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====Haplotyping samples==== # Lyse the cell aliquot #1 (10 cells) in 60 lysis buffer, aliquot 1ul cell lysates to 24 tubes and process with Nextera haplotyping protocol. Barcode the first 12 cell lysates with Nextera 1-12 as RL_hap1-12; barcode the second 12 cell lysates with Nextera 1-12 as RL_12-23 (w/o lysate #21). Individual hap samples were made on 8.23.11 [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:LabNotes/Haplotyping/2011-8-23] and size selection of pooled samples were made by Matt # Lyse the cell aliquot #2 (10 cells) in 60 lysis buffer, aliquot 1ul cell lysates to 12 tubes and process with Nextera haplotyping protocol. Barcode the 12 cell lysates with Nextera 1-12 as MC_hap1-11 (w/o lysate #6). Individual hap samples were made by Matt on 8.24.11 [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:LabNotes/Haplotyping/2011-8-24] and size selection of pooled samples were made by Matt # Final check on 9.2.11 lab note [http://genome-tech.ucsd.edu/LabNotes/index.php/Rui:LabNotes/Collaborations/2011-9-2] RL_hap1-12_9.2.11 {| {{table}} border=1 | align="center" style="background:#f0f0f0;"|'''Sample ID''' | align="center" style="background:#f0f0f0;"|'''Source''' | align="center" style="background:#f0f0f0;"|'''Genome''' | align="center" style="background:#f0f0f0;"|'''IndX''' |- | Hap1||GM12878-p15, cell aliquot #1, lysate #1||human||Nextera ID1 |- | Hap2||GM12878-p15, cell aliquot #1, lysate #2||''||Nextera ID2 |- | Hap3||GM12878-p15, cell aliquot #1, lysate #3||''||Nextera ID3 |-'' | Hap4||GM12878-p15, cell aliquot #1, lysate #4||''||Nextera ID4 |- | Hap5||GM12878-p15, cell aliquot #1, lysate #5||''||Nextera ID5 |- | Hap6||GM12878-p15, cell aliquot #1, lysate #6||''||Nextera ID6 |- | Hap7||GM12878-p15, cell aliquot #1, lysate #7||''||Nextera ID7 |- | Hap8||GM12878-p15, cell aliquot #1, lysate #8||''||Nextera ID8 |- | Hap9||GM12878-p15, cell aliquot #1, lysate #9||''||Nextera ID9 |- | Hap10||GM12878-p15, cell aliquot #1, lysate #10||''||Nextera ID10 |- | Hap11||GM12878-p15, cell aliquot #1, lysate #11||''||Nextera ID11 |- | Hap12||GM12878-p15, cell aliquot #1, lysate #12||''||Nextera ID12 |} RL_hap13-23_9.2.11 {| {{table}} border=1 | align="center" style="background:#f0f0f0;"|'''Sample ID''' | align="center" style="background:#f0f0f0;"|'''Source''' | align="center" style="background:#f0f0f0;"|'''Genome''' | align="center" style="background:#f0f0f0;"|'''IndX''' |- | Hap13||GM12878-p15, cell aliquot #1, lysate #13||human||Nextera ID1 |- | Hap14||GM12878-p15, cell aliquot #1, lysate #14||''||Nextera ID2 |- | Hap15||GM12878-p15, cell aliquot #1, lysate #15||''||Nextera ID3 |-'' | Hap16||GM12878-p15, cell aliquot #1, lysate #16||''||Nextera ID4 |- | Hap17||GM12878-p15, cell aliquot #1, lysate #17||''||Nextera ID5 |- | Hap18||GM12878-p15, cell aliquot #1, lysate #18||''||Nextera ID6 |- | Hap19||GM12878-p15, cell aliquot #1, lysate #19||''||Nextera ID7 |- | Hap20||GM12878-p15, cell aliquot #1, lysate #20||''||Nextera ID8 |- | Hap21||GM12878-p15, cell aliquot #1, lysate #22||''||Nextera ID10 |- | Hap22||GM12878-p15, cell aliquot #1, lysate #23||''||Nextera ID11 |- | Hap23||GM12878-p15, cell aliquot #1, lysate #24||''||Nextera ID12 |} MC_hap1-11_9.2.11 {| {{table}} border=1 | align="center" style="background:#f0f0f0;"|'''Sample ID''' | align="center" style="background:#f0f0f0;"|'''Source''' | align="center" style="background:#f0f0f0;"|'''Genome''' | align="center" style="background:#f0f0f0;"|'''IndX''' |- | Hap1||GM12878-p15, cell aliquot #2, lysate #1||human||Nextera ID1 |- | Hap2||GM12878-p15, cell aliquot #2, lysate #2||''||Nextera ID2 |- | Hap3||GM12878-p15, cell aliquot #2, lysate #3||''||Nextera ID3 |-'' | Hap4||GM12878-p15, cell aliquot #2, lysate #4||''||Nextera ID4 |- | Hap5||GM12878-p15, cell aliquot #2, lysate #5||''||Nextera ID5 |- | Hap6||GM12878-p15, cell aliquot #2, lysate #7||''||Nextera ID7 |- | Hap7||GM12878-p15, cell aliquot #2, lysate #8||''||Nextera ID8 |- | Hap8||GM12878-p15, cell aliquot #2, lysate #9||''||Nextera ID9 |- | Hap9||GM12878-p15, cell aliquot #2, lysate #10||''||Nextera ID10 |- | Hap10||GM12878-p15, cell aliquot #2, lysate #11||''||Nextera ID11 |- | Hap11||GM12878-p15, cell aliquot #2, lysate #12||''||Nextera ID12 |}
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