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=Sequencing Runs=
 
*Note: Pipeline:1.8+ sanger quality <br/><br/>
 
  
 +
__FORCETOC__
 +
 +
==Sequencing Runs==
 +
*Note: Pipeline:1.8+ sanger quality <br/>
 +
*[https://docs.google.com/spreadsheet/ccc?key=0AvwQRyqrUlk2dHVBbjR2TlJCdGllSkY3VFhBcmZFV1E Sequence Bill]
 +
<br /><br />
 +
 +
==Illumina==
 
{|style="text-align:center;" cellpadding="5" border="1"
 
{|style="text-align:center;" cellpadding="5" border="1"
 
|-
 
|-
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|
 
|
 
|
 
|
|/
+
|?
|/
+
|?
 +
|?
 +
|?
 
|
 
|
 
|
 
|
 
|
 
|
 
|
 
|
 +
|-
 +
-->
 +
|3/10/2015
 +
|Berkeley
 +
|1.8
 +
|2
 +
|EXP016
 +
|H2JJ5BCXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Han
 +
|Genomic
 +
|Arabidopsis
 
|
 
|
 +
|-
 +
|3/10/2015
 +
|Berkeley
 +
|1.8
 +
|1
 +
|EXP015
 +
|H2JJ5BCXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Han
 +
|Genomic
 +
|Arabidopsis
 
|
 
|
 
|-
 
|-
-->
+
|2/26/15
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCHT1213
 +
|C6AU3ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Teerapong
 +
|Capture
 +
|Rice Genomic
 +
|
 +
|-
 +
|1/30/15
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCHT52
 +
|H27FTBCXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Helen
 +
|TILLING
 +
|Amplicons
 +
|T26
 +
|-
 +
|1/23/15
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCHT51
 +
|H27FTBCXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Helen
 +
|TILLING
 +
|Amplicons
 +
|T26
 +
|-
 +
|1/28/15
 +
|Berkeley
 +
|1.8
 +
|7
 +
|LCCW060
 +
|C5TTWACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Genomic
 +
|Poplar
 +
|
 +
|-
 +
|1/23/15
 +
|Berkeley
 +
|1.8
 +
|5
 +
|LCCW061
 +
|C5VMVACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Genomic
 +
|Poplar
 +
|
 +
|-
 +
|12/23/14
 +
|Berkeley
 +
|1.8
 +
|6
 +
|LCHT017_2
 +
|C618KACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Helen
 +
|Capture
 +
|Pep Genomic
 +
|
 +
|-
 +
|12/23/14
 +
|Berkeley
 +
|1.8
 +
|5
 +
|LCHT017_1
 +
|C618KACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Helen
 +
|Capture
 +
|Pep Genomic
 +
|
 +
|-
 +
|12/12/14
 +
|Berkeley
 +
|1.8
 +
|4
 +
|LCCW006
 +
|C5YRKACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|12/12/14
 +
|Berkeley
 +
|1.8
 +
|3
 +
|LCCW005
 +
|C5YRKACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|12/12/14
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCCW004
 +
|C5YRKACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|12/12/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCCW003
 +
|C5YRKACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|11/26/14
 +
|Berkeley
 +
|1.8
 +
|8
 +
|LCCW002
 +
|C5NGRACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|11/26/14
 +
|Berkeley
 +
|1.8
 +
|7
 +
|LCCW001
 +
|C5NGRACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|11/12/14
 +
|Berkeley
 +
|1.8
 +
|5
 +
|LCNS001_re
 +
|C59AVACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Terrapong
 +
|Genomic
 +
|Rice
 +
|
 +
|-
 +
|11/04/14
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCJG002
 +
|C5CVCACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|RESCAN
 +
|SynxNat Genomic
 +
|
 +
|-
 +
|11/04/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCJG001
 +
|C5CVCACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|RESCAN
 +
|SynxNat Genomic
 +
|
 +
|-
 +
|10/27/14
 +
|Berkeley
 +
|1.8
 +
|6
 +
|LCCW010
 +
|C5ETNACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Pop23
 +
|Poplar Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|5
 +
|LCCW009
 +
|C5ETNACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Pop22
 +
|Poplar Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|4
 +
|LCCW008
 +
|C5ETNACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Pop21
 +
|Poplar Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|3
 +
|LCCW007
 +
|C5ETNACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Pop20
 +
|Poplar Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCJG004
 +
|C5ETNACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|RESCAN
 +
|SynxNat Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCJG003
 +
|C5ETNACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|RESCAN
 +
|SynxNat Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|7
 +
|LCHT003
 +
|C5A6YACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|6
 +
|LCHT002
 +
|C5A6YACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Flax Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|5
 +
|LCHT001
 +
|C5A6YACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|HT11 (Thailand)
 +
|Capture
 +
|Rice Genomic
 +
|
 +
|-
 +
|10/17/14
 +
|Berkeley
 +
|1.8
 +
|4
 +
|LCSI001
 +
|C5CK1ACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Soichi
 +
|RNA-Seq
 +
|Arabidopsis thaliana
 +
|
 +
|-
 +
|10/16/14
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCHT042
 +
|HARU1ADXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Helen
 +
|TILLING
 +
|Amplicons
 +
|Holla (TILL4)
 +
|-
 +
|10/16/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCHT041
 +
|HARU1ADXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Helen
 +
|TILLING
 +
|Amplicons
 +
|Holla (TILL4)
 +
|-
 +
|8/1/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCHT032
 +
|C4WHAACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art & Yui
 +
|Arabidopsis
 +
|RNA-Seq
 +
|
 +
|-
 +
|rowspan="3"|6/9/14
 +
|rowspan="3"|DNA Core
 +
|rowspan="3"|1.8
 +
|rowspan="3"|1
 +
|rowspan="3"|IMH15
 +
|rowspan="3"|M01533 (Miseq)
 +
|rowspan="3"|150 PE
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|Isabelle
 +
|Incode testing
 +
|RESCAN
 +
|
 +
|-
 +
|Alfred
 +
|Lettuce
 +
|cDNA contigs
 +
|
 +
|-
 +
|Takashi
 +
|Persimmon
 +
|Methylation contigs
 +
|
 +
|-
 +
|7/24/14
 +
|Berkeley
 +
|1.8
 +
|8
 +
|LCHT034
 +
|C4WHHACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art & Yui
 +
|Arabidopsis
 +
|RNA-Seq
 +
|
 +
|-
 +
|7/24/14
 +
|Berkeley
 +
|1.8
 +
|7
 +
|LCHT033
 +
|C4WHHACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art & Yui
 +
|Arabidopsis
 +
|RNA-Seq
 +
|
 +
|-
 +
|7/24/14
 +
|Berkeley
 +
|1.8
 +
|6
 +
|LCHT031
 +
|C4WHHACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art & Yui
 +
|Rice
 +
|RNA-Seq
 +
|
 +
|-
 +
|7/24/14
 +
|Berkeley
 +
|1.8
 +
|5
 +
|LCHT030
 +
|C4WHHACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art & Yui
 +
|Rice
 +
|RNA-Seq
 +
|
 +
|-
 +
|6/4/14
 +
|Berkeley
 +
|1.8
 +
|4
 +
|LCHT027_2
 +
|C3W25ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture 2
 +
|Flax Genomic
 +
|Sequenced 2x
 +
|-
 +
|6/4/14
 +
|Berkeley
 +
|1.8
 +
|3
 +
|LCHT027_1
 +
|C3W25ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture 2
 +
|Flax Genomic
 +
|
 +
|-
 +
|6/4/14
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCHT026
 +
|C3W25ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art
 +
|Capture 7
 +
|Rice Genomic
 +
|
 +
|-
 +
|6/4/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCHT025_2
 +
|C3W25ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art
 +
|Capture 4/5
 +
|Rice Genomic
 +
|Sequenced 2x
 +
|-
 +
|5/30/14
 +
|Berkeley
 +
|1.8
 +
|2
 +
|LCHT023
 +
|C4D4LACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|IFG-MZ-4_Pop19
 +
|Poplar Genomic
 +
|
 +
|-
 +
|5/30/14
 +
|Berkeley
 +
|1.8
 +
|7
 +
|LCHT021
 +
|C4BC7ACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|IFG-MZ-3_Pop18
 +
|Poplar Genomic
 +
|
 +
|-
 +
|5/30/14
 +
|Berkeley
 +
|1.8
 +
|6
 +
|LCHT022
 +
|C4BC7ACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|IFG-MZ-2_Pop17
 +
|Poplar Genomic
 +
|
 +
|-
 +
|5/23/14
 +
|Berkeley
 +
|1.8
 +
|7
 +
|LCHT025_1
 +
|C3WBPACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art
 +
|Capture 4/5
 +
|Rice Genomic
 +
|
 +
|-
 +
|5/23/14
 +
|Berkeley
 +
|1.8
 +
|6
 +
|LCHT024_1
 +
|C3WBPACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art
 +
|Capture 3/6
 +
|Rice Genomic
 +
|sequenced 2x
 +
|-
 +
|5/23/14
 +
|Berkeley
 +
|1.8
 +
|5
 +
|LCHT024_1
 +
|C3WBPACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art
 +
|Capture 3/6
 +
|Rice Genomic
 +
|
 +
|-
 +
|5/17/14
 +
|DNA Core
 +
|1.8
 +
|8
 +
|Pop16
 +
|BC3016ACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|IFG-MZ-1_Pop16
 +
|Poplar Genomic
 +
|
 +
|-
 +
|5/7/14
 +
|DNA Core
 +
|1.8
 +
|2
 +
|IMH14
 +
|AH7UCAADXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Takashi
 +
|small RNA
 +
|MP & FP developing buds
 +
|Rapid Mode
 +
|-
 +
|5/7/14
 +
|DNA Core
 +
|1.8
 +
|1
 +
|IFG03
 +
|AH7UCAADXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Genomic
 +
|Poplar Genomic
 +
|Rapid Mode
 +
|-
 +
|5/1/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCHT010
 +
|H9B2GADXX
 +
|100 PE
 +
|?
 +
|?
 +
|97.26
 +
|146,462,470
 +
|Helen
 +
|T23-Lane2
 +
|mix PCR
 +
|Rapid Mode
 +
|-
 +
|5/1/14
 +
|Berkeley
 +
|1.8
 +
|1
 +
|LCHT009
 +
|H9B2GADXX
 +
|100 PE
 +
|?
 +
|?
 +
|97.01
 +
|149,876,715
 +
|Helen
 +
|T23-Lane1
 +
|mix PCR
 +
|Rapid Mode
 +
|-
 +
|4/30/14
 +
|DNA Core
 +
|1.8
 +
|8
 +
|IFG01
 +
|BC306TACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Genomic
 +
|poplar genomic
 +
|
 +
|-
 +
|rowspan="4"|4/5/14
 +
|rowspan="4"|DNA Core
 +
|rowspan="4"|1.8
 +
|rowspan="4"|1
 +
|rowspan="4"|IMH13
 +
|rowspan="4"|AC3YNGACXX
 +
|rowspan="4"|100 PE
 +
|rowspan="4"|?
 +
|rowspan="4"|?
 +
|rowspan="4"|?
 +
|rowspan="4"|?
 +
|Isabelle
 +
|Genomic
 +
|Poplar
 +
|rowspan="4"|Re-Sequence of previous lane
 +
|-
 +
|Takashi
 +
|Capture
 +
|Arabidopsis
 +
|-
 +
|Soichi
 +
|Capture
 +
|Arabidopsis
 +
|-
 +
|Michelle
 +
|Mixed Amplicons
 +
|Arabidopsis
 +
|-
 +
|rowspan="4"|3/5/14
 +
|rowspan="4"|DNA Core
 +
|rowspan="4"|1.8
 +
|rowspan="4"|2
 +
|rowspan="4"|IMH13
 +
|rowspan="4"|AC2YJ3ACXX
 +
|rowspan="4"|100 PE
 +
|rowspan="4"|?
 +
|rowspan="4"|?
 +
|rowspan="4"|?
 +
|rowspan="4"|?
 +
|Isabelle
 +
|Genomic
 +
|Poplar
 +
|Same samples in IMH12
 +
|-
 +
|Takashi
 +
|Capture
 +
|Arabidopsis
 +
|T-DNA
 +
|-
 +
|Soichi
 +
|Capture
 +
|Arabidopsis
 +
|T-DNA
 +
|-
 +
|Michelle
 +
|Mixed Amplicons
 +
|Arabidopsis
 +
|Britt Lab
 +
|-
 +
|2/22/14
 +
|DNA Core
 +
|1.8
 +
|3
 +
|BK1
 +
|AC1DLYACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Brad
 +
|RNA-seq
 +
|Arabidopsis
 +
|
 +
|-
 +
|1/?/14
 +
|BGI Sac
 +
|1.7
 +
|6
 +
|Pop14
 +
|FCC308AACXX
 +
|50SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Genomic
 +
|Poplar
 +
|
 +
|-
 +
|1/?/14
 +
|BGI Sac
 +
|1.7
 +
|5
 +
|Art2_3
 +
|FCC3L9AACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art
 +
|Capture
 +
|Rice
 +
|
 +
|-
 +
|1/?/14
 +
|BGI Sac
 +
|1.7
 +
|4
 +
|Art2_3
 +
|FCC3L9AACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Art
 +
|Capture
 +
|Rice
 +
|
 +
|-
 +
|1/?/14
 +
|BGI Sac
 +
|1.7
 +
|7
 +
|Z201
 +
|FCC2UFRACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Matt
 +
|RNA-seq
 +
|Poplar
 +
|
 +
|-
 +
|1/?/14
 +
|BGI Sac
 +
|1.7
 +
|3
 +
|Z203
 +
|FCC2UJ5ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Matt
 +
|RNA-seq
 +
|Poplar
 +
|
 +
|-
 +
|1/?/14
 +
|BGI Sac
 +
|1.7
 +
|2
 +
|Z202
 +
|FCC2UJ5ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Matt
 +
|RNA-seq
 +
|Poplar
 +
|
 +
|-
 +
|1/17/14
 +
|DNA Core
 +
|1.8
 +
|7
 +
|Pop15
 +
|BC2UFWACXX
 +
|50 SR
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Genomic
 +
|Poplar
 +
|
 +
|-
 +
|rowspan="3"|12/18/13
 +
|rowspan="3"|DNA Core
 +
|rowspan="3"|1.8
 +
|rowspan="3"|2
 +
|rowspan="3"|LuzFlui-3x
 +
|rowspan="3"|AH7R7CADXX
 +
|rowspan="3"|150 PE
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|Henny
 +
|Genomic
 +
|Mouse
 +
|rowspan="3"|Lane aka imh11 and contains re-sequencing of Fluidigm Pilot
 +
|-
 +
|Shamoni
 +
|RNA-seq
 +
|Luzula
 +
|-
 +
|Helen
 +
|Fluidigm
 +
|Rice
 +
|-
 +
|12/4/13
 +
|DNA Core
 +
|1.8
 +
|1
 +
|Pop 11 Rescan
 +
|AH7T73ADXX
 +
|50 SE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|RESCAN
 +
|Poplar
 +
|
 +
|-
 +
|rowspan="2"|11/?/13
 +
|rowspan="2"|BGI
 +
|rowspan="2"|1.7
 +
|8
 +
|Cassava-Sorghum Capture
 +
|FCC2UG4ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Cassava + Sorghum
 +
|
 +
|-
 +
|7
 +
|Cassava-Sorghum Capture
 +
|FCC2UG4ACXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle
 +
|Capture
 +
|Cassava + Sorghum
 +
|
 +
|-
 +
|10/21/13
 +
|Berkeley
 +
|1.8
 +
|6
 +
|Pop 13
 +
|C2APKACXX
 +
|50 SE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Isabelle/Han
 +
|Popar
 +
|Poplar genomic
 +
|
 +
|-
 +
|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
 +
|100 PE|
 +
|?
 +
|?
 +
|?
 +
|?
 +
|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
 +
|-
 +
|rowspan="3"|6/5/13
 +
|rowspan="3"|Berkeley
 +
|rowspan="3"|1.8
 +
|1
 +
|Sample_Flax1
 +
|H0R3KADXX
 +
|100 PE
 +
|?
 +
|?
 +
|?
 +
|?
 +
|Nagu
 +
|Flax
 +
|Capture
 +
|Rapid Mode
 +
|-
 +
|rowspan="2"|2
 +
|rowspan="2"|Sample_FLAX2
 +
|rowspan="2"|H0R3KADXX
 +
|rowspan="2"|100 PE
 +
|rowspan="2"|?
 +
|rowspan="2"|?
 +
|rowspan="2"|?
 +
|rowspan="2"|?
 +
|Nagu
 +
|Flax
 +
|Capture
 +
|Rapid Mode
 +
|-
 +
|Takashi
 +
|Mixed
 +
|Amplicons
 +
|Rapid Mode (spike)
 +
|-
 +
|rowspan="2"|6/1/13
 +
|rowspan="2"|DNA Core
 +
|rowspan="2"|1.8
 +
|rowspan="2"|3
 +
|rowspan="2"|SynxNat Plate II Pop10
 +
|rowspan="2"|BD1KRWACXX
 +
|rowspan="2"|50 SE
 +
|rowspan="2"|?
 +
|rowspan="2"|?
 +
|rowspan="2"|?
 +
|rowspan="2"|?
 +
|rowspan="2"|Isabelle
 +
|SynxNat
 +
|rowspan="2"|RESCAN
 +
|rowspan="2"|
 +
|-
 +
|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
 +
|
 +
|-
 +
|rowspan="2"|2/06/13
 +
|rowspan="2"|DNA Core
 +
|rowspan="2"|1.8
 +
|rowspan="2"|1
 +
|rowspan="2"|Pop7B Final
 +
|rowspan="2"|AD1AM7ACXX
 +
|rowspan="2"|50 SE
 +
|rowspan="2"|576/779.8
 +
|rowspan="2"|536.5/683.6
 +
|rowspan="2"|93.3
 +
|rowspan="2"|148,337,266
 +
|Whan
 +
|thaliana
 +
|genomic
 +
|rowspan="2"|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
 +
|-
 +
|rowspan="2"|11/28/12
 +
|rowspan="2"|DNA Core
 +
|rowspan="2"|1.8
 +
|rowspan="2"|6
 +
|rowspan="2"|Pop5
 +
|rowspan="2"|AC0JV3ACXX
 +
|rowspan="2"|50 SE
 +
|rowspan="2"|671/733.5
 +
|rowspan="2"|613.3/645.7
 +
|rowspan="2"|91.5
 +
|rowspan="2"|?
 +
|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
 +
|
 +
|-
 +
|rowspan="2"|09/25/12
 +
|rowspan="2"|DNA Core
 +
|rowspan="2"|1.8
 +
|rowspan="2"|2
 +
|rowspan="2"|LC Mix 6b <!--same as LC Mix 6a just sequenced in 2 lanes-->
 +
|rowspan="2"|BC0T5UACXX
 +
|rowspan="2"|50SE
 +
|rowspan="2"|768/690
 +
|rowspan="2"|553.8/540
 +
|rowspan="2"|73.1
 +
|rowspan="2"|?
 +
|Brad
 +
|RNA-Seq
 +
|Arabidopsis
 +
|
 +
|-
 +
|Whan
 +
|RNA-seq
 +
|Arabidopsis
 +
|
 +
|-
 +
|rowspan="2"|09/25/12
 +
|rowspan="2"|DNA Core
 +
|rowspan="2"|1.8
 +
|rowspan="2"|1
 +
|rowspan="2"|LC Mix 6a <!--same as LC Mix 6b just sequenced in 2 lanes-->
 +
|rowspan="2"|BC0T5UACXX
 +
|rowspan="2"|50SE
 +
|rowspan="2"|711/690
 +
|rowspan="2"|556.9/540
 +
|rowspan="2"|73.2
 +
|rowspan="2"|?
 +
|Brad
 +
|RNA-Seq
 +
|Arabidopsis
 +
|
 +
|-
 +
|Whan
 +
|RNA-seq
 +
|Arabidopsis
 +
|
 +
|-
 +
|rowspan="4"|07/25/12
 +
|rowspan="4"|Berkeley
 +
|rowspan="4"|1.8
 +
|rowspan="4"|8
 +
|rowspan="4"|2012July_LCMIX5
 +
|rowspan="4"|D1242ACXX
 +
|rowspan="4"|100PE
 +
|rowspan="4"|3501190/?
 +
|rowspan="4"|3311743/?
 +
|rowspan="4"|94.81
 +
|rowspan="4"|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
 +
|-
 +
|rowspan="3"|06/25/12
 +
|rowspan="3"|DNA Core
 +
|rowspan="3"|1.8
 +
|rowspan="3"|1
 +
|rowspan="3"|HEL1
 +
|rowspan="3"|120625_M00384_0049_AMS0005375
 +
|rowspan="3"|150 PE
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|rowspan="3"|?
 +
|rowspan="3"|14,749,246
 +
|Helen
 +
|HOLLA test
 +
|mixed pcr product
 +
|bioo adaptor
 +
|-
 +
|Takashi
 +
|synxnat
 +
|mixed pcr product
 +
|Staggered adaptors
 +
|-
 +
|Whan
 +
|RNAseq
 +
|arabidopsis RNA
 +
|bioo adaptor
 +
|-
 
|rowspan="2"|05/30/12
 
|rowspan="2"|05/30/12
 
|rowspan="2"|BGI HK
 
|rowspan="2"|BGI HK
Line 50: Line 1,890:
 
|rowspan="2"|283,660,000
 
|rowspan="2"|283,660,000
 
|Nagu
 
|Nagu
|Capture 5
+
|Capture 4?
 
|rice genomic
 
|rice genomic
 
|
 
|
 
|-
 
|-
 
|Diana
 
|Diana
|DBDP30-DBDP33
+
|DB13-DB16
 
|arabidopsis RNA
 
|arabidopsis RNA
 
|
 
|
Line 103: Line 1,943:
 
|Gib
 
|Gib
 
|RNA seq
 
|RNA seq
|rice RNA
+
|arabidopsis RNA
 
|
 
|
 
|-
 
|-
Line 175: Line 2,015:
 
|
 
|
 
|-
 
|-
|rowspan="2"|02/22/12
+
|rowspan="3"|02/22/12
|rowspan="2"|DNA Core
+
|rowspan="3"|DNA Core
|rowspan="2"|1.8
+
|rowspan="3"|1.8
|rowspan="2"|3
+
|rowspan="3"|3
|rowspan="2"|Sample_IMH4
+
|rowspan="3"|Sample_IMH4
|rowspan="2"|AC0E96ACXX
+
|rowspan="3"|AC0E96ACXX
|rowspan="2"|100 PE
+
|rowspan="3"|100 PE
|rowspan="2"|481/495.9
+
|rowspan="3"|481/495.9
|rowspan="2"|429.1/460.7
+
|rowspan="3"|429.1/460.7
|rowspan="2"|89.6
+
|rowspan="3"|89.6
|rowspan="2"|?
+
|rowspan="3"|?
 
|Isabelle
 
|Isabelle
 
|RESCAN
 
|RESCAN
Line 194: Line 2,034:
 
|TILLING RESCAN
 
|TILLING RESCAN
 
|brassica genomic
 
|brassica genomic
 +
|
 +
|-
 +
|Nagu
 +
|Capture 3
 +
|Rice capture
 
|
 
|
 
|-
 
|-
Line 264: Line 2,109:
 
|rowspan="5"|1.8
 
|rowspan="5"|1.8
 
|rowspan="5"|1
 
|rowspan="5"|1
|rowspan="5"|Monster
+
|rowspan="5"|Monster (IMH3)
 
|rowspan="5"|BD0BU8ACXX
 
|rowspan="5"|BD0BU8ACXX
 
|rowspan="5"|100 PE
 
|rowspan="5"|100 PE
Line 281: Line 2,126:
 
|
 
|
 
|-
 
|-
|Isablle
+
|Isabelle
|RNA-seq
+
|RESCAN
|cassava RNA
+
|cassava
 
|
 
|
 
|-
 
|-
Line 294: Line 2,139:
 
|Key, Track, Capture R4-R8  
 
|Key, Track, Capture R4-R8  
 
|rice genomic
 
|rice genomic
 +
|
 +
|-
 +
|}
 +
 +
<br/><br/>
 +
 +
==Pac Bio==
 +
{|style="text-align:center;" cellpadding="5" border="1"
 +
|-
 +
!Run Date
 +
!Sequence Facility
 +
!Lane#
 +
!width="100"|Lane Name
 +
!Layout
 +
!width="70|People
 +
!width="150"|Project
 +
!width="150"|Source
 +
!Comments
 +
|-
 +
<!-- Blank template for adding new rows
 +
|
 +
|
 +
|
 +
|
 +
|
 +
|
 +
|
 +
|
 +
|
 +
|-
 +
-->
 +
|05/06/14
 +
|DNA Core
 +
|4
 +
|BAC80, Mag, 150k, 180min, P4C2
 +
|180 bp
 +
|Isabelle
 +
|Persimmon
 +
|Persimmon Male Bac Library
 +
|
 +
|-
 +
|05/06/14
 +
|DNA Core
 +
|3
 +
|BAC26, Mag, 150k, 180min, P4C2
 +
|180 bp
 +
|Isabelle
 +
|Persimmon
 +
|Persimmon Male Bac Library
 
|
 
|
 
|-
 
|-
 
|}
 
|}

Latest revision as of 15:14, 7 May 2015


Contents

[edit] Sequencing Runs



[edit] Illumina

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
3/10/2015 Berkeley 1.8 2 EXP016 H2JJ5BCXX 50 SR ? ? ? ? Han Genomic Arabidopsis
3/10/2015 Berkeley 1.8 1 EXP015 H2JJ5BCXX 50 SR ? ? ? ? Han Genomic Arabidopsis
2/26/15 Berkeley 1.8 2 LCHT1213 C6AU3ACXX 100 PE ? ? ? ? Teerapong Capture Rice Genomic
1/30/15 Berkeley 1.8 2 LCHT52 H27FTBCXX 100 PE ? ? ? ? Helen TILLING Amplicons T26
1/23/15 Berkeley 1.8 1 LCHT51 H27FTBCXX 100 PE ? ? ? ? Helen TILLING Amplicons T26
1/28/15 Berkeley 1.8 7 LCCW060 C5TTWACXX 50 SR ? ? ? ? Isabelle Genomic Poplar
1/23/15 Berkeley 1.8 5 LCCW061 C5VMVACXX 100 PE ? ? ? ? Isabelle Genomic Poplar
12/23/14 Berkeley 1.8 6 LCHT017_2 C618KACXX 100 PE ? ? ? ? Helen Capture Pep Genomic
12/23/14 Berkeley 1.8 5 LCHT017_1 C618KACXX 100 PE ? ? ? ? Helen Capture Pep Genomic
12/12/14 Berkeley 1.8 4 LCCW006 C5YRKACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
12/12/14 Berkeley 1.8 3 LCCW005 C5YRKACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
12/12/14 Berkeley 1.8 2 LCCW004 C5YRKACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
12/12/14 Berkeley 1.8 1 LCCW003 C5YRKACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
11/26/14 Berkeley 1.8 8 LCCW002 C5NGRACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
11/26/14 Berkeley 1.8 7 LCCW001 C5NGRACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
11/12/14 Berkeley 1.8 5 LCNS001_re C59AVACXX 100 PE ? ? ? ? Terrapong Genomic Rice
11/04/14 Berkeley 1.8 2 LCJG002 C5CVCACXX 50 SR ? ? ? ? Isabelle RESCAN SynxNat Genomic
11/04/14 Berkeley 1.8 1 LCJG001 C5CVCACXX 50 SR ? ? ? ? Isabelle RESCAN SynxNat Genomic
10/27/14 Berkeley 1.8 6 LCCW010 C5ETNACXX 50 SR ? ? ? ? Isabelle Pop23 Poplar Genomic
10/17/14 Berkeley 1.8 5 LCCW009 C5ETNACXX 100 PE ? ? ? ? Isabelle Pop22 Poplar Genomic
10/17/14 Berkeley 1.8 4 LCCW008 C5ETNACXX 50 SR ? ? ? ? Isabelle Pop21 Poplar Genomic
10/17/14 Berkeley 1.8 3 LCCW007 C5ETNACXX 50 SR ? ? ? ? Isabelle Pop20 Poplar Genomic
10/17/14 Berkeley 1.8 2 LCJG004 C5ETNACXX 50 SR ? ? ? ? Isabelle RESCAN SynxNat Genomic
10/17/14 Berkeley 1.8 1 LCJG003 C5ETNACXX 50 SR ? ? ? ? Isabelle RESCAN SynxNat Genomic
10/17/14 Berkeley 1.8 7 LCHT003 C5A6YACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
10/17/14 Berkeley 1.8 6 LCHT002 C5A6YACXX 100 PE ? ? ? ? Isabelle Capture Flax Genomic
10/17/14 Berkeley 1.8 5 LCHT001 C5A6YACXX 100 PE ? ? ? ? HT11 (Thailand) Capture Rice Genomic
10/17/14 Berkeley 1.8 4 LCSI001 C5CK1ACXX 50 SR ? ? ? ? Soichi RNA-Seq Arabidopsis thaliana
10/16/14 Berkeley 1.8 2 LCHT042 HARU1ADXX 100 PE ? ? ? ? Helen TILLING Amplicons Holla (TILL4)
10/16/14 Berkeley 1.8 1 LCHT041 HARU1ADXX 100 PE ? ? ? ? Helen TILLING Amplicons Holla (TILL4)
8/1/14 Berkeley 1.8 1 LCHT032 C4WHAACXX 50 SR ? ? ? ? Art & Yui Arabidopsis RNA-Seq
6/9/14 DNA Core 1.8 1 IMH15 M01533 (Miseq) 150 PE ? ? ? ? Isabelle Incode testing RESCAN
Alfred Lettuce cDNA contigs
Takashi Persimmon Methylation contigs
7/24/14 Berkeley 1.8 8 LCHT034 C4WHHACXX 50 SR ? ? ? ? Art & Yui Arabidopsis RNA-Seq
7/24/14 Berkeley 1.8 7 LCHT033 C4WHHACXX 50 SR ? ? ? ? Art & Yui Arabidopsis RNA-Seq
7/24/14 Berkeley 1.8 6 LCHT031 C4WHHACXX 50 SR ? ? ? ? Art & Yui Rice RNA-Seq
7/24/14 Berkeley 1.8 5 LCHT030 C4WHHACXX 50 SR ? ? ? ? Art & Yui Rice RNA-Seq
6/4/14 Berkeley 1.8 4 LCHT027_2 C3W25ACXX 100 PE ? ? ? ? Isabelle Capture 2 Flax Genomic Sequenced 2x
6/4/14 Berkeley 1.8 3 LCHT027_1 C3W25ACXX 100 PE ? ? ? ? Isabelle Capture 2 Flax Genomic
6/4/14 Berkeley 1.8 2 LCHT026 C3W25ACXX 100 PE ? ? ? ? Art Capture 7 Rice Genomic
6/4/14 Berkeley 1.8 1 LCHT025_2 C3W25ACXX 100 PE ? ? ? ? Art Capture 4/5 Rice Genomic Sequenced 2x
5/30/14 Berkeley 1.8 2 LCHT023 C4D4LACXX 50 SR ? ? ? ? Isabelle IFG-MZ-4_Pop19 Poplar Genomic
5/30/14 Berkeley 1.8 7 LCHT021 C4BC7ACXX 50 SR ? ? ? ? Isabelle IFG-MZ-3_Pop18 Poplar Genomic
5/30/14 Berkeley 1.8 6 LCHT022 C4BC7ACXX 50 SR ? ? ? ? Isabelle IFG-MZ-2_Pop17 Poplar Genomic
5/23/14 Berkeley 1.8 7 LCHT025_1 C3WBPACXX 100 PE ? ? ? ? Art Capture 4/5 Rice Genomic
5/23/14 Berkeley 1.8 6 LCHT024_1 C3WBPACXX 100 PE ? ? ? ? Art Capture 3/6 Rice Genomic sequenced 2x
5/23/14 Berkeley 1.8 5 LCHT024_1 C3WBPACXX 100 PE ? ? ? ? Art Capture 3/6 Rice Genomic
5/17/14 DNA Core 1.8 8 Pop16 BC3016ACXX 50 SR ? ? ? ? Isabelle IFG-MZ-1_Pop16 Poplar Genomic
5/7/14 DNA Core 1.8 2 IMH14 AH7UCAADXX 50 SR ? ? ? ? Takashi small RNA MP & FP developing buds Rapid Mode
5/7/14 DNA Core 1.8 1 IFG03 AH7UCAADXX 50 SR ? ? ? ? Isabelle Genomic Poplar Genomic Rapid Mode
5/1/14 Berkeley 1.8 1 LCHT010 H9B2GADXX 100 PE ? ? 97.26 146,462,470 Helen T23-Lane2 mix PCR Rapid Mode
5/1/14 Berkeley 1.8 1 LCHT009 H9B2GADXX 100 PE ? ? 97.01 149,876,715 Helen T23-Lane1 mix PCR Rapid Mode
4/30/14 DNA Core 1.8 8 IFG01 BC306TACXX 50 SR ? ? ? ? Isabelle Genomic poplar genomic
4/5/14 DNA Core 1.8 1 IMH13 AC3YNGACXX 100 PE ? ? ? ? Isabelle Genomic Poplar Re-Sequence of previous lane
Takashi Capture Arabidopsis
Soichi Capture Arabidopsis
Michelle Mixed Amplicons Arabidopsis
3/5/14 DNA Core 1.8 2 IMH13 AC2YJ3ACXX 100 PE ? ? ? ? Isabelle Genomic Poplar Same samples in IMH12
Takashi Capture Arabidopsis T-DNA
Soichi Capture Arabidopsis T-DNA
Michelle Mixed Amplicons Arabidopsis Britt Lab
2/22/14 DNA Core 1.8 3 BK1 AC1DLYACXX 50 SR ? ? ? ? Brad RNA-seq Arabidopsis
1/?/14 BGI Sac 1.7 6 Pop14 FCC308AACXX 50SR ? ? ? ? Isabelle Genomic Poplar
1/?/14 BGI Sac 1.7 5 Art2_3 FCC3L9AACXX 100 PE ? ? ? ? Art Capture Rice
1/?/14 BGI Sac 1.7 4 Art2_3 FCC3L9AACXX 100 PE ? ? ? ? Art Capture Rice
1/?/14 BGI Sac 1.7 7 Z201 FCC2UFRACXX 100 PE ? ? ? ? Matt RNA-seq Poplar
1/?/14 BGI Sac 1.7 3 Z203 FCC2UJ5ACXX 100 PE ? ? ? ? Matt RNA-seq Poplar
1/?/14 BGI Sac 1.7 2 Z202 FCC2UJ5ACXX 100 PE ? ? ? ? Matt RNA-seq Poplar
1/17/14 DNA Core 1.8 7 Pop15 BC2UFWACXX 50 SR ? ? ? ? Isabelle Genomic Poplar
12/18/13 DNA Core 1.8 2 LuzFlui-3x AH7R7CADXX 150 PE ? ? ? ? Henny Genomic Mouse Lane aka imh11 and contains re-sequencing of Fluidigm Pilot
Shamoni RNA-seq Luzula
Helen Fluidigm Rice
12/4/13 DNA Core 1.8 1 Pop 11 Rescan AH7T73ADXX 50 SE ? ? ? ? Isabelle RESCAN Poplar
11/?/13 BGI 1.7 8 Cassava-Sorghum Capture FCC2UG4ACXX 100 PE ? ? ? ? Isabelle Capture Cassava + Sorghum
7 Cassava-Sorghum Capture FCC2UG4ACXX 100 PE ? ? ? ? Isabelle Capture Cassava + Sorghum
10/21/13 Berkeley 1.8 6 Pop 13 C2APKACXX 50 SE ? ? ? ? Isabelle/Han Popar Poplar genomic
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 DB13-DB16 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



[edit] Pac Bio

Run Date Sequence Facility Lane# Lane Name Layout People Project Source Comments
05/06/14 DNA Core 4 BAC80, Mag, 150k, 180min, P4C2 180 bp Isabelle Persimmon Persimmon Male Bac Library
05/06/14 DNA Core 3 BAC26, Mag, 150k, 180min, P4C2 180 bp Isabelle Persimmon Persimmon Male Bac Library
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