User:Steven J. Koch/Notebook/Kochlab/2009/04/18/Osmolyte unzipping data 2003/030121 Journal Entries

These are the journal files from: Popping Paper III\BsoBI Osmolite\030121

Data set notes

(Copied from http://kochlab.org/files/data/Koch_Data/DataSetNotes/030121.txt)

1/21/03 12:54 PM
Protocol is normal Popping / BGB protocol.  However, Popping buffer is made from DSJ 5x Popping buffer July 2002.  So, THE pH IS NOW 7.5!!!
DNA is end-labeled from December 5 2001.  I diluted 1:2 in BGB 5.
BGB made fresh last week.  Antidig diluted fresh last week. Beads diluted fresh today.
Today will be Betaine studies.  All buffers based on 1x Popping (DSJ), and all enzyme (if present) will be 1:100 dilutions of the BsoBI (same as from Papers)
Sample has more tethers than with 1:5 dilution.  However, the tethers don't seem to be full length (as if nicked)
0149? (Check time)	In 5 mg / ml BGB / popping buffer (DSJ)
0149-0150	Added BsoBI (5 s.v.) (1:50 in 1x DSJ Popping buffer) at about 11:46 AM, after washing with 5 s.v. of 1x DSJ Popping buffer
0151	Flowed in 5 s.v. more of BsoBI at 11:55 AM
0152	Re-trying with new buffer and enzyme.  (Re-diluted 5x DSJ Popping buffer and re-diluted BsoBI in new 1x Pop)  Flowed in 5 s.v. at about 12:10 PM
0153-0154	BsoBI 1:50 in SJK Popping buffer, flowed in 5 s.v. at about 12:19 PM
0155-0157	2/6 M Betain (1:6 dilution of 2M Betain in Popping) plus 1:50 BsoBI @ 12:30 PM

0147.ini

(segment-specific comments below)
(segment000)

0148.ini

w/ 5 mg / ml BGB

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)
(segment006)
(segment007)

0149.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)
(segment006)
(segment007)
(segment008)
(segment009)
(segment010)
(segment011)

0150.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)

0151.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)
(segment006)
(segment007)
(segment008)

0152.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)
(segment006)
(segment007)
(segment008)

0153.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)
(segment006)
(segment007)
(segment008)
(segment009)

0154.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)

0155.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)
(segment006)
(segment007)
(segment008)
(segment009)

0156.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004) Bad FTC?
(segment005)
(segment006)
(segment007)
(segment008)
(segment009)

0157.ini

(segment-specific comments below)
(segment000)
(segment001)
(segment002)
(segment003)
(segment004)
(segment005)
(segment006)