Transcript SureSelect Decission Tree

XT
SureSelect™ Decision Tree
Focus your next-gen sequencing on DNA that matters
All Exon
v1-38Mb
Kinome
X
All Exon
v2-44Mb
Whole
Exome
Human
SureSelectTM
Decision Tree
All Exon
50Mb
Custom
Capture
Custom
Capture
Click Here
Human
Kinome
Chromosome
DNA
Custom
Capture
Non
Human
What do you
want to
capture?
Mouse
Exome
RNA
Non
Human
Custom
Capture
SureSelect All Exon Kits
Whole Exome in one capture!
 Crack the Codes of Mendelian
and other Diseases
 Less sequencing to results
 Up to 20x more samples per run
– compared to Whole Genome
Sequencing
All Exon 50Mb Performance
100%
90%
80%
70%
60%
50%
40%
30%
20%
10%
0%
76.3%
85.1%
96.7% 87.9%
77.5%
 Most comprehensive coverage
in the market
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect Human All Exon Kits
Comprehensive coverage
Target Size
CCDS (Nov. 2010)
RefSeq Genes (Nov.2010)
miRNA (miRBase v14)
Ensembl (Aug.2010)
GENCODE v4
Addition of Custom
Exome
Developed with
All Exon v1
All Exon v2
All Exon 50Mb
CCDS Sept. 2008
CCDS Sept. 2008
+ additional RefSeq content
including CCDS Sept. 2009 exons
GENCODE and Sanger
(includes CCDS and Broad
defined v2 content as well)
38Mb
89.6%
85.9%
90.0%
79.9%
80.9%
44Mb
98.2%
96.9%
90.0%
90.9%
92.9%
50Mb
99.5%
99.0%
92. 8%
96.2%
97.0
Yes
Yes
Yes
Broad
Broad
Sanger
 Human All Exon kits can be customized (PLUS) with up to 6.8Mb additional custom content
 Human All Exon kits can be multiplexed on SOLiD4 and HiSeq2000
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect All Exon 50Mb
Reactions
SureSelect Human SureSelect XT Human
All Exon Kit 50Mb
All Exon 50Mb
SureSelect Human All
Exon Kit 50Mb PLUS
5 rxns
G3370A
G7544A
x
10 rxns
G3370B
G7544B
x
25 rxns
G3370C
G7544C
x
50 rxns
G3370D
G7544D
x
100 rxns
G3370E
G7544E
x
250 rxns
G3370F
G7544F
x
500 rxns
G3370G
G7544G
x
1000 rxns
G3370H
G7544H
x
2000 rxns
G3370J
G7544J
x
5000 rxns
G3370K
G7544K
x
10000 rxns
G3370L
G7544L
x
•The PLUS option allows addition of up to 6.8Mb of custom
content using the eArray tool
•The XT option includes also kits for gDNA prep and library prep
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
454
003
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect All Exon v1 Kits – 38Mb
Reactions
SureSelect Human SureSelect XT Human SureSelect Human
All Exon Kit
All Exon
All Exon Plus Kit
SureSelect XT
Human All Exon
Plus Kit2
5 rxns
G3362A
G7540A
G3363A
G7541A
10 rxns
G3362B
G7540B
G3363B
G7541B
25 rxns
G3362C
G7540C
G3363C
G7541C
50 rxns
G3362D
G7540D
G3363D
G7541D
100 rxns
G3362E
G7540E
G3363E
G7541E
250 rxns
G3362F
G7540F
G3362F
G7541F
500 rxns
G3362G
G7540G
G3363G
G7541G
1000 rxns
G3362H
G7540H
G3363H
G7541H
2000 rxns
G3362J
G7540J
G3363J
G7541J
5000 rxns
G3362K
G7540K
G3363K
G7541K
10000 rxns
G3362L
G7540L
G3363L
G7541L
•The PLUS option allows addition of up to 6.8Mb of custom content
using the eArray tool
•The XT option includes also kits for gDNA prep and library prep
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
454
003
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect All Exon v2 Kits – 44Mb
Reactions
5 rxns
10 rxns
25 rxns
50 rxns
100 rxns
250 rxns
500 rxns
1000 rxns
2000 rxns
5000 rxns
10000 rxns
SureSelect Human
SureSelect XT
SureSelect Human
All Exon v2 Kit
Human All Exon v2 All Exon v2 Plus Kit
G3353A
G3353B
G3353C
G3353D
G3353E
G3362F
G3353G
G3353H
G3353J
G3353K
G3353L
G7542A
G7542B
G7542C
G7542D
G7542E
G7542F
G7542G
G7542H
G7542J
G7542K
G7542L
x
x
x
x
x
x
x
x
x
x
x
•The PLUS option allows addition of up to 6.8Mb of custom
content using the eArray tool
•The XT option includes also kits for gDNA prep and library prep
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
454
003
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect X-Chromosome
Reactions
5 rxns
SureSelect Target Enrichment
System, Demo Kit
(XChromosome)
SureSelect XT Human X-Chr
G4459A
G7560A
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
454
003
•The XT option includes also kits for gDNA prep and
library prep
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect Kinome
Discovery and Profiling of Biomarkers for Disease and Drug Response
Definition of SureSelect Human Kinome Kit: 3.2Mb (incl. UTRs):
 518 putative kinases
 12 PI3K domain-containing genes
 13 diglyceride kinases
 6 PI3K regulatory components
 9 inositol polyphosphate Kinases
 9 PIP4/PIP5 Kinases
 28 genes frequently mutated in human cancer
 19 genes specifically known to be mutated in breast cancer
 612 genes total
G. Manning et al Science (2002)
Original content defined by Prof. René Bernards – NKI
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect Human Kinome Kit – DNA
Reactions
SureSelect Human All Kinome Kit
SureSelect XT Human Kinome
5 rxns
10 rxns
25 rxns
50 rxns
100 rxns
250 rxns
500 rxns
1000 rxns
2000 rxns
5000 rxns
G3365A
G3365B
G3365C
G3365D
G3365E
G3365F
G3365G
G3365H
G3365J
G3365K
G7562A
G7562B
G7562C
G7562D
G7562E
G7562F
G7562G
G7562H
G7562J
G7562K
10000 rxns
G3365L
G7562L
•The XT option includes also kits for gDNA prep
and library prep
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
454
003
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect Custom Kits
 Capture any custom genomic regions (introns, exons, UTRs, regulatory, etc.)
 Ideal for biomarkers discovery and profiling (e.g. cancer)
 Ideal for custom SNP follow-up
 Ideal for characterization of large sample cohorts
 Only pay what you capture, scalable from 0.2 to 6.8Mb (sweet spot for 3rd Gen Seq)
o <0.2 Mb
o 0.2 – 0.5Mb
o 0.5 – 1.5Mb
o 1.5 – 3Mb
o 3 – 6.8Mb
 COMING SOON! – Custom Kits up to 34Mb
IMAGE: Nature Immunology Volume: 11, Pages: 197–206 (2010)
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect Custom Kits – DNA
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
454
003
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
Expanding Exome Design to Animal Models
Mouse All Exon
100%
90%
80%
70%
60%
50%
40%
30%
20%
10%
0%
Exon definition derived from Ensembl + RefSeq
Designed against mm9 reference from UCSC
Number of genes covered: 24,306
Number of exons: 221,784
Total size of design: 49.6 MB
Performance Mouse All Exon Design with 5Gb sequencing
% Reads OnUniformity (3/4
Target +/- 200bp mean with upper
tail)
Promega
C3H
DBA
% Bases 1X
Coverage
PWK
% Bases 10X
Coverage
15NIH36a
% Bases 20X
Coverage
15NIH49a
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect Mouse All Exon Kits
Reactions
SureSelect XT
SureSelect Mouse
Mouse All Exon
All Exon Kit
Kit
5 rxns
G7500A
G7550A
10 rxns
G7500B
G7550B
25 rxns
G7500C
G7550C
50 rxns
G7500D
G7550D
100 rxns
G7500E
G7550E
250 rxns
G7500F
G7550F
500 rxns
G7500G
G7550G
1000 rxns
G7500H
G7550H
2000 rxns
G7500J
G7550J
5000 rxns
G7500K
G7550K
10000 rxns
G7500L
G7550L
•The XT option includes also kits for gDNA prep and
library prep
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
454
003
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
Performance of SureSelect RNA Target Enrichment
Enriched library
Gene Expression Levels
R2=0.885
Unenriched library
High correlation to unenriched RNA library = enrichment process doesn’t create any bias –
reliable gene expression results!
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
Performance of SureSelect RNA Target Enrichment
Enriched Library 1
Gene Expression Levels
R2=0.998
Enriched library 2
High Reproducible process = reliable gene expression results
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect Custom Kits - RNA
SureSelect
Reactions
<200kb (MP1)
10 rxns
25 rxns
50 rxns
100 rxns
250 rxns
500 rxns
1000 rxns
2000 rxns
5000 rxns
10000 rxns
G7581B
G7581C
G7581D
G7581E
G7581F
G7581G
G7581H
G7581J
G7581K
G7581L
Add the following
Sequencing Platform extension to the Part
Number
200kb - 499kb 500kb-1.49Mb 1.5Mb-2.99Mb 3.0Mb-6.8Mb
(MP2)
(MP3)
(MP4)
(MP0)
G7582B
G7582C
G7582D
G7582E
G7582F
G7582G
G7582H
G7582J
G7582K
G7582L
G7583B
G7583C
G7583D
G7583E
G7583F
G7583G
G7583H
G7583J
G7583K
G7583L
G7584B
G7584C
G7584D
G7584E
G7584F
G7584G
G7584H
G7584J
G7584K
G7584L
G7585B
G7585C
G7585D
G7585E
G7585F
G7585G
G7585H
G7585J
G7585K
G7585L
Illumina GA/HiSeq
001
SOLiD
002
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
SureSelect RNA Capture Human Kinome Kit
Reactions
SureSelect RNA Capture
Human Kinome Kit
5 rxns
10 rxns
25 rxns
50 rxns
100 rxns
250 rxns
500 rxns
1000 rxns
2000 rxns
5000 rxns
G7580A
G7580B
G7580C
G7580D
G7580E
G7580F
G7580G
G7580H
G7580J
G7580K
10000 rxns
G7580L
Add the following
Sequencing Platform extension to the Part
Number
Illumina GA/HiSeq
001
SOLiD
002
Click to go back to
the decision tree
Agilent SureSelect™ Platform
Enabling Products for the Next-Generation
Sequencing Workflow
All
Exon v1
(38Mb)
Kinome
X
All
Exon v2
(44Mb)
Whole
Exome
All
Exon
50Mb
Custom
Capture
Human
SureSelectTM
Decision Tree
Custom
Capture
Human
Kinome
Chromosome
DNA
Custom
Capture
Non
Human
What do you
want to
capture?
Mouse
Exome
RNA
Non
Human
Custom
Capture