA citrate heparinM M

_

+

donor 1

Wavelength (nm)

220 230 240 250 260 270 280 290 300 310 3200

0,1

0,2

0,3

0,4

Well A1 A2 A3 A4

Lambda at Maximum 255,00 255,00 255,00 255,00

Wavelength (nm)

220 230 240 250 260 270 280 290 300 310 3200

0,1

0,2

0,3

0,4

Well B1 B2 B3 B4

Lambda at Maximum 255,00 255,00 255,00 255,00

Wavelength (nm)

220 230 240 250 260 270 280 290 300 310 3200

0,1

0,2

0,3

0,4

Well C1 C2 C3 C4

Lambda at Maximum 255,00 255,00 255,00 255,00

EDTA citrate heparin

donor 1

A

B

C

QIAamp DNA Blood Mini KitPurification Of Highly Pure DNA

Page 54: QIAcube Seminar

Sample & Assay Technologies- 54 -

QIAamp DNA FFPE QIAcube vs Manual

Fig.: DNA extraction from FFPE samples using the QIAcube. 10 µm sections of a rat liver FFPE sample were lysed according to the QIAamp DNA FFPE tissue protocol. The protocol uses a 90°C heat incubation step to partially reverse protein and DNA crosslinks introduced by formaldehyde treatment. Samples were pooled after lysis, treated with RNase A and redistributed into 48 aliquots of 200 µl lysate each. 12 samples were processed manually and 36 samples were processed using the QIAcube in three independent runs of the QIAamp DNA FFPE Tissue protocol. DNA yields were determined spectrophotometrically.

Rat Liver FFPE samples

0

1

2

3

4

manual QIAcube run 1 QIAcube run 2 QIAcube run 3

Av

era

ge

Yie

ld (

µg

)

Page 55: QIAcube Seminar

Sample & Assay Technologies- 55 -

DNA Investigator Kit – Casework SamplesQIAcube vs Manual

Chewing gum

Cigarette butts

Isolation of total DNA from chewing gum and cigarette butts using the QIAcube. 30 mg chewing gum or a quarter of a cigarette butt paper was used as sample. Reference samples were processed manually according to the corresponding protocols in the QIAamp DNA Investigator Handbook. DNA was eluted in 60 µl of water and quantified by real time PCR.

Casework samples Chewing gum

0

20

40

60

manual QIAcube

Yie

ld (

ng

)

Casework samplesCigarette butts

0

1

2

manual QIAcube

Yie

ld (

ng

)

Page 56: QIAcube Seminar

Sample & Assay Technologies- 56 -

QIAamp MinElute Virus Spin ProtocolQIAcube vs Manual

ParvoB19 positive plasma samples Downstream analysis using an in-house

real time PCR assay

HBV positive samples 104 c/ml Downstream analysis using an in-

house real time PCR assay

17

19

21

23

25

27

29

1e06 IU/ml 1e05 IU/ml 1e04 IU/ml

Input titer

CT

Manual

QIAcube

35

36

37

38

39

Manual QIAcube

CT

Page 57: QIAcube Seminar

Sample & Assay Technologies- 57 -

QIAamp MinElute Virus ProtocolCross Contamination Experimental Setup

ParvoB19 positive plasma

samples

Titer: 1.0 x 108 IU/ml

Two consecutive runs with an

alternating pattern of positive

and negative samples

(checkerboard) followed by a

complete negative run

36 samples in total

Downstream analysis using

an in-house real time PCR

assay

Run 1

Run 2

Run 3:

= negative control = positive sample

01 07

02 08

03 09

04 10

05 11

06 12

13 19

14 20

15 21

16 22

17 23

18 24

01 07

02 08

03 09

04 10

05 11

06 12

25 31

26 32

27 33

28 34

29 35

30 36

Page 58: QIAcube Seminar

Sample & Assay Technologies- 58 -

No Cross Contamination DetectableExperimental Results

Results:

Run 1 2 3 4 5 6 7 8 9 10 11 12

1 19.5 n.d. 19.4 n.d. 18.8 n.d. n.d. 19 n.d. 19.1 n.d. 19.8

2 n.d. 19.1 n.d. 18.9 n.d. 18.8 18.7 n.d. 19.2 n.d. 18.9 n.d.

3 n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d. n.d.

Mean CT of Positive Samples: 19.1

Standard deviation: 0.31

CV: 1.6%

Position

n/d = not detected

Page 59: QIAcube Seminar

Sample & Assay Technologies- 59 -

Human stool from three different donors was spiked with Streptococcus pyogenes and Enterococcus faecium cells as well as with the HBV-Virus. DNA from all three stool samples (D1, D2 and D3) was then prepared using the QIAamp DNA Stool Kit using the protocol for ‘Pathogen Detection’ either manually or by using the QIAcube. For both protocols DNA was then eluted in 200 µl and subsequently analyzed with specific real time PCR assays.

Isolation of DNA from human Stool with the QIAamp DNA Stool Kit (Protocol for Pathogen Detection)

CT

QIAamp DNA Stool KitQIAcube vs Manual

0,0

5,0

10,0

15,0

20,0

25,0

30,0

35,0

1 2 3 4

E. coli S. pyogenes E. faecium HBVD1 D2 D3 D1 D2 D3 D1 D2 D3 D1 D2 D3

manual

QIAcube

Page 60: QIAcube Seminar

Sample & Assay Technologies- 60 -

Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

Page 61: QIAcube Seminar

Sample & Assay Technologies- 61 -

8 Standard Protocols for 5 Protein Kits QIAcube – Streamlining Protein Applications

Page 62: QIAcube Seminar

Sample & Assay Technologies- 62 -

M: MW markerL: Loaded E.coli lysate fraction (1.5 µl)E1, E2: Elution fractions 1 and 2 (1.5 µl each)

QIAcubeManual

M L E1 E2 L E1 E2 L E1 E2 L E1 E2

Purification of 6xHis-tagged HIV ProteaseQIAcube vs Manual

175 kD 83 kD62 kD

47,5 kD32,5 kD

25 kD

16,5 kD

6,5 kD

Page 63: QIAcube Seminar

Sample & Assay Technologies- 63 -

Depletion of Human Plasma SamplesQIAcube vs Manual

Human plasma samples were depleted from HSA and IgG using the QIAcube system and the Qproteome Albumin/IgG Depletion Kit. After depletion the flow through was analyzed regarding protein amount (left) and depletion efficiency (right). The mean protein amount is 429 µg in 512 µl which gives a concentration of 0.84 mg/ml. With a standard deviation of 16 µg this leads to a relatively low CV of 3.7 %. The SDS-PAGE shows a reproducible and efficient removal of the most abundant protein species albumin and IgG comparable to the manual depletion protocol.

P M 1 2 3 4 5 6 7 8 9 10 11 12

SDS-PAGE of the 12 flow through samplesP: raw plasmaM: manually depleted sample1-12: samples processed with the QIAcube

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Overview

Introducing QIAGEN

The QIAcube

How It Works

Applications

– RNA

– DNA

– Protein

Summary & QIAcube WebPortal

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Over 100 Standard Protocols for 50 Kits QIAcube - The Multi-Talent

Genomic DNA from human samples QIAamp DNA Blood Mini Kit QIAamp DNA Mini Kit QIAamp DNA Stool Mini Kit QIAamo DNA Micro Kit QIAamp MinElute Media Kit QIAamp DSP Virus Mini kit NEW QIAamp DSP DNA Blood Mini kit NEW QIAamp DSP DNA Mini kit NEW QIAamp DSP Viral RNA Mini kit NEW

Forensic samples QIAamp DNA Investigator Kit

Viral DANN and RNA purification QIAamp MinElute Virus Kit QIAamp Viral RNA Mini Kit

Genomic DNA from animal samples DNeasy Blood & Tissue Kit

Multiple Analyte Purification AllPrep DNA/RNA Kits AllPrep DNA/RNA FFPE NEW

Plasmid DNA purification QIAprep Spin Miniprep Kits

DNA cleanup QIAquick PCR Purification Kit QIAquick Gel Extraction Kit QIAquick Nucleotide Removal Kit MinElute PCR Purification Kit MinElute Reaction Cleanup Kit MinElute Gel Extraction kit

RNA purification from a range of samples RNeasy Mini Kit RNeasy MinElute Cleanup Kit RNeasy Plus Mini Kit RNeasy Micro Kit RNeasy Lipid Tissue Mini Kit RNeasy Fibrous Tissue Kit RNeasy Protect Bacteria Mini Kit RNeasy Protect Animal Blood Kit miRNeasy Protect Animal Blood Kit RNeasy Protect Animal Blood Kit PAXgene Blood RNA Kit (IVD) PAXgene Blood miRNA Kit (RUO) QIAamp RNA Blood Mini Kit RNeasy Plus Universal Kit NEW

FFPE samples RNeasy FFPE Kit QIAamp DNA FFPE Kit

Plant samples DNeasy Plant Mini Kit RNeasy Plant Mini Kit

Protein purification and serum depletion Ni-NTA Spin Kit Qproteome Albumin/IgG Depletion Kit Qproteome Murine Albumin Depletion Kit Qproteome Total Glycoprotein Kit Qproteome O-Glycan Glycoprotein Kit

Bisulfite conversion and cleanup EpiTect Bisulfite Kit EpiTect Bisulfite Plus Kit NEW

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Core Of The LabQIAcube

Protein

RNADNA

Clean-Ups

Customizedprotocols

Viral Nucleic Acids

DNA&RNA

From sameSample

Plasmid

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Academia

Pharma

MDx

Helping Every Customer QIAcube

Protein

RNADNA

Clean-ups

Customizedprotocols

Viral Nucleic Acids

DNA&RNA

From same

Sample

PlasmidApplied Testing

Forensic

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Sample & Assay Technologies- 68 -

Influenza ResearchQIAcube – QIAamp Viral RNA Kit

QIAamp Viral RNA Kit automated on QIAcube

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Sample & Assay Technologies- 69 -

Expression Research QIAcube – RNeasy Plus Mini Kit

RNeasy Plus Mini Kit automated on QIAcube

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Sample & Assay Technologies- 70 -

Multiple Sclerosis Research QIAcube – QIAamp DNA Blood Mini Kit

QIAamp DNA Blood Mini Kit automated on QIAcube

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Sample & Assay Technologies- 71 -

HIV Research QIAcube – RNeasy Mini Kit

RNeasy Mini Kit automated on QIAcube

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Sample & Assay Technologies- 72 -

Clostridium difficile QIAcube – QIAamp DNA Stool Mini Kit

QIAamp DNA Stool Mini Kit automated on QIAcube

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Ready To Meet Your NeedsEasy Extension Of Protocol Portfolio

The QIAcube WebPortal: www.qiagen.com/myQIAcube Download of Standard QIAGEN Protocols

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Ready To Meet Your NeedsEasy Extension Of Protocol Portfolio

The QIAcube WebPortal: www.qiagen.com/myQIAcube Request and order modified/customized protocols (excluding IVD protocols)

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www.QIAGEN.com/myQIAcube

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www.QIAGEN.com/myQIAcube

The QIAcube is intended to be used only in combination with QIAGEN kits indicated for use with the QIAcube for the applications described in the kit handbooks.

Thank You!

For more information visit:www.QIAGEN.com/myQIAcube