Table of c5.0 Working Stocks: Difference between revisions
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=Working Stock= | =Working Stock= | ||
'''NB:''' Noticed that c5.0A row included pre-working stocks 8 and 9, erroneously. These are biotinylated versions of 6 and 7, and should not have been included in previous stocks. Also, pre-working stocks 20 and 21 were erroneously included - these are displacement oligos, to be (putatively) added after latches are folded, with the lids present. Also, 10+11 is redundant with 6 and 7 - if latches are necessary, add 10+11; if no latches are desired, use 6 and 7. ---TC, 8.23.06 | |||
'''NB:''' Updated table to include lidless versions of c5.0C and c5.0D which have ligands pointing in and out respectively. ---KF, 11.14.06 | |||
{| {{table}} | {| {{table}} | ||
| Stock ID||Experiment||1||2||3||4||4L||5||5L||6||7||8||9||10+11||12||13+14||15||16+17||18||19||20||21 | | Stock ID||Experiment||1||2||3||4||4L||5||5L||6||7||8||9||10+11||12||13+14||15||16+17||18||19||20||21 | ||
|- | |- | ||
| c5.0A||no latches, no aptamers||x||x||x||x||-||x||-||x||-||-|| | | c5.0A||no latches, no aptamers||x||x||x||x||-||x||-||x||-||-||-||x||x||x||x||x||x||x||-||- | ||
|- | |- | ||
| c5.0A (lidless)||no latches, no aptamers||172uL||-||-||5||-||5||-||3||3||-||-|| | | c5.0A (lidless)||no latches, no aptamers||172uL||-||-||5||-||5||-||3||3||-||-||-||-||-||-||-||-||-||-||- | ||
|- | |- | ||
| c5.0B||latch design 2, no aptamers||x|| | | c5.0B||latch design 2, no aptamers||x||-||-||x||-||x||-||-||-||-||-||x||x||x||x||x||x||-||-||- | ||
|- | |- | ||
| c5.0C||latch design 2, inside aptamers||x||x||x||x||-||-||x||-||-||-||-||x||x||x||x||x||x||-||-||- | | c5.0C||latch design 2, inside aptamers||x||x||x||x||-||-||x||-||-||-||-||x||x||x||x||x||x||-||-||- | ||
|- | |- | ||
| c5.0D||latch design 2, outside aptamers||x||x||x||-||x||x||-||-||-||-||-||x||x||x||x||x||x||-||-||- | | c5.0.C (lidless)|| no latches, no lids, inside aptamers||172uL||-||-||5||-||-||12||3||3||-||-||-||-||-||-||-||-||-||-||- | ||
|- | |||
| c5.0D||latch design 2, outside aptamers, with lids||x||x||x||-||x||x||-||-||-||-||-||x||x||x||x||x||x||-||-||- | |||
|- | |||
| c5.0D (lidless)|| no latches, no lids, outside aptamers||172uL||-||-||-||12||5||-||3||3||-||-||-||-||-||-||-||-||-||-||- | |||
|- | |- | ||
| c5.0E(b)||no latches, outside biotin||172uL||-||-||-||-||5||-||3||3||5||-||-||-||-||-||-||-||-||-||- | | c5.0E(b)||no latches, outside biotin||172uL||-||-||-||-||5||-||3||3||5||-||-||-||-||-||-||-||-||-||- | ||
|- | |- | ||
| c5.0F(b)||no latches, intside biotin||172uL||-||-||5||-||-||-||3||3||-||5||-||-||-||-||-||-||-||-||- | | c5.0F(b)||no latches, intside biotin||172uL||-||-||5||-||-||-||3||3||-||5||-||-||-||-||-||-||-||-||- | ||
|- | |||
| c5.0E(b)'''r'''||no latches, outside biotin||172uL||-||-||-||-||5||-||3||3||8||-||-||-||-||-||-||-||-||-||- | |||
|- | |||
| c5.0F(b)'''r'''||no latches, intside biotin||172uL||-||-||5||-||-||-||3||3||-||8||-||-||-||-||-||-||-||-||- | |||
|- | |- | ||
|} | |} | ||
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|c5.0.9: barrel oligos @ inside aptamers +biotin||tubes c5.0.9.1-5||5 | |c5.0.9: barrel oligos @ inside aptamers +biotin||tubes c5.0.9.1-5||5 | ||
|- | |- | ||
|c5.0.10+c5.0.11: barrel oligos @ latches||box_v5_F row A (1-9)||9 | |c5.0.8'''r''': revised barrel oligos @ outside aptamers +biotin||tubes c5.0.8.1ra & b, c5.0.8.2ra & b, c5.0.8.5ra &b, plus c5.0.8.3 and c5.0.8.4||8 | ||
|- | |||
|c5.0.9'''r''': revised barrel oligos @ inside aptamers +biotin||tubes c5.0.9.1ra & b - c5.0.9.5ra & b||8 | |||
|- | |||
|c5.0.10+c5.0.11: barrel oligos @ latches (for latches)||box_v5_F row A (1-9)||9 | |||
|- | |- | ||
|c5.0.12: barrel latch zippers||box_v5_F row A (10-12), row B (1-3)||6 | |c5.0.12: barrel latch zippers||box_v5_F row A (10-12), row B (1-3)||6 | ||
| Line 67: | Line 81: | ||
|c5.0.21: bottom lid displacement oligos||box_v5_F row D (6-8)||3 | |c5.0.21: bottom lid displacement oligos||box_v5_F row D (6-8)||3 | ||
|} | |} | ||
=Totals= | =Totals= | ||
Latest revision as of 15:10, 14 November 2006
Working Stock
NB: Noticed that c5.0A row included pre-working stocks 8 and 9, erroneously. These are biotinylated versions of 6 and 7, and should not have been included in previous stocks. Also, pre-working stocks 20 and 21 were erroneously included - these are displacement oligos, to be (putatively) added after latches are folded, with the lids present. Also, 10+11 is redundant with 6 and 7 - if latches are necessary, add 10+11; if no latches are desired, use 6 and 7. ---TC, 8.23.06
NB: Updated table to include lidless versions of c5.0C and c5.0D which have ligands pointing in and out respectively. ---KF, 11.14.06
| Stock ID | Experiment | 1 | 2 | 3 | 4 | 4L | 5 | 5L | 6 | 7 | 8 | 9 | 10+11 | 12 | 13+14 | 15 | 16+17 | 18 | 19 | 20 | 21 |
| c5.0A | no latches, no aptamers | x | x | x | x | - | x | - | x | - | - | - | x | x | x | x | x | x | x | - | - |
| c5.0A (lidless) | no latches, no aptamers | 172uL | - | - | 5 | - | 5 | - | 3 | 3 | - | - | - | - | - | - | - | - | - | - | - |
| c5.0B | latch design 2, no aptamers | x | - | - | x | - | x | - | - | - | - | - | x | x | x | x | x | x | - | - | - |
| c5.0C | latch design 2, inside aptamers | x | x | x | x | - | - | x | - | - | - | - | x | x | x | x | x | x | - | - | - |
| c5.0.C (lidless) | no latches, no lids, inside aptamers | 172uL | - | - | 5 | - | - | 12 | 3 | 3 | - | - | - | - | - | - | - | - | - | - | - |
| c5.0D | latch design 2, outside aptamers, with lids | x | x | x | - | x | x | - | - | - | - | - | x | x | x | x | x | x | - | - | - |
| c5.0D (lidless) | no latches, no lids, outside aptamers | 172uL | - | - | - | 12 | 5 | - | 3 | 3 | - | - | - | - | - | - | - | - | - | - | - |
| c5.0E(b) | no latches, outside biotin | 172uL | - | - | - | - | 5 | - | 3 | 3 | 5 | - | - | - | - | - | - | - | - | - | - |
| c5.0F(b) | no latches, intside biotin | 172uL | - | - | 5 | - | - | - | 3 | 3 | - | 5 | - | - | - | - | - | - | - | - | - |
| c5.0E(b)r | no latches, outside biotin | 172uL | - | - | - | - | 5 | - | 3 | 3 | 8 | - | - | - | - | - | - | - | - | - | - |
| c5.0F(b)r | no latches, intside biotin | 172uL | - | - | 5 | - | - | - | 3 | 3 | - | 8 | - | - | - | - | - | - | - | - | - |
Pre-Working Stocks
| Description | Plate Locations | Total |
| c5.0.1: core barrel oligos | box_v5_A; box_v5_B rows A-F (1-12), row G (1-4) | 172 |
| c5.0.2: top lid oligos | box_v5_C; box_v5_D row A (1-2) | 98 |
| c5.0.3: bottom lid oligos | box_v5_D row A (3-12), rows B-H (1-12); box_v5_E row A (1-4) | 98 |
| c5.0.4: barrel oligos @ outside aptamers -aptamers | box_v5_E row A (5-9) | 5 |
| c5.0.4L: barrel oligos @ outside aptamers+ligand | box_v5_F row F (1-10) | 10 |
| c5.0.5: barrel oligos @ inside aptamers -aptamers | box_v5_E row A (10-12), row B (1-2) | 5 |
| c5.0.5L: barrel oligos @ inside aptamers+ligand | box_v5_F row F (11-12), row G (1-10) | 12 |
| c5.0.6: barrel oligos @ top latches -latches | box_v5_E row B (3-5) | 3 |
| c5.0.7: barrel oligos @ bottom latches -latches | box_v5_E row B (6-8) | 3 |
| c5.0.8: barrel oligos @ outside aptamers +biotin | tubes c5.0.8.1-5 | 5 |
| c5.0.9: barrel oligos @ inside aptamers +biotin | tubes c5.0.9.1-5 | 5 |
| c5.0.8r: revised barrel oligos @ outside aptamers +biotin | tubes c5.0.8.1ra & b, c5.0.8.2ra & b, c5.0.8.5ra &b, plus c5.0.8.3 and c5.0.8.4 | 8 |
| c5.0.9r: revised barrel oligos @ inside aptamers +biotin | tubes c5.0.9.1ra & b - c5.0.9.5ra & b | 8 |
| c5.0.10+c5.0.11: barrel oligos @ latches (for latches) | box_v5_F row A (1-9) | 9 |
| c5.0.12: barrel latch zippers | box_v5_F row A (10-12), row B (1-3) | 6 |
| c5.0.13+c5.0.14: top lid latches | box_v5_F row B (4-8) | 5 |
| c5.0.15: top lid latch zippers | box_v5_F row B (9-11) | 3 |
| c5.0.16+c5.0.17:bottom lid latches | box_v5_F row B (12), row C (1-5) | 6 |
| c5.0.18: bottom lid latch zippers | box_v5_F row C (6-8) | 3 |
| c5.0.19: barrel displacement oligos | box_v5_F row C (9-12), row D (1-2) | 6 |
| c5.0.20: top lid displacement oligos | box_v5_F row D (3-5) | 3 |
| c5.0.21: bottom lid displacement oligos | box_v5_F row D (6-8) | 3 |
Totals
| Working Stocks | Description | Pre-Working Stocks | Water | Total |
| c5.0A | no latches, no aptamers, no lids | 1 (86 μL), 4 (2.5 μL), 5 (2.5 μL), 6 (1.5 μL), 7 (1.5 μL) | 106 μL | 200 μL |
| c5.0A.lids | no latches, no aptamers | 2 (49 μL), 3 (49 μL) | 102 μL | 200 μL |
| c5.0C.core | latch 2, in aptamers | 1 (86 μL), 2 (49 μL), 3 (49 μL), 4 (2.5 μL), 5L (6 μL) | - | - |
| c5.0C.latches | latch 2, in aptamers | 10+11 (4.5 μL), 12 (3 μL), 13+14 (2.5 μL), 15 (1.5 μL), 16+17 (3 μL), 18 (1.5 μL)) | - | - |
| c5.0D.core | latch 2, out aptamers | 1 (86 μL), 2 (49 μL), 3 (49 μL), 4L (5 μL), 5 (2.5 μL) | - | - |
| c5.0D.latches | latch 2, out aptamers | 10+11 (4.5 μL), 12 (3 μL), 13+14 (2.5 μL), 15 (1.5 μL), 16+17 (3 μL), 18 (1.5 μL)) | - | - |
