Noi/NOTES/2014-12-25: Difference between revisions

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* PE 100+7
* PE 100+7
{| {{table}} border = 1
{| {{table}} border = 1
| align="center" style="width:220px;background:#f0f0f0;"|'''Library ID (for sequencing)'''
| align="center" style="background:#f0f0f0;"|'''Library Name'''
| align="center" style="width:100px;background:#f0f0f0;"|'''Sample ID'''
| align="center" style="width:80px;background:#f0f0f0;"|'''Sample ID'''
| align="center" style="width:100px;background:#f0f0f0;"|'''Adaptor System/primers'''
| align="center" style="width:60px;background:#f0f0f0;"|'''Index#'''
| align="center" style="width:60px;background:#f0f0f0;"|'''Index #'''
| align="center" style="width:80px;background:#f0f0f0;"|'''Index Sequence'''
| align="center" style="width:80px;background:#f0f0f0;"|'''Seq (RC)'''
| align="center" style="background:#f0f0f0;"|'''Adaptor/primer system'''
| align="center" style="width:100px;background:#f0f0f0;"|'''Sequencing platform/at'''
| align="center" style="width:60px;background:#f0f0f0;"|'''Sequencing lane'''
| align="center" style="width:60px;background:#f0f0f0;"|'''Lane #'''
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||PC-P_3||TruSeq||2||CGATGT||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#1||PCP-2||1||ATCACG||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||PC-P_5||TruSeq||4||TGACCA||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#3||PCP-4||3||TTAGGC||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||PC-P_6||TruSeq||5||ACAGTG||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#8||PCP-9||8||ACTTGA||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||PC-P_7||TruSeq||6||GCCAAT||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#9||6P-1||9||GATCAG||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||PC-P_8||TruSeq||7||CAGATC||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#10||6P-2||10||TAGCTT||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||6-P-4||TruSeq||12||CTTGTA||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#11||6P-3||11||GGCTAC||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||6-P-5||TruSeq||13||AGTCAA||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#20||7P-3||20||GTGGCC||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||6-P-8||TruSeq||14||AGTTCC||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#21||7P-5||21||GTTTCG||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||6-P-9||TruSeq||15||ATGTCA||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#22||7P-6||22||CGTACG||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||6-P-10||TruSeq||16||CCGTCC||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#23||7P-7||23||GAGTGG||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec4||7-P-1||TruSeq||18||GTCCGC||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#25||7P-8||25||ACTGAT||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec15||7-P-2||TruSeq||19||GTGAAA||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#27||7P-10||27||ATTCCT||TruSeq||1
|-
|-
| NP-SeqCap-pCancerSetB-Dec16||NC-29||TruSeq||23||GAGTGG||Rapid run/IGM||1
| NP-SeqCap-pCancerSetB-Dec4 TS#7||NC-7||7||CAGATC||TruSeq||1
|}
<br>
{| {{table}} border = 1
| align="center" style="width:200px;background:#f0f0f0;"|'''Library ID (for sequencing)'''
| align="center" style="width:100px;background:#f0f0f0;"|'''Sample ID'''
| align="center" style="width:140px;background:#f0f0f0;"|'''Adaptor System/primers'''
| align="center" style="width:60px;background:#f0f0f0;"|'''Index #'''
| align="center" style="width:80px;background:#f0f0f0;"|'''Seq (RC)'''
| align="center" style="width:100px;background:#f0f0f0;"|'''Sequencing platform/at'''
| align="center" style="width:60px;background:#f0f0f0;"|'''Lane #'''
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 6T-1||STD ILMN adaptor/PCR_R.N2 Indx||4||TGACCA||Rapid run/IGM||2
| ||||||||||
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 6T-2||STD ILMN adaptor/PCR_R.N2 Indx||5||ACAGTG||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#20||6T-1||4||TGACCA||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 6T-3||STD ILMN adaptor/PCR_R.N2 Indx||6||GCCAAT||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#21||6T-2||5||ACAGTG||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 6T-4||STD ILMN adaptor/PCR_R.N2 Indx||7||CAGATC||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#22||6T-3||6||GCCAAT||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 6T-5||STD ILMN adaptor/PCR_R.N2 Indx||8||ACTTGA||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#23||6T-4||7||CAGATC||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 7T-1||STD ILMN adaptor/PCR_R.N2 Indx||9||GATCAG||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#24||6T-5||8||ACTTGA||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 7T-2||STD ILMN adaptor/PCR_R.N2 Indx||10||TAGCTT||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#25||7T-1||9||GATCAG||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 7T-4||STD ILMN adaptor/PCR_R.N2 Indx||12||CTTGTA||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#26||7T-2||10||TAGCTT||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| 7T-5||STD ILMN adaptor/PCR_R.N2 Indx||13||CCATGA||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#28||7T-4||12||CTTGTA||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| PCT-1||STD ILMN adaptor/PCR_R.N2 Indx||14||AAGACA||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#29||7T-5||13||CCATGA||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| PCT-2||STD ILMN adaptor/PCR_R.N2 Indx||15||CTTCCT||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#30||PCT-1||14||AAGACA||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| PCT-4||STD ILMN adaptor/PCR_R.N2 Indx||16||GGGGTT||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#31||PCT-2||15||CTTCCT||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| PCT-6||STD ILMN adaptor/PCR_R.N2 Indx||17||CTCATC||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#32||PCT-4||16||GGGGTT||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2|| PCT-7||STD ILMN adaptor/PCR_R.N2 Indx||18||AGTTCA||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#33||PCT-6||17||CTCATC||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
|-
| NP-SeqCap-tCancerSetC-Dec4 N2||NC-6||TruSeq||6||GCCAAT||Rapid run/IGM||2
| NP-SeqCap-tCancerSetC-Dec4 N2#34||PCT-7||18||AGTTCA||STD ILMN adaptor/PCR_R.N2 IndX||2
|-
| NP-SeqCap-tCancerSetC-Dec4 TS#6||NC-6||6||GCCAAT||TruSeq||2
|}
|}

Latest revision as of 03:03, 6 January 2015

Summary of WGBS sequencing libraries captured by SeqCap Hybridization capture and their corresponding index[edit]

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1) HiSeq Rapid run at IGM (141216_SN1001_0423)[edit]

  • Library type: WGBS libraries generated by KAPA Hyper Prep kit (all cancer plasma samples). NC samples were generated by original method but lacked T4 DNA Pol, T4 polynucleotide kinase.
  • The WGBS libraries were captured by Nimblegen SeqCap LMS probe.
  • PE 100+7
Library Name Sample ID Index# Index Sequence Adaptor/primer system Sequencing lane
NP-SeqCap-pCancerSetB-Dec4 TS#1 PCP-2 1 ATCACG TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#3 PCP-4 3 TTAGGC TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#8 PCP-9 8 ACTTGA TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#9 6P-1 9 GATCAG TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#10 6P-2 10 TAGCTT TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#11 6P-3 11 GGCTAC TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#20 7P-3 20 GTGGCC TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#21 7P-5 21 GTTTCG TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#22 7P-6 22 CGTACG TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#23 7P-7 23 GAGTGG TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#25 7P-8 25 ACTGAT TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#27 7P-10 27 ATTCCT TruSeq 1
NP-SeqCap-pCancerSetB-Dec4 TS#7 NC-7 7 CAGATC TruSeq 1
NP-SeqCap-tCancerSetC-Dec4 N2#20 6T-1 4 TGACCA STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#21 6T-2 5 ACAGTG STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#22 6T-3 6 GCCAAT STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#23 6T-4 7 CAGATC STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#24 6T-5 8 ACTTGA STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#25 7T-1 9 GATCAG STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#26 7T-2 10 TAGCTT STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#28 7T-4 12 CTTGTA STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#29 7T-5 13 CCATGA STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#30 PCT-1 14 AAGACA STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#31 PCT-2 15 CTTCCT STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#32 PCT-4 16 GGGGTT STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#33 PCT-6 17 CTCATC STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 N2#34 PCT-7 18 AGTTCA STD ILMN adaptor/PCR_R.N2 IndX 2
NP-SeqCap-tCancerSetC-Dec4 TS#6 NC-6 6 GCCAAT TruSeq 2