Editing
Hosuk:LabNotes/2013-12-11
(section)
Jump to navigation
Jump to search
Warning:
You are not logged in. Your IP address will be publicly visible if you make any edits. If you
log in
or
create an account
, your edits will be attributed to your username, along with other benefits.
Anti-spam check. Do
not
fill this in!
===NCIH1975 Rolony : 2nd sample=== *Sample : Glass-bottom MatTek dish β 1 dishes *NCIH1975 P27 (from Illumina) *Process 12/09 ~ 12/11 *Image Cy5-1st Rolony detection probe (1uM in 30% Formamide + 2xSSC) ====Image condition==== *Laser = 2% *PMT Gain = 550 *Z stack = 0.25um step, 199 images **allows higher resolution along Z axis, and better 3D view ====Result==== *This cells were more denser than previous sample. *The number of rolonies were many. *PISA counting = 14557 **PISA Param ***Gaussian std = 3, upper = -3e-4 ***area upper = 100, lower = 2, axratio lower = 0.7 ***circ upper = 1.6, lower = 0.8, perim conn = 8 ***bkgmult lower = 7 ====3D view with ImageJ==== *Procedure : Stack all images --> Crop (because ImageJ canβt handle a big size) --> Run 3D plugin *Max Projection image ([[Media:MAX_Stack_NCIH1975-20131211_Step3_Pos1.tif|2048x2048 size]], [[Media:MAX_Crop_Stack_NCIH1975-20131211_Step3_Pos1.tif|Cropped, 444x444 size]]) [[File:MAX_Fullsize_Cropped_Stack_NCIH1975-20131211_Step3_Pos1.png|1000px]] *3D view ([[Media:Movie24fps_3D_Crop_Stack_NCIH1975-20131211_Step3_Pos1.wmv|360 degree Rotation]]) [[File:3DView_MAX_Cropped_Stack_NCIH1975-20131211_Step3_Pos1.png|1200px]]
Summary:
Please note that all contributions to ZhangLabWiki may be edited, altered, or removed by other contributors. If you do not want your writing to be edited mercilessly, then do not submit it here.
You are also promising us that you wrote this yourself, or copied it from a public domain or similar free resource (see
ZhangLabWiki:Copyrights
for details).
Do not submit copyrighted work without permission!
Cancel
Editing help
(opens in new window)
Navigation menu
Personal tools
Not logged in
Talk
Contributions
Create account
Log in
Namespaces
Page
Discussion
English
Views
Read
Edit
View history
More
Search
Navigation
Main Page
Current events
Recent changes
Random page
Investigators
Matt Cai
Song Chen
Eric Chu
Dinh Diep
Elizabeth Duong
Shicheng Guo
Alan Fung
Daniel Jacobsen
Blue Lake
Huy Lam
Alice Li
Andrew Richards
Brandon Sos
Chris Wei
Yan Wu
Kun Zhang
Tools
What links here
Related changes
Special pages
Page information