Medicine and Health Sciences Commons^™

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, …

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

Video Codec Performance (Excel Spreadsheet), George Mcnamara

George McNamara

Video codec performance (Excel spreadsheet). Movie was made in 2005-2006 when I worked at City of Hope National Medical Center. VTLF refers to Video Timelapse Light Facility. Videos were outputted from MetaMorph as AVI files. Personally, I always recommend uncompressed video files fro scientific uses. I also encourage posting the original scientific data format (ex. .lsm, .zvi, .lif, .stk).

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 …

Halloween 2012 Jack O'Lanterns Trick Or Treat, George Mcnamara

George McNamara

Halloween 2012 makes trick or treating more visual and interactive than in past years.

the download is a ZIP file containing three files.

Print out the (unnumbered) image on as large and nice printer paper as possible - I used glossy 44" wide here in Miami (University of Miami, MillerSchool of Medicine, Calder Library, Biomedical Communications dept - I also made another print on "fabric", also 44" wide to take with me to an HHMI Janelia Farm conference on 'turning images into knowledge' that ends on Oct 31 - might stay up for a second conference, "GFP..." that start Nov …

Mcnamara 20120831fri-20120904tue Cosmic Ray Particles By Ccd Imaging, George Mcnamara

George McNamara

McNamara 20120831Fri-20120904Tue Cosmic Ray Particles by CCD imaging.zip contains image files in support of a Microscopy Today article - please see

http://www.microscopy-today.com/

Cosmic Ray Particles Images With Orca-Ii Erg, George Mcnamara

George McNamara

Cosmic ray particles image series acquired using a Hamamatsu ORCA-II ERG scientific grade CCD camera, cooled to -60 C. Each image is a consecutive 600 second (10 minute) exposure time with no light to the camera.

While processing the data, I discoverd that the background changed around planes 25 and 227 (see Excel file and jpeg screenshots), so I also processed only planes 025-227 (203 planes total, 2030 minutes, 33.83 hours). the CCD industry "rule of thumb" for a "typical" CCD sensor (i.e. 1/3" CCD) is that one cosmic ray particle strikes a sensor approximately every 30 seconds (assuming not …

Flatbed Scanner Report - Optical Density Dynamic Range, George Mcnamara

George McNamara

George McNamara (now at University of Miami) report for Hua Yu and Richard Jove, City of Hope National Medical Center, on optical density dynamic range of several flatbed scanners.

Introduction To Nanoscopy Nano-Talk, George Mcnamara

George McNamara

T7-1 is the designation for the LMRG Nanoscopy session at ABRF in Orlando, FL, on March 20, 2012. The PDF file here is a draft of my presentation.

May not be very helpful since (1) would probably help to know what is in my head and each slide will [hopefully] prompt me to say, and (2) 10 minute talk so I am going to push the "next slide" button after saying very little.

__________________

Publisher statement:

The T7-1 Introduction to Nanoscopy Nano Talk is copyrighted (c) George McNamara, 2012. Except for (1) screenshots from research articles (which are copyrighted by …

Pubspectra - Open Data Access Fluorescence Spectra, George Mcnamara

George McNamara

The Internet is enabling greater access to spectral imaging publications, spectral graphs, and data than that was available a generation ago. The spectral imaging systems discussed in this issue of Cytometry work because reagent and hardware spectra are reproducible, reusable, and provide input to spectral unmixing and spectral components recognition algorithms. These spectra need to be readily available in order to determine what to purchase, how to use it, and what the output means. We refer to several commercially sponsored and academic spectral web sites and discuss our spectral graphing and data sites. Sites include fluorescent dye graph servers from …

Mcnamara 2011 Feature Extraction (Image Analysis), George Mcnamara

George McNamara

Feature Extraction presentation and movies in a ZIP file from a presentation I gave at ISAC 2011 in Baltomore, Md.

Feature extraction is one phrase for image analysis.

Rogers Pmn Movie - Background Information, George Mcnamara

George McNamara

Please see

http://mdc.custhelp.com/app/answers/detail/a_id/18689/~/metamatters-newsletters

for my series of MetaMorph MetaMatters articles in volume 2, numbers 3 through 6, on the Rogers PMN Panorama data set.

http://mdc.custhelp.com/app/answers/detail/a_id/18689/~/metamatters-newsletters

Brief summary (for more, see the Word doc)

The Effect Of Load On Movement Coordination During Sled Towing, Michael Lawrence, Daniel Leib, Cara Masterson, Erin Hartigan

Daniel Leib

INTRODUCTION Towing sleds while walking is a popular resistance exercise for the healthy athlete. One reason for the popularity of sled towing is that it is widely believed to be a ‘functional’ exercise. Preliminary research suggests towing while walking can increases lower extremity moment impulses; however whether towing a sled utilizes the same coordination patterns as un-resisted walking is unknown. While altered patterns may not be as relevant to a healthy athlete, sled towing is also sometimes used in the rehabilitation of athletes who sustained a lower extremity injury (anterior cruciate ligament rupture) with the goal of regaining movement symmetry. …

Effects Of Fatigue On Golf Performance, Daniel J. Leib, Nicholas R. Higdon, W. Holmes Finch, Eric L. Dugan

Daniel Leib

No abstract provided.

Computerized Tomography Providing Definitive Diagnosis Of Colonic Lipoma: A Case Series, Osama M. Moussa Mr, Sanaa Arshad Dr, Ming Tee Dr, Aref U. Khan Mr, Chelliah R. Selvasekar Mr

Osama M Moussa Mr

Lipomas are common benign mesenchymal tumors. They can develop in virtually all organs throughout the body. Colonic lipomas are uncommon, benign, submucosal adipose tumors that are usually asymptomatic. Large lipomas can cause symptoms such as constipation, abdominal pain, rectal bleeding and intussusception. We report a case series of two colonic submucosal lipomas with different presentations, elaborating the importance of computerised tomography (CT) imaging in the diagnosis.

Mcnamara 2011 Mpmicro - Multi-Probe Microscopy (10/31/2011), George Mcnamara

George McNamara

Multi-Probe Microscopy is an ~1500 page Word document summarizing what I know and/or found interesting in light microscopy, fluorescence microscopy and digital image analysis, from 1995-2005. Very little has been updated since 2005.

A Preliminary Study Comparing The Use Of Allogenic Chondrogenic Pre-Differentiated And Undifferentiated Mesenchymal Stem Cells For The Repair Of Full Thickness Articular Cartilage Defects In Rabbits, Tunku Kamarul Zaman

Tunku Kamarul Zaman

Chondrogenic differentiated mesenchymal stem cells (CMSCs) have been shown to produce superior chondrogenic expression markers in vitro. However, the use of these cells in vivo has not been fully explored. In this study, in vivo assessment of cartilage repair potential between allogenic-derived chondrogenic pre-differentiated mesenchymal stem cells and undifferentiated MSCs (MSCs) were compared. Bilateral full thickness cartilage defects were created on the medial femoral condyles of 12 rabbits (n = 12). Rabbits were divided into two groups. In one group, the defects in the right knees were repaired using alginate encapsulated MSCs while in the second group, CMSCs were used. …

Platelet-Rich Plasma (Prp) Enhances Bone Healing In Non-United Critical-Sized Defects: A Preliminary Study Involving Rabbit Models, Tunku Kamarul Zaman

Tunku Kamarul Zaman

Introduction: The use of bone grafts in treating non- or delayed unions as the result of large bone loss is well established. However, despite good outcomes, the time to achieve complete union is still considerably long. To overcome this problem, the use of platelet-rich plasma (PRP) has been advocated albeit with varying success. To determine the true effectiveness of PRP in treating non-/delayed unions, a study was conducted using (n = 12) rabbit models. Methods and materials: Critical-sized defects measuring 2 cm created in the midshaft of the right rabbit tibias were stabilised using 2.7-mm small fragment plates. A spacer …

A Time-Efficient Method For Analyzing Bone Strain With Large Subject Pools, Daniel Leib, Eric Dugan, Henry Wang

Daniel Leib

No abstract provided.

A Preliminary Study Of The Effects Of Glucosamine Sulphate And Chondroitin Sulphate On Surgically Treated And Untreated Focal Cartilage Damage, Tunku Kamarul Zaman

Tunku Kamarul Zaman

The effects of Glucosamine Sulphate (GS) and Chondroitin Sulphate (CS) on the healing of damaged and repaired articular cartilage were investigated. This study was conducted using 18 New Zealand white rabbits as experimental models. Focal cartilage defects, surgically created in the medial femoral condyle, were either treated by means of autologous chondrocyte implantation (ACI) or left untreated as controls. Rabbits were then divided into groups which received either GS+/-CS or no pharmacotherapy. Three rabbits from each group were sacrificed at 12 and 24 weeks post-surgery. Knees dissected from rabbits were then evaluated using gross quantification of repair tissue, glycosaminoglycan (GAG) …

Effect Of Low-Dose Aspirin Or Calcium Supplementation On The Incidence Of Pre-Eclampsia Among Pregnant Women, Philadelphia University

Philadelphia University, Jordan

No abstract provided.

Perfil Dos Atendimentos Ambulatoriais Realizados Em Uma Clínica De Cirurgia Plástica No Sul Do Brasil / Outpatient Service Profile In A Plastic Surgery Clinic In Southern Brazil, Everton Fernando Alves

Everton Fernando Alves

Objetivo: Descrever o perfil dos atendimentos ambulatoriais realizados em uma clínica de cirurgia plástica no sul do Brasil. Materiais e Métodos: Foi realizado um estudo descritivo, exploratório e de caráter quantitativo com o intuito de analisar a totalidade de atendimentos ambulatoriais (consultas e cirurgias) realizadas em uma clínica privada de cirurgia plástica no período de 01 de janeiro a 31 de dezembro de 2010. Resultados: Observou-se que, das 671 (60,5%) consultas novas, apenas 205 (18,5%) cirurgias foram realizadas. Março foi o mês com mais consultas (10%) e cirurgias (11,7%). Do total de consultas novas, as reparadoras foram predominantes em 55,6% …

Identification Of 2-Aminothiazole-4-Carboxylate Derivatives Active Against Mycobacterium Tuberculosis H37rv And The B-Ketoacyl-Acp Synthase Mtfabh, Philadelphia University

Philadelphia University, Jordan

No abstract provided.

Updating The Evidence For The Role Of Corticosteroids In Severe Sepsis And Septic Shock: A Bayesian Meta-Analytic Perspective, J Moran, P Graham, Susan J. Rockliff, A Bersten

Susan J Rockliff

Current low (stress) dose corticosteroid regimens may have therapeutic advantage in severe sepsis and septic shock despite conflicting results from two landmark randomised controlled trials (RCT). We systematically reviewed the efficacy of corticosteroid therapy in severe sepsis and septic shock.

An Integrated Modeling Method For Bone Strain Analysis, Daniel Leib, Henry Wang, Eric Dugan

Daniel Leib

No abstract provided.

An Integrated Modeling Method For Tibia Strain Analysis, Daniel Leib, Henry Wang

Daniel Leib

No abstract provided.

Muscular Fatigue Increases Ground Reaction Loading Rate During Walking, Henry Wang, Jeff Frame, Elicia Ozimek, Cara Reedstrom, Daniel Leib, Eric Dugan

Daniel Leib

No abstract provided.

Human Amnion As A Novel Cell Delivery Vehicle For Chondrogenic Mesenchymal Stem Cells, Tunku Kamarul Zaman

Tunku Kamarul Zaman

This study investigates the feasibility of processed human amnion (HAM) as a substrate for chondrogenic differentiation of mesenchymal stem cells (MSCs). HAM preparations processed by air drying (AD) and freeze drying (FD) underwent histological examination and MSC seeding in chondrogenic medium for 15 days. Monolayer cultures were used as control for chondrogenic differentiation and HAMs without cell seeding were used as negative control. Qualitative observations were made using scanning electron microscopy analysis and quantitative analyses were based on the sulfated glycosaminoglycans (GAG) assays performed on day 1 and day 15. Histological examination of HAM substrates before seeding revealed a smooth …

Addding Value To Increase The Hospital Library Profile: A Staff Publications Alerting Service, Roni Wayne, Susan J. Rockliff

Susan J Rockliff

Easy to set up and administer, a new service by The Queen Elizabeth Hospital Library alerts hospital staff to its collective publishing output. Along with boosting the Library's visibility, it would also seem to be fostering organisational pride.