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==31 nL MDA on C1 with GM12878== ===Overview=== ====Motivation==== [[File:AR150618_motivation.png|1500px]] ====Reagents==== [[File:AR150618_reagents.jpg|800px]] ====Protocol==== [[File:Protocol Worksheet AR150618_C1 v1-1.png|800px]] [[File:Protocol Worksheet AR150618_C1 v1-2.png|800px]] [[File:Protocol Worksheet AR150618_C1 v1-3.png|800px]] [[File:AR150618_thermalProfile.png|800px]] ===Results=== ====Cell capture==== {| {{table}} | align="center" style="background:#f0f0f0;"|'''Initials''' | align="center" style="background:#f0f0f0;"|'''Date (YYMMDD)''' | align="center" style="background:#f0f0f0;"|'''Chamber''' | align="center" style="background:#f0f0f0;"|'''Well''' | align="center" style="background:#f0f0f0;"|'''i7''' | align="center" style="background:#f0f0f0;"|'''i5''' | align="center" style="background:#f0f0f0;"|'''i7 sequence (RC)''' | align="center" style="background:#f0f0f0;"|'''i5 barcode''' | align="center" style="background:#f0f0f0;"|'''SampleID''' | align="center" style="background:#f0f0f0;"|'''Full barcode''' | align="center" style="background:#f0f0f0;"|'''Number''' | align="center" style="background:#f0f0f0;"|'''LiveOrDead''' | align="center" style="background:#f0f0f0;"|'''Notes''' |- | AR||150618||Ch03||A01||N701||S502||TAAGGCGA||CTCTCTAT||AR-150618-Ch03-A01-N701-S502||TAAGGCGA-CTCTCTAT||0||na||na |- | AR||150618||Ch02||A02||N702||S502||CGTACTAG||CTCTCTAT||AR-150618-Ch02-A02-N702-S502||CGTACTAG-CTCTCTAT||0||na||na |- | AR||150618||Ch01||A03||N703||S502||AGGCAGAA||CTCTCTAT||AR-150618-Ch01-A03-N703-S502||AGGCAGAA-CTCTCTAT||0||na||na |- | AR||150618||Ch49||A04||N704||S502||TCCTGAGC||CTCTCTAT||AR-150618-Ch49-A04-N704-S502||TCCTGAGC-CTCTCTAT||0||na||na |- | AR||150618||Ch50||A05||N705||S502||GGACTCCT||CTCTCTAT||AR-150618-Ch50-A05-N705-S502||GGACTCCT-CTCTCTAT||0||na||na |- | AR||150618||Ch51||A06||N706||S502||TAGGCATG||CTCTCTAT||AR-150618-Ch51-A06-N706-S502||TAGGCATG-CTCTCTAT||0||na||na |- | AR||150618||Ch06||A07||N707||S502||CTCTCTAC||CTCTCTAT||AR-150618-Ch06-A07-N707-S502||CTCTCTAC-CTCTCTAT||0||na||na |- | AR||150618||Ch05||A08||N710||S502||CGAGGCTG||CTCTCTAT||AR-150618-Ch05-A08-N710-S502||CGAGGCTG-CTCTCTAT||0||na||na |- | AR||150618||Ch04||A09||N711||S502||AAGAGGCA||CTCTCTAT||AR-150618-Ch04-A09-N711-S502||AAGAGGCA-CTCTCTAT||0||na||na |- | AR||150618||Ch52||A10||N712||S502||GTAGAGGA||CTCTCTAT||AR-150618-Ch52-A10-N712-S502||GTAGAGGA-CTCTCTAT||0||na||na |- | AR||150618||Ch53||A11||N714||S502||GCTCATGA||CTCTCTAT||AR-150618-Ch53-A11-N714-S502||GCTCATGA-CTCTCTAT||0||na||na |- | AR||150618||Ch54||A12||N715||S502||ATCTCAGG||CTCTCTAT||AR-150618-Ch54-A12-N715-S502||ATCTCAGG-CTCTCTAT||0||na||na |- | AR||150618||Ch09||B01||N701||S503||TAAGGCGA||TATCCTCT||AR-150618-Ch09-B01-N701-S503||TAAGGCGA-TATCCTCT||0||na||na |- | AR||150618||Ch08||B02||N702||S503||CGTACTAG||TATCCTCT||AR-150618-Ch08-B02-N702-S503||CGTACTAG-TATCCTCT||0||na||na |- | AR||150618||Ch07||B03||N703||S503||AGGCAGAA||TATCCTCT||AR-150618-Ch07-B03-N703-S503||AGGCAGAA-TATCCTCT||1||dead||na |- | AR||150618||Ch55||B04||N704||S503||TCCTGAGC||TATCCTCT||AR-150618-Ch55-B04-N704-S503||TCCTGAGC-TATCCTCT||0||na||na |- | AR||150618||Ch56||B05||N705||S503||GGACTCCT||TATCCTCT||AR-150618-Ch56-B05-N705-S503||GGACTCCT-TATCCTCT||0||na||na |- | AR||150618||Ch57||B06||N706||S503||TAGGCATG||TATCCTCT||AR-150618-Ch57-B06-N706-S503||TAGGCATG-TATCCTCT||0||na||na |- | AR||150618||Ch12||B07||N707||S503||CTCTCTAC||TATCCTCT||AR-150618-Ch12-B07-N707-S503||CTCTCTAC-TATCCTCT||1||dead||na |- | AR||150618||Ch11||B08||N710||S503||CGAGGCTG||TATCCTCT||AR-150618-Ch11-B08-N710-S503||CGAGGCTG-TATCCTCT||3||dead||na |- | AR||150618||Ch10||B09||N711||S503||AAGAGGCA||TATCCTCT||AR-150618-Ch10-B09-N711-S503||AAGAGGCA-TATCCTCT||1||dead||weak |- | AR||150618||Ch58||B10||N712||S503||GTAGAGGA||TATCCTCT||AR-150618-Ch58-B10-N712-S503||GTAGAGGA-TATCCTCT||0||na||na |- | AR||150618||Ch59||B11||N714||S503||GCTCATGA||TATCCTCT||AR-150618-Ch59-B11-N714-S503||GCTCATGA-TATCCTCT||0||na||na |- | AR||150618||Ch60||B12||N715||S503||ATCTCAGG||TATCCTCT||AR-150618-Ch60-B12-N715-S503||ATCTCAGG-TATCCTCT||0||na||na |- | AR||150618||Ch15||C01||N701||S505||TAAGGCGA||GTAAGGAG||AR-150618-Ch15-C01-N701-S505||TAAGGCGA-GTAAGGAG||2||dead||na |- | AR||150618||Ch14||C02||N702||S505||CGTACTAG||GTAAGGAG||AR-150618-Ch14-C02-N702-S505||CGTACTAG-GTAAGGAG||1||dead||lumpy |- | AR||150618||Ch13||C03||N703||S505||AGGCAGAA||GTAAGGAG||AR-150618-Ch13-C03-N703-S505||AGGCAGAA-GTAAGGAG||1||live||extravasating |- | AR||150618||Ch61||C04||N704||S505||TCCTGAGC||GTAAGGAG||AR-150618-Ch61-C04-N704-S505||TCCTGAGC-GTAAGGAG||1||dead||weak |- | AR||150618||Ch62||C05||N705||S505||GGACTCCT||GTAAGGAG||AR-150618-Ch62-C05-N705-S505||GGACTCCT-GTAAGGAG||0||na||na |- | AR||150618||Ch63||C06||N706||S505||TAGGCATG||GTAAGGAG||AR-150618-Ch63-C06-N706-S505||TAGGCATG-GTAAGGAG||0||na||na |- | AR||150618||Ch18||C07||N707||S505||CTCTCTAC||GTAAGGAG||AR-150618-Ch18-C07-N707-S505||CTCTCTAC-GTAAGGAG||1||both||extravasating |- | AR||150618||Ch17||C08||N710||S505||CGAGGCTG||GTAAGGAG||AR-150618-Ch17-C08-N710-S505||CGAGGCTG-GTAAGGAG||1||live||extravasating |- | AR||150618||Ch16||C09||N711||S505||AAGAGGCA||GTAAGGAG||AR-150618-Ch16-C09-N711-S505||AAGAGGCA-GTAAGGAG||1||both||na |- | AR||150618||Ch64||C10||N712||S505||GTAGAGGA||GTAAGGAG||AR-150618-Ch64-C10-N712-S505||GTAGAGGA-GTAAGGAG||0||na||na |- | AR||150618||Ch65||C11||N714||S505||GCTCATGA||GTAAGGAG||AR-150618-Ch65-C11-N714-S505||GCTCATGA-GTAAGGAG||0||na||na |- | AR||150618||Ch66||C12||N715||S505||ATCTCAGG||GTAAGGAG||AR-150618-Ch66-C12-N715-S505||ATCTCAGG-GTAAGGAG||0||na||na |- | AR||150618||Ch21||D01||N701||S506||TAAGGCGA||ACTGCATA||AR-150618-Ch21-D01-N701-S506||TAAGGCGA-ACTGCATA||1||live||extravasating |- | AR||150618||Ch20||D02||N702||S506||CGTACTAG||ACTGCATA||AR-150618-Ch20-D02-N702-S506||CGTACTAG-ACTGCATA||1||dead||na |- | AR||150618||Ch19||D03||N703||S506||AGGCAGAA||ACTGCATA||AR-150618-Ch19-D03-N703-S506||AGGCAGAA-ACTGCATA||0||na||na |- | AR||150618||Ch67||D04||N704||S506||TCCTGAGC||ACTGCATA||AR-150618-Ch67-D04-N704-S506||TCCTGAGC-ACTGCATA||0||na||na |- | AR||150618||Ch68||D05||N705||S506||GGACTCCT||ACTGCATA||AR-150618-Ch68-D05-N705-S506||GGACTCCT-ACTGCATA||0||na||na |- | AR||150618||Ch69||D06||N706||S506||TAGGCATG||ACTGCATA||AR-150618-Ch69-D06-N706-S506||TAGGCATG-ACTGCATA||0||na||na |- | AR||150618||Ch24||D07||N707||S506||CTCTCTAC||ACTGCATA||AR-150618-Ch24-D07-N707-S506||CTCTCTAC-ACTGCATA||1||dead||extravasating |- | AR||150618||Ch23||D08||N710||S506||CGAGGCTG||ACTGCATA||AR-150618-Ch23-D08-N710-S506||CGAGGCTG-ACTGCATA||1||dead||na |- | AR||150618||Ch22||D09||N711||S506||AAGAGGCA||ACTGCATA||AR-150618-Ch22-D09-N711-S506||AAGAGGCA-ACTGCATA||1||live||extravasating |- | AR||150618||Ch70||D10||N712||S506||GTAGAGGA||ACTGCATA||AR-150618-Ch70-D10-N712-S506||GTAGAGGA-ACTGCATA||1||dead||extravasating |- | AR||150618||Ch71||D11||N714||S506||GCTCATGA||ACTGCATA||AR-150618-Ch71-D11-N714-S506||GCTCATGA-ACTGCATA||0||na||na |- | AR||150618||Ch72||D12||N715||S506||ATCTCAGG||ACTGCATA||AR-150618-Ch72-D12-N715-S506||ATCTCAGG-ACTGCATA||0||na||na |- | AR||150618||Ch25||E01||N701||S507||TAAGGCGA||AAGGAGTA||AR-150618-Ch25-E01-N701-S507||TAAGGCGA-AAGGAGTA||1||live||weak |- | AR||150618||Ch26||E02||N702||S507||CGTACTAG||AAGGAGTA||AR-150618-Ch26-E02-N702-S507||CGTACTAG-AAGGAGTA||0||na||na |- | AR||150618||Ch27||E03||N703||S507||AGGCAGAA||AAGGAGTA||AR-150618-Ch27-E03-N703-S507||AGGCAGAA-AAGGAGTA||0||na||na |- | AR||150618||Ch75||E04||N704||S507||TCCTGAGC||AAGGAGTA||AR-150618-Ch75-E04-N704-S507||TCCTGAGC-AAGGAGTA||0||na||na |- | AR||150618||Ch74||E05||N705||S507||GGACTCCT||AAGGAGTA||AR-150618-Ch74-E05-N705-S507||GGACTCCT-AAGGAGTA||1||live||extravasating |- | AR||150618||Ch73||E06||N706||S507||TAGGCATG||AAGGAGTA||AR-150618-Ch73-E06-N706-S507||TAGGCATG-AAGGAGTA||0||na||na |- | AR||150618||Ch28||E07||N707||S507||CTCTCTAC||AAGGAGTA||AR-150618-Ch28-E07-N707-S507||CTCTCTAC-AAGGAGTA||1||live||weak |- | AR||150618||Ch29||E08||N710||S507||CGAGGCTG||AAGGAGTA||AR-150618-Ch29-E08-N710-S507||CGAGGCTG-AAGGAGTA||1||live||extravasating |- | AR||150618||Ch30||E09||N711||S507||AAGAGGCA||AAGGAGTA||AR-150618-Ch30-E09-N711-S507||AAGAGGCA-AAGGAGTA||1||live||weak |- | AR||150618||Ch78||E10||N712||S507||GTAGAGGA||AAGGAGTA||AR-150618-Ch78-E10-N712-S507||GTAGAGGA-AAGGAGTA||0||na||na |- | AR||150618||Ch77||E11||N714||S507||GCTCATGA||AAGGAGTA||AR-150618-Ch77-E11-N714-S507||GCTCATGA-AAGGAGTA||1||dead||weak |- | AR||150618||Ch76||E12||N715||S507||ATCTCAGG||AAGGAGTA||AR-150618-Ch76-E12-N715-S507||ATCTCAGG-AAGGAGTA||0||na||na |- | AR||150618||Ch31||F01||N701||S508||TAAGGCGA||CTAAGCCT||AR-150618-Ch31-F01-N701-S508||TAAGGCGA-CTAAGCCT||2||dead||na |- | AR||150618||Ch32||F02||N702||S508||CGTACTAG||CTAAGCCT||AR-150618-Ch32-F02-N702-S508||CGTACTAG-CTAAGCCT||0||na||na |- | AR||150618||Ch33||F03||N703||S508||AGGCAGAA||CTAAGCCT||AR-150618-Ch33-F03-N703-S508||AGGCAGAA-CTAAGCCT||1||dead||na |- | AR||150618||Ch81||F04||N704||S508||TCCTGAGC||CTAAGCCT||AR-150618-Ch81-F04-N704-S508||TCCTGAGC-CTAAGCCT||0||na||na |- | AR||150618||Ch80||F05||N705||S508||GGACTCCT||CTAAGCCT||AR-150618-Ch80-F05-N705-S508||GGACTCCT-CTAAGCCT||1||dead||na |- | AR||150618||Ch79||F06||N706||S508||TAGGCATG||CTAAGCCT||AR-150618-Ch79-F06-N706-S508||TAGGCATG-CTAAGCCT||1||dead||extravasating |- | AR||150618||Ch34||F07||N707||S508||CTCTCTAC||CTAAGCCT||AR-150618-Ch34-F07-N707-S508||CTCTCTAC-CTAAGCCT||1||live||weak |- | AR||150618||Ch35||F08||N710||S508||CGAGGCTG||CTAAGCCT||AR-150618-Ch35-F08-N710-S508||CGAGGCTG-CTAAGCCT||2||live||na |- | AR||150618||Ch36||F09||N711||S508||AAGAGGCA||CTAAGCCT||AR-150618-Ch36-F09-N711-S508||AAGAGGCA-CTAAGCCT||0||na||na |- | AR||150618||Ch84||F10||N712||S508||GTAGAGGA||CTAAGCCT||AR-150618-Ch84-F10-N712-S508||GTAGAGGA-CTAAGCCT||0||na||na |- | AR||150618||Ch83||F11||N714||S508||GCTCATGA||CTAAGCCT||AR-150618-Ch83-F11-N714-S508||GCTCATGA-CTAAGCCT||0||na||na |- | AR||150618||Ch82||F12||N715||S508||ATCTCAGG||CTAAGCCT||AR-150618-Ch82-F12-N715-S508||ATCTCAGG-CTAAGCCT||1||live||extravasating |- | AR||150618||Ch37||G01||N701||S510||TAAGGCGA||CGTCTAAT||AR-150618-Ch37-G01-N701-S510||TAAGGCGA-CGTCTAAT||0||na||na |- | AR||150618||Ch38||G02||N702||S510||CGTACTAG||CGTCTAAT||AR-150618-Ch38-G02-N702-S510||CGTACTAG-CGTCTAAT||0||dead||na |- | AR||150618||Ch39||G03||N703||S510||AGGCAGAA||CGTCTAAT||AR-150618-Ch39-G03-N703-S510||AGGCAGAA-CGTCTAAT||1||live||na |- | AR||150618||Ch87||G04||N704||S510||TCCTGAGC||CGTCTAAT||AR-150618-Ch87-G04-N704-S510||TCCTGAGC-CGTCTAAT||0||na||na |- | AR||150618||Ch86||G05||N705||S510||GGACTCCT||CGTCTAAT||AR-150618-Ch86-G05-N705-S510||GGACTCCT-CGTCTAAT||1||dead||na |- | AR||150618||Ch85||G06||N706||S510||TAGGCATG||CGTCTAAT||AR-150618-Ch85-G06-N706-S510||TAGGCATG-CGTCTAAT||0||na||na |- | AR||150618||Ch40||G07||N707||S510||CTCTCTAC||CGTCTAAT||AR-150618-Ch40-G07-N707-S510||CTCTCTAC-CGTCTAAT||3||dead||na |- | AR||150618||Ch41||G08||N710||S510||CGAGGCTG||CGTCTAAT||AR-150618-Ch41-G08-N710-S510||CGAGGCTG-CGTCTAAT||1||dead||na |- | AR||150618||Ch42||G09||N711||S510||AAGAGGCA||CGTCTAAT||AR-150618-Ch42-G09-N711-S510||AAGAGGCA-CGTCTAAT||1||dead||extravasating |- | AR||150618||Ch90||G10||N712||S510||GTAGAGGA||CGTCTAAT||AR-150618-Ch90-G10-N712-S510||GTAGAGGA-CGTCTAAT||2||both||na |- | AR||150618||Ch89||G11||N714||S510||GCTCATGA||CGTCTAAT||AR-150618-Ch89-G11-N714-S510||GCTCATGA-CGTCTAAT||1||both||weak |- | AR||150618||Ch88||G12||N715||S510||ATCTCAGG||CGTCTAAT||AR-150618-Ch88-G12-N715-S510||ATCTCAGG-CGTCTAAT||1||dead||na |- | AR||150618||Ch43||H01||N701||S511||TAAGGCGA||TCTCTCCG||AR-150618-Ch43-H01-N701-S511||TAAGGCGA-TCTCTCCG||1||dead||extravasating |- | AR||150618||Ch44||H02||N702||S511||CGTACTAG||TCTCTCCG||AR-150618-Ch44-H02-N702-S511||CGTACTAG-TCTCTCCG||0||na||debris |- | AR||150618||Ch45||H03||N703||S511||AGGCAGAA||TCTCTCCG||AR-150618-Ch45-H03-N703-S511||AGGCAGAA-TCTCTCCG||1||live||extravasating |- | AR||150618||Ch93||H04||N704||S511||TCCTGAGC||TCTCTCCG||AR-150618-Ch93-H04-N704-S511||TCCTGAGC-TCTCTCCG||0||na||na |- | AR||150618||Ch92||H05||N705||S511||GGACTCCT||TCTCTCCG||AR-150618-Ch92-H05-N705-S511||GGACTCCT-TCTCTCCG||1||live||bright |- | AR||150618||Ch91||H06||N706||S511||TAGGCATG||TCTCTCCG||AR-150618-Ch91-H06-N706-S511||TAGGCATG-TCTCTCCG||0||both||debris |- | AR||150618||Ch46||H07||N707||S511||CTCTCTAC||TCTCTCCG||AR-150618-Ch46-H07-N707-S511||CTCTCTAC-TCTCTCCG||1||dead||na |- | AR||150618||Ch47||H08||N710||S511||CGAGGCTG||TCTCTCCG||AR-150618-Ch47-H08-N710-S511||CGAGGCTG-TCTCTCCG||1||both||extravasating |- | AR||150618||Ch48||H09||N711||S511||AAGAGGCA||TCTCTCCG||AR-150618-Ch48-H09-N711-S511||AAGAGGCA-TCTCTCCG||0||na||na |- | AR||150618||Ch96||H10||N712||S511||GTAGAGGA||TCTCTCCG||AR-150618-Ch96-H10-N712-S511||GTAGAGGA-TCTCTCCG||1||live||extravasating |- | AR||150618||Ch95||H11||N714||S511||GCTCATGA||TCTCTCCG||AR-150618-Ch95-H11-N714-S511||GCTCATGA-TCTCTCCG||1||live||extravasating |- | AR||150618||Ch94||H12||N715||S511||ATCTCAGG||TCTCTCCG||AR-150618-Ch94-H12-N715-S511||ATCTCAGG-TCTCTCCG||1||dead||na |- | |} ====Nextera PCR==== Ran Nextera PCR on Eppendorf qPCR machine [[File:AR150618_NexteraPCR.png|800px]] ====Size selection==== [[File:AR150618_C1_gels.png|800px]] ====Sequencing==== {| {{table}} | align="center" style="background:#f0f0f0;"|'''Hasty Lab Miseq''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' | align="center" style="background:#f0f0f0;"|'''''' |- | Kit Provider: Kun Zhang Lab|||||||||||||||||| |- | 6/24/2015|||||||||||||||||| |- | Loading Concentration: 26.5 pM|||||||||||||||||| |- | Sample ID||Index Sequence||# of Reads||Run Type, Minmum BP||Library Size||Gel Image||Read 1 Sequencing Primer||Index Primer||Read 2 Sequencing Primer||Notes |- | INITIAL-PROJECT-SAMPLE-DATE-Index||CGTGCA||Million||SE/PE, 36+6+36||SIZE RANGE (BP)||Link||Name||Name||Name||Labeling, pooling, quantification, etc |- | AR-150618-Ch03-A01-N701-S502||TAAGGCGA-CTCTCTAT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch02-A02-N702-S502||CGTACTAG-CTCTCTAT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch07-B03-N703-S503||AGGCAGAA-TATCCTCT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch12-B07-N707-S503||CTCTCTAC-TATCCTCT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch13-C03-N703-S505||AGGCAGAA-GTAAGGAG||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch17-C08-N710-S505||CGAGGCTG-GTAAGGAG||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch21-D01-N701-S506||TAAGGCGA-ACTGCATA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch20-D02-N702-S506||CGTACTAG-ACTGCATA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch24-D07-N707-S506||CTCTCTAC-ACTGCATA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch23-D08-N710-S506||CGAGGCTG-ACTGCATA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch22-D09-N711-S506||AAGAGGCA-ACTGCATA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch70-D10-N712-S506||GTAGAGGA-ACTGCATA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch74-E05-N705-S507||GGACTCCT-AAGGAGTA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch29-E08-N710-S507||CGAGGCTG-AAGGAGTA||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch33-F03-N703-S508||AGGCAGAA-CTAAGCCT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch80-F05-N705-S508||GGACTCCT-CTAAGCCT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch79-F06-N706-S508||TAGGCATG-CTAAGCCT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch82-F12-N715-S508||ATCTCAGG-CTAAGCCT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch39-G03-N703-S510||AGGCAGAA-CGTCTAAT||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |- | AR-150618-Ch45-H03-N703-S511||AGGCAGAA-TCTCTCCG||1||SE50+8+8||250-800||http://genome-tech.ucsd.edu/LabNotes/index.php/File:AR150618_C1_gels.png||HP10||HP12||NA||Tube labeled AR 6/18 |} ====Screening==== [[File:AR150618_libraryComplexities.jpg|800px]] ====CNV profiling==== [[File:AR-150618-Ch02-A02-N702-S502.all.png|600px]] [[File:AR-150618-Ch03-A01-N701-S502.all.png|600px]] [[File:AR-150618-Ch07-B03-N703-S503.all.png|600px]] [[File:AR-150618-Ch12-B07-N707-S503.all.png|600px]] [[File:AR-150618-Ch13-C03-N703-S505.all.png|600px]] [[File:AR-150618-Ch17-C08-N710-S505.all.png|600px]] [[File:AR-150618-Ch20-D02-N702-S506.all.png|600px]] [[File:AR-150618-Ch21-D01-N701-S506.all.png|600px]] [[File:AR-150618-Ch22-D09-N711-S506.all.png|600px]] [[File:AR-150618-Ch23-D08-N710-S506.all.png|600px]] [[File:AR-150618-Ch24-D07-N707-S506.all.png|600px]] [[File:AR-150618-Ch29-E08-N710-S507.all.png|600px]] [[File:AR-150618-Ch33-F03-N703-S508.all.png|600px]] [[File:AR-150618-Ch39-G03-N703-S510.all.png|600px]] [[File:AR-150618-Ch45-H03-N703-S511.all.png|600px]] [[File:AR-150618-Ch70-D10-N712-S506.all.png|600px]] [[File:AR-150618-Ch74-E05-N705-S507.all.png|600px]] [[File:AR-150618-Ch79-F06-N706-S508.all.png|600px]] [[File:AR-150618-Ch80-F05-N705-S508.all.png|600px]] [[File:AR-150618-Ch82-F12-N715-S508.all.png|600px]] ====Lorenz Curves==== [[File:AR-150618-Ch02-A02-N702-S502_lorenz.png|600px]] [[File:AR-150618-Ch03-A01-N701-S502_lorenz.png|600px]] [[File:AR-150618-Ch07-B03-N703-S503_lorenz.png|600px]] [[File:AR-150618-Ch12-B07-N707-S503_lorenz.png|600px]] [[File:AR-150618-Ch13-C03-N703-S505_lorenz.png|600px]] [[File:AR-150618-Ch17-C08-N710-S505_lorenz.png|600px]] [[File:AR-150618-Ch20-D02-N702-S506_lorenz.png|600px]] [[File:AR-150618-Ch21-D01-N701-S506_lorenz.png|600px]] [[File:AR-150618-Ch22-D09-N711-S506_lorenz.png|600px]] [[File:AR-150618-Ch23-D08-N710-S506_lorenz.png|600px]] [[File:AR-150618-Ch24-D07-N707-S506_lorenz.png|600px]] [[File:AR-150618-Ch29-E08-N710-S507_lorenz.png|600px]] [[File:AR-150618-Ch33-F03-N703-S508_lorenz.png|600px]] [[File:AR-150618-Ch39-G03-N703-S510_lorenz.png|600px]] [[File:AR-150618-Ch45-H03-N703-S511_lorenz.png|600px]] [[File:AR-150618-Ch70-D10-N712-S506_lorenz.png|600px]] [[File:AR-150618-Ch74-E05-N705-S507_lorenz.png|600px]] [[File:AR-150618-Ch79-F06-N706-S508_lorenz.png|600px]] [[File:AR-150618-Ch80-F05-N705-S508_lorenz.png|600px]] [[File:AR-150618-Ch82-F12-N715-S508_lorenz.png|600px]] ====Mouse pipeline==== Column purified MEF gDNA was used as a cell-free control. It was run through an identical pipeline constructed for mm10 instead of hg38 [[File:AR150618_mouse_libraryComplexities.jpg|600px]] [[File:AR-150618-Ch02-A02-N702-S502_mouse.jpg|600px]] [[File:AR-150618-Ch03-A01-N701-S502_mouse.jpg|600px]] [[File:AR-150618-Ch07-B03-N703-S503_mouse.jpg|600px]] [[File:AR-150618-Ch12-B07-N707-S503_mouse.jpg|600px]] [[File:AR-150618-Ch13-C03-N703-S505_mouse.jpg|600px]] [[File:AR-150618-Ch17-C08-N710-S505_mouse.jpg|600px]] [[File:AR-150618-Ch20-D02-N702-S506_mouse.jpg|600px]] [[File:AR-150618-Ch21-D01-N701-S506_mouse.jpg|600px]] [[File:AR-150618-Ch22-D09-N711-S506_mouse.jpg|600px]] [[File:AR-150618-Ch23-D08-N710-S506_mouse.jpg|600px]] [[File:AR-150618-Ch24-D07-N707-S506_mouse.jpg|600px]] [[File:AR-150618-Ch29-E08-N710-S507_mouse.jpg|600px]] [[File:AR-150618-Ch33-F03-N703-S508_mouse.jpg|600px]] [[File:AR-150618-Ch39-G03-N703-S510_mouse.jpg|600px]] [[File:AR-150618-Ch45-H03-N703-S511_mouse.jpg|600px]] [[File:AR-150618-Ch70-D10-N712-S506_mouse.jpg|600px]] [[File:AR-150618-Ch74-E05-N705-S507_mouse.jpg|600px]] [[File:AR-150618-Ch79-F06-N706-S508_mouse.jpg|600px]] [[File:AR-150618-Ch80-F05-N705-S508_mouse.jpg|600px]] [[File:AR-150618-Ch82-F12-N715-S508_mouse.jpg|600px]]
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