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2014

Articles 1 - 8 of 8

Full-Text Articles in Biology

Us Epa Expert Workshop: Nutrient Enrichment Indicators In Streams, Michelle A. Baker, Candice Bauer, Max Bothwell, Don Charles, Betty Fetscher, Stuart Findlay, Terry Fleming, Steve Francoeur, Evelyn Gaiser, Jim Hagy, Anne Hershey, Lisa Huff, Ryan King, Tina Laidlaw, Mark Munn, Greg Pond, Steven Rier, Bob Sinsabaugh, A J. Smith, Nathan Smucker, Jan Stevenson, Mike Suplee Sep 2014

Us Epa Expert Workshop: Nutrient Enrichment Indicators In Streams, Michelle A. Baker, Candice Bauer, Max Bothwell, Don Charles, Betty Fetscher, Stuart Findlay, Terry Fleming, Steve Francoeur, Evelyn Gaiser, Jim Hagy, Anne Hershey, Lisa Huff, Ryan King, Tina Laidlaw, Mark Munn, Greg Pond, Steven Rier, Bob Sinsabaugh, A J. Smith, Nathan Smucker, Jan Stevenson, Mike Suplee

Biology Faculty Publications

No abstract provided.

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Timelapse Data - Gm Imaging Cytometer Needs Stitching Part 1 Of 2, George Mcnamara Jul 2014

Timelapse Data - Gm Imaging Cytometer Needs Stitching Part 1 Of 2, George Mcnamara

George McNamara

Timelapse data - GM imaging cytometer needs stitching part 1 of 2

Imaging challenge: align multiple time series over time to overcome "stage slop" in the imaging cytometer used in this experiment.

http://works.bepress.com/gmcnamara/53 (this)

and

http://works.bepress.com/gmcnamara/54 (next)

are zip files containing 8-bit stacks (MetaMorph multiplane TIFF files) acquired on an imaging cytometer.

"53" is the brightfield data, raw and automatic aligned stacks in MetaMorph (Apps menu, MM7.8.6).

"54" is GFP fluorescence, raw and automatic aligned stacks in MetaMorph (Apps menu, MM7.8.6). The GFP fluorescence decreases over time due to photobleaching. GFP disappears from cells when they die (soluble GFP diffusing …

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Timelapse Data - Gm Imaging Cytometer Needs Stitching Part 2 Of 2, George Mcnamara Jul 2014

Timelapse Data - Gm Imaging Cytometer Needs Stitching Part 2 Of 2, George Mcnamara

George McNamara

Timelapse data - GM imaging cytometer needs stitching part 2 of 2

Imaging challenge: align multiple time series over time to overcome "stage slop" in the imaging cytometer used in this experiment.

http://works.bepress.com/gmcnamara/53 (previous) and http://works.bepress.com/gmcnamara/54 (this)

are zip files containing 8-bit stacks (MetaMorph multiplane TIFF files) acquired on an imaging cytometer.

"53" is the brightfield data, raw and automatic aligned stacks in MetaMorph (Apps menu, MM7.8.6). "54" is GFP fluorescence, raw and automatic aligned stacks in MetaMorph (Apps menu, MM7.8.6). The GFP fluorescence decreases over time due to photobleaching. GFP disappears from cells when they die (soluble GFP diffusing …

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Pathscan Enabler At Md Anderson Cancer Center, George Mcnamara Jul 2014

Pathscan Enabler At Md Anderson Cancer Center, George Mcnamara

George McNamara

McNamara 20140703 - Additional Pathscan and Tiki_Goddess related resources

http://works.bepress.com/gmcnamara/52

http://home.earthlink.net/~tiki_goddess/

http://works.bepress.com/gmcnamara/1/

http://works.bepress.com/gmcnamara/11/

https://www.linkedin.com/in/georgemcnamara

Our Pathscan Enabler IV, delivered July 2014, uses the QuickScan software to scan a histology slide in "two clicks" (after loading the

slide):

1. Push the QuickScan button on the front of the Pathscan Enabler.

2. Click the Scan button in the QuickScan pop-up application (optional: change scan area in the Prescan image window).

The image gets saved as a TIFF file to the Windows 7 (64-bit) desktop.

I have been using Pathscan Enabler's since version I in 2000. See Chantrain et al 2003:

Chantrain CF, …

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Pubspectra To Do Data, George Mcnamara May 2014

Pubspectra To Do Data, George Mcnamara

George McNamara

PubSpectra raw data that I had in my "to do" folder to add to the PubSpectra data set but never did.

PubSpectra has over 2000 spectra in it (last updated 2006) in Excel "big file" format - the XLSX file inside the zip file at

http://works.bepress.com/gmcnamara/9/

Anyone is welcome to add and organize new data yourselves. I used Un-Scan-It from Silk Scientific (www.silkscientific.com).

More importantly, I strongly adopting my PubSpectra format of 1 nm wavelength intervals, with the row number corresponding to nm. For example, 400 nm data appears in row 400.

Much of Urse Utzinger's "Spectra Arizona" data,

http://www.spectra.arizona.edu/ …

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Jibin Zhang's Ppt For Midwest Meeting.Pdf, Jibin Zhang, Yeunsu Suh, Young Min Choi, Michael E. Davis, Kichoon Lee Mar 2014

Jibin Zhang's Ppt For Midwest Meeting.Pdf, Jibin Zhang, Yeunsu Suh, Young Min Choi, Michael E. Davis, Kichoon Lee

Jibin Zhang

Increasing numbers of fat cells in adipose tissue are attributed to proliferation of preadipocytes or immature adipocytes in the early stages as well as adipogenic differentiation in the later stages of adipogenesis. Although both events are involved in the increase in fat cell numbers, they are contrary to each other in that the former requires cell cycle activity whereas the latter requires cell cycle withdrawal. Therefore, appropriate regulation of cell cycle inhibition is critical to adipogenesis.
To explore the important cell cycle inhibitors and study their expression in adipogenesis, a strategy was adopted that combined the Gene Expression Omnibus (GEO) …

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P-19 Hcnabc Operon Transcription Of Pseudomonas Putida Under Varying Iron And Oxygen Concentrations And Culture Age, Christine Lee Mar 2014

P-19 Hcnabc Operon Transcription Of Pseudomonas Putida Under Varying Iron And Oxygen Concentrations And Culture Age, Christine Lee

Honors Scholars & Undergraduate Research Poster Symposium Programs

The species Pseudomonas putida produces hydrogen cyanide (HCN) through the transcription of the hcnABC operon. The purpose of this experiment is to determine how the hcnABC operon is affected by varying levels of iron and oxygen, and age of bacteria culture. To test this, P. putida is grown under five conditions: the presence of iron, the absence of iron, with aeration, without aeration, and without iron and aeration. At 8, 18, and 30 hours, the cultures are assessed for HCN production and cell density. HCN production is measured via bioluminescence; light emission occurs whenever HCN is produced because the modified …

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Time Series Data For 3b Image Processing, George Mcnamara Jan 2014

Time Series Data For 3b Image Processing, George Mcnamara

George McNamara

Time series data for 3B image processing

Four time series data sets of Stellaris single molecules RNA FISH (fluorescence in situ hybridization). All four datasets are 301 imaqe planes. FISH probes are to TOP1 mRNA (Topoisomerase I)in Saos osterosarcoma cells.

One dataset is 10 millisecond exposures (very dim), acquired in Streaming acquisition mode (no hardware overhead).

The other three datasets are a three consecutive planes of the same XY field of view.

I have included image processing results for:

PiMP - a fast method developed by Sebastian Munck et al 2012, http://www.ncbi.nlm.nih.gov/pubmed/?term=22357945

and greatly improved performance by Glen Macdonald (Seattle). …

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