Open Access. Powered by Scholars. Published by Universities.®
- Discipline
-
- Biology (5)
- Cell Biology (5)
- Cell and Developmental Biology (5)
- Biotechnology (3)
- Cancer Biology (3)
-
- Laboratory and Basic Science Research (3)
- Analytical, Diagnostic and Therapeutic Techniques and Equipment (2)
- Anatomy (2)
- Biochemistry, Biophysics, and Structural Biology (2)
- Cell Anatomy (2)
- Cells (2)
- Cellular and Molecular Physiology (2)
- Developmental Biology (2)
- Genetics and Genomics (2)
- Immunology and Infectious Disease (2)
- Immunopathology (2)
- Medical Biophysics (2)
- Medical Biotechnology (2)
- Medical Cell Biology (2)
- Medical Pathology (2)
- Medical Sciences (2)
- Medical Specialties (2)
- Medicine and Health Sciences (2)
- Molecular Biology (2)
- Molecular and Cellular Neuroscience (2)
- Neuroscience and Neurobiology (2)
- Other Analytical, Diagnostic and Therapeutic Techniques and Equipment (2)
- Other Life Sciences (2)
- Pathology (2)
Articles 1 - 7 of 7
Full-Text Articles in Life Sciences
Stellaris Fish Workshop Gadph And Dapi Z-Series, George Mcnamara
Stellaris Fish Workshop Gadph And Dapi Z-Series, George Mcnamara
George McNamara
Stellaris FISH workshop GADPH and DAPI Z-series at MD Anderson Cancer Center, Houston, TX.
The zip file contains raw and GPU deconvolved image data from a workshop Biosearch Technologies conducted for MDACC researchers in December 2013. Image data was acquired on a Leica DMI6000 microscope with Lumencor SOLA light engine, DAPI and Cy5 filter cubes, Hamamatsu ORCA FLASH4.0 sCMOS camera (500 ms exposure time per plane for Quasar 670).
Pixel size 100 nm XY.
Z-step size 200 nm.
32 planes (power of 2 is optimal for GPU deconvolution). With 500 ms exposure time, the Quasar 670 GADPH FISH probes images …
Geoexes - My Dos Executables - Use At Your Own Risk, George Mcnamara
Geoexes - My Dos Executables - Use At Your Own Risk, George Mcnamara
George McNamara
The downloadable ZIP file contains old Turbo Pascal programs I wrote. These ran in Microscoft DOS and in early Windows (ex. Windows 3.1) DOS shells. They may or may not work in recent (Windows 2000, XP, Vista, 7) cmd or command "shells". No warranty. Use at your own risk. I do not expect to ever program in Turbo Pascal again so if anyone wants to "take over" my old code (and adjust copyirght notices, warnings, etc), please email me. In particular, MATH.exe had 10,000 lines of pascal code in it. Another program is LUTSconv.exe which converted Fractint MAP lookup tables …
Stellaris Fishing 20131125mon Part 1 Of 2, George Mcnamara
Stellaris Fishing 20131125mon Part 1 Of 2, George Mcnamara
George McNamara
Stellaris FISH dataset using three FISH probe sets. Slides courtesy of Biosearch Technologies,
https://www.biosearchtech.com/store/product.aspx?catid=224,318,324
see http://stellarisfish.smugmug.com/ for online gallery by Biosearch.
This experiment was to evaluate the crosstalk between the Biosearch fluorophores:
Quasar 570
CAL Fluor Red 610 (CFR 610)
Quasar 670
DAPI (DNA counterstain)
Autofluorescence (green, but sometimes showing up in other channels).
and our lab's Leica DMI6000 fluorescence microscope with Leica filter sets:
DAPI
GFP (L5)
Cy3 (N3)
Texas Red (TxRed2)
Cy5 (Y5)
I also acquired green channel and red channel with exciter filters in our ASI excitation wheel:
GFP + 492 exciter
Texas Red (TxRed2) + 572 …
Stellaris Fishing 20131125mon Part 2 Of 2, George Mcnamara
Stellaris Fishing 20131125mon Part 2 Of 2, George Mcnamara
George McNamara
Stellaris FISH dataset using three FISH probe sets.
Slides courtesy of Biosearch Technologies,
https://www.biosearchtech.com/store/product.aspx?catid=224,318,324
see http://stellarisfish.smugmug.com/ for online gallery by Biosearch.
This experiment was to evaluate the crosstalk between the Biosearch fluorophores:
Quasar 570
CAL Fluor Red 610 (CFR 610)
Quasar 670
DAPI (DNA counterstain)
Autofluorescence (green, but sometimes showing up in other channels).
and our lab's Leica DMI6000 fluorescence microscope with Leica filter sets:
DAPI
GFP (L5)
Cy3 (N3)
Texas Red (TxRed2)
Cy5 (Y5)
I also acquired green channel and red channel with exciter filters in our ASI excitation wheel:
GFP + 492 exciter
Texas Red (TxRed2) + 572 …
Hamamatsu Flash4.0 Scmos Exposure Time Series, George Mcnamara
Hamamatsu Flash4.0 Scmos Exposure Time Series, George Mcnamara
George McNamara
Hamamatsu FLASH4.0 scientific cMOS camera exposure time series are pairs of images of:
1 millisecond (00,001ms series)
10 millisecond (00,010ms series)
100 millisecond (00,100ms series)
1,000 millisecond (01,000ms series)
4,000 millisecond (04,000ms series)
10,000 millisecond (10,000ms series)
I also included:
* difference images (exposure 2 minus exposure 1 plus 100 intensity values).
* a series of eleven 1 second (1,000 ms) exposure time images in a multi-plane TIFF file (different images than the pair of 1,000ms images above).
* Stack Arithmetic: Median, Average, Minimum, Maximum, of the eleven plane series (Stack Arithmetic is a MetaMorph command).
These images were acquired …
Flash4 Dark Reference Images, George Mcnamara
Flash4 Dark Reference Images, George Mcnamara
George McNamara
Hamamatsu FLASH4.0 dark reference images, acquired with 10 second exposure times, no light to camera. Camera offset (set by Hamamatsu( is ~100 (the average intensity of the first image is always ~1 intensity level higher - an odd feature, but trivial in practice for a 16-bit camera).
George McNamara, Ph.D.
Single Cells Analyst at L.J.N. Cooper Lab
University of Texas M.D. Anderson Cancer Center
Pubspectra Tattletales, George Mcnamara
Pubspectra Tattletales, George Mcnamara
George McNamara
Tattletales for Multiplex Fluorescent Reporters in Single Cells for Metabolomics
George McNamara
As of April 2013: L.J.N. Cooper & D.A. Lee Cellular Immunotherapy Lab, University of Texas M.D. Anderson Cancer Center, Houston, TX
Email: gtmcnamara@mdanderson.org, geomcnamara@earthlink.net
Tattletales is my concept for spatial multiplexing many fluorescent protein (FP) biosensors in the same live cell. For example, there are excellent FP biosensors to Ca++ ions, pH, glucose, ribose, glutamine, glutamate, ATP, redox, ROS, pyruvate, cAMP, cGMP, IP3, PI(3,4,5)P3, cell cycle indicators (Fucci2), PKA, PKC, photsphatases, caspase(s) [1, 2]. However, these are typically used one biosensor per experiment, due in part to flooding …