Arichard:Notebook/midas140917: Difference between revisions
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===Gels=== | ===Gels=== | ||
[[File:midas140917GelsSlide1.jpg|400px]] | |||
[[File:midas140917GelsSlide2.jpg|400px]] | |||
[[File:midas140917GelsSlide3.jpg|400px]] | |||
[[File:midas140917GelsSlide4.jpg|400px]] | |||
[[File:midas140917GelsSlide5.jpg|400px]] | |||
[[File:midas140917GelsSlide6.jpg|400px]] | |||
===Sequencing=== | ===Sequencing=== | ||
{| {{table}} | |||
| align="center" style="background:#f0f0f0;"|'''ID''' | |||
| align="center" style="background:#f0f0f0;"|'''Index Sequence''' | |||
| align="center" style="background:#f0f0f0;"|'''# of Reads''' | |||
| align="center" style="background:#f0f0f0;"|'''Run Type, Minmum BP''' | |||
| align="center" style="background:#f0f0f0;"|'''Library Size''' | |||
| align="center" style="background:#f0f0f0;"|'''Gel Image''' | |||
| align="center" style="background:#f0f0f0;"|'''Read 1 Sequencing Primer''' | |||
| align="center" style="background:#f0f0f0;"|'''Index Primer''' | |||
| align="center" style="background:#f0f0f0;"|'''Read 2 Sequencing Primer''' | |||
|- | |||
| INITIAL-PROJECT-SAMPLE-DATE-Index||CGTGCA||Million||SE/PE, 36+6+36||SIZE RANGE (BP)||Link||Name||Name||Name | |||
|- | |||
| AR65-PL703May20-Sep17-7||CAGATC||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| AR66-PL703May20-Sep17-8||ACTTGA||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| AR67-PL703May20-Sep17-12||CTTGTA||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| AR68-PL2500May20-Sep17-25||TACTGC||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| AR69-PL2500May20-Sep17-26||TCGTGA||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| AR70-PL2500May20-Sep17-16||GGGGTT||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| AR71-PL2500May20-Sep17-34||AACTGA||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| AR72-PL2500May20NTC-Sep17-35||ATCGGG||20||SE 50+7||200-800||http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917||Nextera_R1||Nextera_Ind||NA | |||
|- | |||
| | |||
|} |
Latest revision as of 17:12, 24 September 2014
MIDAS run from September 17, 2014[edit]
Sample tracking[edit]
Sample # | Sample description | Array | Image pos. | Index # | Barcode |
1 | NeuN+ Cbl 7-03 sorted May 20 | 1 | 1 | 1 | ATCACG |
2 | NeuN+ Cbl 7-03 sorted May 21 | 1 | 2 | 2 | CGATGT |
3 | NeuN+ Cbl 7-03 sorted May 22 | 2 | 3 | 4 | TGACCA |
4 | NeuN+ Cbl 7-03 sorted May 23 | 2 | 5 | 5 | ACAGTG |
5 | NeuN+ Cbl 7-03 sorted May 24 | 3 | 6 | 6 | GCCAAT |
6 | NeuN+ Cbl 7-03 sorted May 25 | 3 | 7 | 7 | CAGATC |
7 | NeuN+ Cbl 7-03 sorted May 26 | 3 | 7 | 10 | TAGCTT |
8 | NeuN+ Cbl 7-03 sorted May 27 | 4 | 8 | 8 | ACTTGA |
9 | NTC from loaded array | 4 | 8 | 11 | GGCTAC |
10 | NeuN+ Cbl 25-00 sorted May 27 | 5 | 10 | 12 | CTTGTA |
11 | NeuN+ Cbl 25-00 sorted May 28 | 5 | 10 | 13 | CCATGA |
12 | NeuN+ Cbl 25-00 sorted May 29 | 5 | 11 | 14 | AAGACA |
13 | NeuN+ Cbl 25-00 sorted May 30 | 5 | 11 | 15 | CTTCCT |
14 | NeuN+ Cbl 25-00 sorted May 31 | 6 | 12 | 25 | TACTGC |
15 | NeuN+ Cbl 25-00 sorted May 32 | 6 | 12 | 26 | TCGTGA |
16 | NeuN+ Cbl 25-00 sorted May 33 | 6 | 13 | 16 | GGGGTT |
17 | NeuN+ Cbl 25-00 sorted May 34 | 6 | 13 | 27 | TACGCG |
18 | NeuN+ Cbl 25-00 sorted May 35 | 7 | 14 | 28 | AGGTGC |
19 | NeuN+ Cbl 25-00 sorted May 36 | 7 | 14 | 29 | ACGAAC |
20 | NeuN+ Cbl 25-00 sorted May 37 | 7 | 15 | 30 | TTAGTG |
21 | NeuN+ Cbl 25-00 sorted May 38 | 8 | 16 | 31 | CACCAC |
22 | NeuN+ Cbl 25-00 sorted May 39 | 8 | 16 | 33 | CGCAAC |
23 | NeuN+ Cbl 25-00 sorted May 40 | 8 | 17 | 34 | AACTGA |
24 | NTC from loaded array | 8 | 17 | 35 | ATCGGG |
- I used a different type of array, the last one from the Groisman lab.
- It contained a type of bulk blocking treatment that would wet and block PDMS pores without BSA.
- They told me to use it without BSA, but I used BSA anyways.
- I saw a lot of wrinkling in the bottom of the array due to its thinness. This created a lot of issues with imaging and picking.
Gels[edit]
File:Midas140917GelsSlide1.jpg File:Midas140917GelsSlide2.jpg File:Midas140917GelsSlide3.jpg File:Midas140917GelsSlide4.jpg File:Midas140917GelsSlide5.jpg File:Midas140917GelsSlide6.jpg
Sequencing[edit]
ID | Index Sequence | # of Reads | Run Type, Minmum BP | Library Size | Gel Image | Read 1 Sequencing Primer | Index Primer | Read 2 Sequencing Primer |
INITIAL-PROJECT-SAMPLE-DATE-Index | CGTGCA | Million | SE/PE, 36+6+36 | SIZE RANGE (BP) | Link | Name | Name | Name |
AR65-PL703May20-Sep17-7 | CAGATC | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |
AR66-PL703May20-Sep17-8 | ACTTGA | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |
AR67-PL703May20-Sep17-12 | CTTGTA | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |
AR68-PL2500May20-Sep17-25 | TACTGC | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |
AR69-PL2500May20-Sep17-26 | TCGTGA | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |
AR70-PL2500May20-Sep17-16 | GGGGTT | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |
AR71-PL2500May20-Sep17-34 | AACTGA | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |
AR72-PL2500May20NTC-Sep17-35 | ATCGGG | 20 | SE 50+7 | 200-800 | http://genome-tech.ucsd.edu/LabNotes/index.php/Arichard:Notebook/midas140917 | Nextera_R1 | Nextera_Ind | NA |