Andrew:Notebook/AR150817 C1: Difference between revisions

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[[File:Ar150817_seqStats.jpg]]
[[File:Ar150817_seqStats.jpg|600px]]


===CNV profiling===
===CNV profiling===

Revision as of 23:02, 14 September 2015

Prep

Protocol

File:AR150817 reagents-page-001.jpg

Same protocol as 8/9

Results

C1 capture

Chamber Number LiveDead Note Well
Ch03 1 live extravasating A01
Ch09 1 dead na B01
Ch15 multi dead na C01
Ch21 0 na na D01
Ch25 mutli both na E01
Ch31 0 na na F01
Ch37 1 dead na G01
Ch43 0 na na H01
Ch02 1 dead na A02
Ch08 1 dead extravasating B02
Ch14 1 both weak C02
Ch20 0 na na D02
Ch26 mutli both na E02
Ch32 muti both na F02
Ch38 0 na na G02
Ch44 1 live extravasating H02
Ch01 1 dead extravasating A03
Ch07 1 dead na B03
Ch13 1 both extravasating C03
Ch19 0 na na D03
Ch27 1 live extravasating E03
Ch33 1 dead debris F03
Ch39 multi both na G03
Ch45 1 dead na H03
Ch49 1 live weak A04
Ch55 0 na na B04
Ch61 1 dead na C04
Ch67 0 na na D04
Ch75 0 na na E04
Ch81 0 na na F04
Ch87 0 na na G04
Ch93 0 na na H04
Ch50 multi live na A05
Ch56 0 na na B05
Ch62 mutli dead debris C05
Ch68 1 live extravasating D05
Ch74 0 na na E05
Ch80 1 dead na F05
Ch86 0 na na G05
Ch92 multi live na H05
Ch51 0 na na A06
Ch57 1 dead extravasating B06
Ch63 1 live extravasating C06
Ch69 multi dead na D06
Ch73 1 both na E06
Ch79 0 na na F06
Ch85 1 dead na G06
Ch91 0 na na H06
Ch06 1 dead weak A07
Ch12 1 live extravasating B07
Ch18 0 dead weak_debris C07
Ch24 1 live extravasating D07
Ch28 0 na na E07
Ch34 0 na na F07
Ch40 1 live na G07
Ch46 1 live extravasating H07
Ch05 0 dead debris A08
Ch11 1 live extravasating B08
Ch17 0 na na C08
Ch23 0 na na D08
Ch29 1 live weak E08
Ch35 0 na na F08
Ch41 1 dead debris G08
Ch47 1 live weak H08
Ch04 multi dead na A09
Ch10 mutli both na B09
Ch16 multi live na C09
Ch22 mutli dead weak_debris D09
Ch30 1 live extravasating E09
Ch36 1 dead na F09
Ch42 1 live weak G09
Ch48 multi both na H09
Ch52 1 dead na A10
Ch58 0 na na B10
Ch64 0 na na C10
Ch70 0 na na D10
Ch78 1 dead na E10
Ch84 0 na na F10
Ch90 0 na na G10
Ch96 multi live na H10
Ch53 0 na na A11
Ch59 mutli dead weak B11
Ch65 1 live weak C11
Ch71 multi both na D11
Ch77 0 na na E11
Ch83 0 na na F11
Ch89 0 na na G11
Ch95 0 na na H11
Ch54 0 na na A12
Ch60 1 live extravasating B12
Ch66 0 na na C12
Ch72 1 live extravasating D12
Ch76 0 na na E12
Ch82 0 na na F12
Ch88 1 dead debris_weak G12
Ch94 1 both na H12

hLINE qPCR

File:AR150817 hLINE.jpg

Size selection

File:AR150817 sizeSelect.jpg

Sequencing

Chamber Well Number LiveDead Note Cq pg/uL N7xx S5xx i7 i5 SampleID
Ch24 D07 1 live extravasating 17.22395 261.0341321 N712 S517 GTAGAGGA GCGTAAGA AR-150817-Ch24-D07-N712-S517
Ch27 E03 1 live extravasating 17.19854949 265.4277765 N712 S502 GTAGAGGA CTCTCTAT AR-150817-Ch27-E03-N712-S502
Ch40 G07 1 live na 16.86216898 331.0901587 N712 S503 GTAGAGGA TATCCTCT AR-150817-Ch40-G07-N712-S503
Ch44 H02 1 live extravasating 16.43120196 439.4811917 N712 S504 GTAGAGGA AGAGTAGA AR-150817-Ch44-H02-N712-S504
Ch63 C06 1 live extravasating 16.31240839 475.1632934 N712 S505 GTAGAGGA GTAAGGAG AR-150817-Ch63-C06-N712-S505
Ch30 E09 1 live extravasating 16.26635684 489.7625484 N712 S506 GTAGAGGA ACTGCATA AR-150817-Ch30-E09-N712-S506
Ch78dea E10 1 dead na 18.34499955 124.9568512 N712 S507 GTAGAGGA AAGGAGTA AR-150817-Ch78dea-E10-N712-S507
Ch21ntc D01 0 na na 25.93584616 0.851926856 N712 S508 GTAGAGGA CTAAGCCT AR-150817-Ch21ntc-D01-N712-S508

File:Ar150817 seqStats.jpg

CNV profiling

File:AR-150817-Ch21ntc-D01-N712-S508.all.png File:AR-150817-Ch24-D07-N712-S517.all.png File:AR-150817-Ch27-E03-N712-S502.all.png File:AR-150817-Ch30-E09-N712-S506.all.png File:AR-150817-Ch40-G07-N712-S503.all.png File:AR-150817-Ch44-H02-N712-S504.all.png File:AR-150817-Ch63-C06-N712-S505.all.png File:AR-150817-Ch78dea-E10-N712-S507.all.png

MAPD profiling