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+ | |DNA Core | ||
+ | |1.8 | ||
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+ | |Pop 12 | ||
+ | |AH115FADXX | ||
+ | |150 PE | ||
+ | |? | ||
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+ | |Isabelle | ||
+ | |Poplar | ||
+ | |Poplar genomic | ||
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+ | |- | ||
|9/21/13 | |9/21/13 | ||
|Berkeley | |Berkeley | ||
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|RNA-seq | |RNA-seq | ||
|Persimmon Grapevine | |Persimmon Grapevine | ||
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Revision as of 15:25, 7 January 2014
Sequencing Runs
- Note: Pipeline:1.8+ sanger quality
- Sequence Bill
Run Date | Sequence Facility | CASAVA Pipeline v. | Lane# | Lane Name | Flowcell | Layout | Number of Clusters (raw) | Number of Clusters (PF) | % Clusters Retained | # of Reads | People | Project | Source | Comments |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
10/09/13 | DNA Core | 1.8 | 2 | Pop 12 | AH115FADXX | 150 PE | ? | ? | ? | ? | Isabelle | Poplar | Poplar genomic | |
9/21/13 | Berkeley | 1.8 | 2 | LCKN003 | C2DFPACXX | 50 SE | ? | ? | ? | ? | Gib | RNA-seq | Arabidopsis | |
9/21/13 | Berkeley | 1.8 | 1 | LCKN002 | C2DFPACXX | 50 SE | ? | ? | ? | ? | Gib | RNA-seq | Arabidopsis | |
9/17/13 | Berkeley | 1.8 | 3 | LCKN001 | C2DFYACXX | 50 SE | ? | ? | ? | ? | Gib | RNA-seq | Arabidopsis | |
9/17/13 | Berkeley | 1.8 | 2 | LCKN000 | C2DFYACXX | 50 SE | ? | ? | ? | ? | Takashi | RNA-seq | Persimmon Grapevine | |
9/12/13 | DNA Core | 1.8 | 2 | T22 Final Library | BH1164ADXX | ? | ? | ? | ? | Helen | TILLING | Amplicons | ||
9/11/13 | DNA Core | 1.8 | 1 | Holla(P)Pilot RESCAN | M02034 (Miseq) | 150PE | 500178 | 455635 | 91.1 | ? | Helen | RESCAN | HollaP Pilot | |
7/24/13 | Berkeley | 1.8 | 2 | LCHT002 | H0R3CADXX | 150 PE | ? | ? | ? | ? | Takashi | RNA-seq | Persimmon | Rapid Mode |
7/24/13 | Berkeley | 1.8 | 1 | LCHT001 | H0R3CADXX | 150 PE | ? | ? | ? | ? | Helen | T21 | HOLLA | Rapid Mode |
6/5/13 | Berkeley | 1.8 | 1 | Sample_Flax1 | H0R3KADXX | 100 PE | ? | ? | ? | ? | Nagu | Flax | Capture | Rapid Mode |
2 | Sample_FLAX2 | H0R3KADXX | 100 PE | ? | ? | ? | ? | Nagu | Flax | Capture | Rapid Mode | |||
Takashi | Mixed | Amplicons | Rapid Mode (spike) | |||||||||||
6/1/13 | DNA Core | 1.8 | 3 | SynxNat Plate II Pop10 | BD1KRWACXX | 50 SE | ? | ? | ? | ? | Isabelle | SynxNat | RESCAN | |
Poplar | ||||||||||||||
5/25/13 | DNA Core | 1.8 | 8 | SynxNat Plate1 | BD1KEDACXX | 50 SE | ? | ? | ? | ? | Isabelle | SynxNat | RESCAN | |
5/17/13 | DNA Core | 1.8 | 8 | Art Capture | BC1N60ACXX | 100 PE | ? | ? | ? | ? | Art | Rice | Capture | |
3/21/13 | DNA Core | 1.8 | 3 | Pop8 Final | AD1GEAACXX | 50SE | ? | ? | ? | ? | Isabelle | Poplar | RESCAN | |
2/8/13 | DNA Core | 1.8 | 8 | Pop9 Final | BD1G2MACXX | 50 SE | 553/690.6 | 516.5/600.1 | 93.6 | ? | Isabelle | Poplar | Genomic | |
2/8/13 | DNA Core | 1.8 | 7 | Pop7 Final A | BD1G2MACXX | 50 SE | 753/690.6 | 578.6/600.1 | 78.8 | ? | Isabelle | RESCAN | Poplar | Real Pop7 |
2/8/13 | DNA Core | 1.8 | 4 | Spiked in PhiX (K4-4, K4-9,K4-12,K4-1) | BD1G2MACXX | 50 SE | 706/690.6 | 548.0/600.1 | 77.7 | ? | Isabelle | CHIP | Rice | |
2/06/13 | DNA Core | 1.8 | 1 | Pop7B Final | AD1AM7ACXX | 50 SE | 576/779.8 | 536.5/683.6 | 93.3 | 148,337,266 | Whan | thaliana | genomic | Lane was mis-named |
Han | thaliana | genomic | ||||||||||||
1/19/13 | DNA Core | 1.8 | 8 | MFP-P3 (Takashi) | BD1JBLACXX | 100 PE | 698/710.4 | 642.2/651.2 | 92.3 | ? | Takashi | Persimmon | Genomic | |
1/19/13 | DNA Core | 1.8 | 4 | PhiX + K27 rice ChIP spike in | BD1JBLACXX | 100 PE | 774/710.4 | 672.5/651.2 | 87.1 | ? | Isabelle | Rice | Chip | |
1/12/13 | DNA Core | 1.8 | 6 | Pop6 | AD123LACXX | 50 SE | 668/577.6 | 567.3/516.4 | 85.3 | ? | Isabelle | Poplar | RESCAN | |
12/29/12 | DNA Core | 1.8 | 8 | Pop5b | BC0KHWACXX | 50 SE | 670/755.9 | 615.7/678 | 92.1 | ? | Isabelle | Poplar | RESCAN | Correct adapters |
11/28/12 | DNA Core | 1.8 | 6 | Pop5 | AC0JV3ACXX | 50 SE | 671/733.5 | 613.3/645.7 | 91.5 | ? | Isabelle | Poplar | RESCAN | used wrong adapters for poplar |
Takashi | SynxNat TRD | Amplicon | ||||||||||||
11/28/12 | DNA Core | 1.8 | 5 | Pop4 Rescan | AC0JV3ACXX | 50 SE | 663/733.5 | 613.6/645.7 | 92.8 | ? | Isabelle | Poplar | Rescan | Dual Index Test |
11/28/12 | DNA Core | 1.8 | 4 | PhiX plus Spike-In: K4-8 & K4-14 | AC0JV3ACXX | 100 PE | 690/733.5 | 613.9/645.7 | 89.2 | ? | Isabelle | Rice | Chip | |
11/28/12 | DNA Core | 1.8 | 1 | IN-Pool | AC0JV3ACXX | 50 SE | 627/733.5 | 524/645.7 | 83.7 | ? | Isabelle | Chip | Rice | |
11/14/12 | DNA Core | 1.8 | 3 | Tom Tai UN | AC1730ACXX | 100 PE | 771/730.3 | 700.6/648.5 | 91.2 | ? | Nagu | Tai Capture | rice genomic | |
11/10/12 | DNA Core | 1.8 | 7 | ChIP K4/K27 Pool#2 | AC0JRMACXX | 50SE | 618/ | 430.2/ | 69.3 | ? | Isabelle | Chip | Rice | Redo of IMH7 |
11/10/12 | DNA Core | 1.8 | 6 | HOLLA | AC0JRMACXX | 50SE | 598/ | 512.3/ | 87 | 144,121,527 | Nagu | Rescan | HOLLA | |
09/27/12 | DNA Core | 1.8 | 1 | Fluidigm Pool 1-48 | M00384_0072_MS2001121-300V2 | 150 PE | 275 | 259 | 94.37 | ? | Helen | Fluidigm | Rice | |
09/25/12 | DNA Core | 1.8 | 8 | Pop3 | BC0T5UACXX | 50SE | 711/690 | 512.1/540 | 73.6 | ? | Isabelle | Rescan | Poplar | |
09/25/12 | DNA Core | 1.8 | 3 | IMH7 | BC0T5UACXX | 50SE | 696/690 | 533.3/540 | 76.6 | ? | Isabelle | Chip | Rice | |
09/25/12 | DNA Core | 1.8 | 2 | LC Mix 6b | BC0T5UACXX | 50SE | 768/690 | 553.8/540 | 73.1 | ? | Brad | RNA-Seq | Arabidopsis | |
Whan | RNA-seq | Arabidopsis | ||||||||||||
09/25/12 | DNA Core | 1.8 | 1 | LC Mix 6a | BC0T5UACXX | 50SE | 711/690 | 556.9/540 | 73.2 | ? | Brad | RNA-Seq | Arabidopsis | |
Whan | RNA-seq | Arabidopsis | ||||||||||||
07/25/12 | Berkeley | 1.8 | 8 | 2012July_LCMIX5 | D1242ACXX | 100PE | 3501190/? | 3311743/? | 94.81 | 504,171,465 | Nagu | Capture 5 + Controls | Rice genomic | |
Diana | Thaliana Hybrids | Amplicons Mix | ||||||||||||
Mital | ? | Amplicons | Custom Barcodes | |||||||||||
Kumitaa | ? | Amplicons | Custom Barcodes | |||||||||||
07/20/12 | BGI Sac | 1.7 | 2 | MP1-10 | FCD0M49ACXX | 100 PE | 2134675/? | 2020224/? | 94.8 | 193,941,510 | Takashi | Genomic Library | Persimmon Genomic | |
07/03/12 | Berkeley | 1.8 | 8 | LCHT001 | c0v3dacxx | 100PE | 3042110/4179792 | 2870195/3796810 | 94.62 | 292,042,634 | Helen | TILLING 20 | PCR Fragments | Old Style Barcodes |
07/02/12 | BGI Sac | 1.7 | 3 | FP1 | FCC0EGWACXX | 100 PE | 2113165/? | 2036738/? | 96.5 | 195,530,000 | Takashi | Genomic Library | Persimmon Genomic | |
07/01/12 | Berkeley | 1.8 | 2 | LCHT002_2 | c0vfvacxx | 50SE | 3751856/3441770 | 3083019/2972194 | 83.27 | 180,089,108 | Nagu | Holla Rescan | Holla genomic | SphI |
07/01/12 | Berkeley | 1.8 | 1 | LCHT002_1 | c0vfvacxx | 50SE | 3805267/3441770 | 3088644/2972194 | 82.30 | 182,652,824 | Nagu | Holla Rescan | Holla genomic | SphI |
06/25/12 | DNA Core | 1.8 | 1 | HEL1 | 120625_M00384_0049_AMS0005375 | 150 PE | ? | ? | ? | 14,749,246 | Helen | HOLLA test | mixed pcr product | bioo adaptor |
Takashi | synxnat | mixed pcr product | Staggered adaptors | |||||||||||
Whan | RNAseq | arabidopsis RNA | bioo adaptor | |||||||||||
05/30/12 | BGI HK | 1.7 | 3 | Ndiana | FCC0U06ACXX | 100 PE | ? | ? | ? | 283,660,000 | Nagu | Capture 4? | rice genomic | |
Diana | DBDP30-DBDP33 | arabidopsis RNA | ||||||||||||
05/09/12 | BGI HK | 1.7 | 8 | IMH5 | CSZSE012044196 | 50 SE | ? | ? | ? | 129,100,000 | Nagu | RESCAN | HOLLA | |
Ravi | Aneuploids | thaliana genomic | ||||||||||||
Isabelle | Chip | rice K27 Pol2 input | ||||||||||||
Whan | RNA-seq | thaliana RNA | ||||||||||||
05/09/12 | BGI HK | 1.7 | 4 | Gib | CSZSE012044195 | 50 SE | ? | ? | ? | 118,540,000 | Gib | RNA seq | arabidopsis RNA | |
05/04/12 | BGI HK | 1.7 | 2 | Ivalu | FCD0VHAACXX | 100 PE | ? | ? | ? | 239,260,000 | Ivalu | TILLING RESCAN | brassica genomic | |
03/06/12 | DNA Core | 1.8 | 5 | Sample_T18_2 | BD0MCCACXX | 100 PE | 360/582 | 345.9/489.8 | 96.4 | 191,251,416 | Helen | T18 | mix PCR | |
02/28/12 | DNA Core | 1.8 | 1 | Sample_T19_Pool | BD0HEGACXX | 50 SE | 524/593.5 | 458.7/509.9 | 88 | 126,805,522 | Nagu | RESCAN | Tomato H1706 | |
Helen | T19 | H1706 and Clamy PCR | ||||||||||||
02/22/12 | DNA Core | 1.8 | 7 | Sample_T18_1 | AC0E96ACXX | 100 PE | 665/495.9 | 604.3/460.7 | 91.2 | 334,107,520 | Helen | T18 | mix PCR | |
02/22/12 | DNA Core | 1.8 | 3 | Sample_IMH4 | AC0E96ACXX | 100 PE | 481/495.9 | 429.1/460.7 | 89.6 | ? | Isabelle | RESCAN | cassava genomic | |
Ivalu | TILLING RESCAN | brassica genomic | ||||||||||||
Nagu | Capture 3 | Rice capture | ||||||||||||
01/09/12 | DNA Core | 1.8 | 6 | Capture1 | AC0EBFACXX | 100 PE | 592/494 | 532.4/453.7 | 90.3 | 294,385,832 | Nagu | Capture 1 | rice genomic | |
12/15/11 | BGI Sac | 1.7 | 6 | Rice Redo | HWI-ST1135_0053 | 100 PE | ? | ? | ? | 156,490,030 | Isabelle | Heterosis | Rice mRNA seq | |
12/15/11 | BGI Sac | 1.7 | 5 | Rice Redo | HWI-ST1135_0053 | 100 PE | ? | ? | ? | 128,262,776 | Isabelle | Heterosis | Rice mRNA seq | |
12/10/11 | DNA Core | 1.8 | 3 | Capture 2 | AC0CVFACXX | 100 PE | 524/400.8 | 485.9/357.6 | 93.1 | ? | Nagu | Capture 2 | rice genomic | |
12/09/11 | DNA Core | 1.8 | 1 | Monster (IMH3) | BD0BU8ACXX | 100 PE | 582/521.6 | 493.2/468.6 | 85.2 | 272,689,574 | Helen | T18 test | mix genomic | |
Han | Aneuploidy | thaliana genomic | ||||||||||||
Isabelle | RESCAN | cassava | ||||||||||||
Ivalu | TILLING RESCAN | brassica genomic | ||||||||||||
Nagu | Key, Track, Capture R4-R8 | rice genomic |