Life Sciences Commons^™

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 …

Differential Habitat Use By Common Watersnakes (Nerodia Sipedon), Lorin A. Neuman-Lee, Andrew M. Durso, Nicholas M. Kiriazis, Melanie J. Olds, Stephen J. Mullin

Stephen J. Mullin

Understanding intraspecific variation in habitat use is important for the management of any species. In many studies of reptiles, habitat use by juveniles is poorly understood when compared to their adult conspecifics because of capture biases and logistical constraints. We compared habitat use between sexes and age classes of Common Watersnakes (Nerodia sipedon) at a reservoir in central Illinois. Juvenile N. sipedon occurred more frequently in habitat with high canopy cover, whereas adult N. sipedon, especially reproductive females, were found exclusively in habitat with no canopy cover. Adult males used both locations equally. We emphasize the need to investigate ontogenetic …

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

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 …

Monohybrid Mendelian Segregation In An Interspecific Hybrid Population Of Tetraploid X Diploid Coffea Species- Part 2, Anil Kumar, Subbugan Ganesh, Central Coffee Research Institute

Emily Scott

Coffee possesses normal sexual propagation behaviour and exhibits various characters in a large population. The work on the extent of variation is very limited and not well understood. In this context a study was undertaken during 2008-2011 to study the monohybrid segregation pattern in F2 population of C. arabica cv. ‘Cauvery’x (C. congensis x C. canephora var. robusta) established at Coffee Research Sub Station, Chettalli, Kodagu District, Karnataka in the year 2002. The results revealed that coffee varieties grown under Indian conditions possessed dependent and independent characters. The dependent characters followed the independent assortment along with closely associated characters and …

Zebrafish: An In Vivo Model For The Study Of Human Diseases, Bibhas Kar, Sivamani Subbiah

Emily Scott

The zebrafish (Danio rerio) is a powerful model organism for the study of vertebrate biology, being well suited to both developmental and genetic analysis. More recently, the rapid progress of various zebrafish genomics infrastructure initiatives is facilitating the development of zebrafish models of human disease. Genome organization and the pathways involved into control of signal transduction appear to be highly conserved between zebrafish and humans and therefore zebrafish may be used for modeling of human diseases. This review will highlight and describe the utility of zebrafish in the study of human diseases.

The Effect Of Water Temperature On Drilling And Ingestion Rates Of The Dogwhelk Nucella Lapillus Feeding On Mytilus Edulis Mussels In The Laboratory, Luke P. Miller

Luke P. Miller

In highly seasonal intertidal habitats, changes in temperature through the year may drive substantial shifts in feeding and growth rates of organisms. For the dogwhelk Nucella lapillus, attacking and consuming Mytilus edulis mussels can take hours or days, depending on temperature. Handling time of dogwhelks feeding on mussels is therefore greatly affected by ocean temperature. I recorded attack time in the laboratory, partitioned into drilling and consumption time, for juvenile dogwhelks across a range of seawater temperatures representative of field seawater temperatures during the main growing seasons of summer and autumn. The combined length of a drilling attack and subsequent …

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 …

The Right To Freedom Of Expression And Media Reporting On Criminal Proceedings In Tanzania: Finding The Balance, Joseph Wawa Raphael Futakamba S

Joseph Wawa Raphael Futakamba s

This paper examines the impact of media reporting to crime and criminal court proceeding in Tanzania in the light of exercising the legitimate right to freedom of expression by the press, on one hand and the accused rights to presumption of innocence and fair trial on the other hand. The purpose of the discussion revolves around the effect of prejudicial crime reporting to the criminal suspects/accused and available remedies within the legal system. It also, looks upon the court practices and the law in dealing with interference with the course of justice. The paper also analyses the rights of the …

Function Of Dorsal Fins In Bamboo Shark During Steady Swimming, Anabela Maia, Cheryl A. Wilga

Anabela M Maia

To gain insight into the function of the dorsal fins in white-spotted bamboo sharks (Orectolobiformes: Hemiscyillidae) during steady swimming, data on three-dimensional kinematics and electromyographic recordings were collected. Bamboo sharks were induced to swim at 0.5 and 0.75 body lengths per second in a laminar flow tank. Displacement, lag and angles were analyzed from high-speed video images. Onset, offset, duration, duty cycle and asynchrony index were calculated from three muscle implants on each side of each dorsal fin. The dorsal fins were displaced more laterally than the undulating body. In addition, the dorsal tips had larger lateral displacement than the …

Comparative Anatomy And Dorsal Fin Muscle Activity During Turning Maneuvers In Two Shark Species, Anabela Maia, Cheryl D. Wilga

Anabela M Maia

Stability and procured instability characterize two opposing types of swimming, steady and maneuvering, respectively. Fins can be used to manipulate flow to adjust stability during swimming maneuvers either actively using muscle control or passively by structural control. The function of the dorsal fins during turning maneuvering in two shark species with different swimming modes is investigated here using musculoskeletal anatomy and muscle function. White-spotted bamboo sharks are a benthic species that inhabits complex reef habitats and thus have high requirements for maneuverability. Spiny dogfish occupy a variety of coastal and continental shelf habitats and spend relatively more time cruising in …

Variation In Leaf And Fine Stem Co2 Flux As A Function Of Plant Size: A Comparison Of Seedlings, Saplings And Trees, Kerrie M. Sendall, Peter B. Reich

Kerrie M Sendall

Rates of tissue-level function have been hypothesized to decline as trees grow older and larger, but relevant evidence to assess such changes remains limited, especially across a wide range of sizes from saplings to large trees. We measured functional traits of leaves and twigs of three cold-temperate deciduous tree species in Minnesota, USA, to assess how these vary with tree height. Individuals ranging from 0.13 to 20 m in height were sampled in both relatively open and closed canopy environments to minimize light differences as a potential driver of size-related differences in leaf and twig properties. We hypothesized that (H1) …

Characterization Of Genes Required For Preimplantation Embryo Development, Marc P. Maserati Jr

Marc P Maserati Jr

Preimplantation embryo development in the mouse is a time of rapid cellular morphological and molecular changes leading to embryo implantation for the generation of offspring. The Mager lab studies these events occuring between fertilization and implantation in order to better understand the initial events which set the stage for all future aspects of development. The result of this research impacts many scientific disciplines including in-vitro based means of embryo culture, establishment of epigenetic marks, differentiation and cellular reprogramming and can be used in translational research for the improvement of in-vitro culture techniques and develop novel therapies such as cell replacement …

Real And Perceived Damage By Wild Turkeys: A Literature Review, Scott R. Groepper, Scott E. Hygnstrom Dr, Brandon Houck, Stephen M. Vantassel

Scott R Groepper

As populations of wild turkeys (Meleagris gallopavo) have increased, the number of complaints about damage has increased. We conducted a literature review to determine real and perceived damage caused by wild turkeys in North America. Wild turkeys can cause damage to agricultural crops, such as corn (Zea mays L.), soybeans (Glycine max [L.] Merrill), wheat, and hay crops but the majority of actual damage is usually minor or caused by other wildlife, thus estimates of damage by wild turkeys often are inflated. Occasionally, wild turkeys damage specialty crops, turfgrass, or ornamental flowers that may have higher value than common agricultural …

Commensal Microbiotica - Biological Frontier And Legal Challenge, Kenneth L. Sanders Md

Kenneth L Sanders MD

Recent advances in bacteriology and medical science affirm that the commensal relationship between surface microbial flora and the human host is intricate and important. Legal theory has thus far lagged behind the impact of the medical discoveries.

Factors Influencing The Effectiveness Of Repellents In Managing Birds, Larry Clark

Larry Clark

No abstract provided.

Online Model Selection Approach Based On Unscented Kalman Filtering, René Schenkendorf, Michael Mangold

René Schenkendorf

Highly predictive mathematical models are of inestimable value in systems biology. Their application ranges from investigations of basic processes in living organisms up to model based drug design in the field of pharmacology. For the development of reliable models suitable model candidates and related model parameters have to be identified by minimising the difference between the model outcome and available measurement data. Due to the complexity of the analysed processes mathematical models capture only the essential features of interest. This approximate representation, which is usually combined with a vague knowledge of basic processes, leads in many cases to a variety …

Use Of Anecdotal Occurrence Data In Species Distribution Models: An Example Based On The White-Nosed Coati (Nasua Narica) In The American Southwest., Jennifer K. Frey, Jeremy C. Lewis, James S. Stuart, Rachel K. Guy

Jennifer K. Frey

No abstract provided.

Comparative Study Of Biological And Artificial Neural Networks, O S. Eluyode, Dr. Dipo Theophilus Akomolafe Mbcs, Mncs, Mcpn,

Dr. Dipo Theophilus Akomolafe MBCS, MNCS, MCPN,

In this research project, the features of biological and artificial neural networks were studied by reviewing the existing works of authorities in print and electronics on biological and artificial neural networks. The features were then assessed and evaluated and comparative analysis of the two networks was carried out. The metrics such as structures, layers, size and functional capabilities of neurons, learning capabilities, style of computation, processing elements, processing speed, connections, strength, information storage, information transmission, communication media selection, signal transduction and fault tolerance were used as basis for comparison. A major finding in the research showed that artificial neural networks …

Vertical Distribution Of Aedes Mosquitoes In Multiple Storey Buildings In Selangor And Kuala Lumpur, Malaysia, Chen Chee Dhang

Chen Chee Dhang

No abstract provided.

Temephos Resistance In Field Aedes (Stegomyia) Albopictus (Skuse) From Selangor, Malaysia, Chen Chee Dhang

Chen Chee Dhang

Larvae of Aedes albopictus obtained from dengue endemic areas in Selangor, Malaysia were evaluated for their susceptibility to operational dosage of temephos (1 mg/L). Larval bioassays were carried out in accordance to modified WHO standard methods. Biochemical microassay of enzymes in Ae. albopictus was conducted to detect the emergence of insecticide resistance and to define the mechanisms involved in temephos resistance. The 50% mortality lethal time (LT50) for Ae. albopictus tested against temephos ranged between 58.65 to 112.50 minutes, with resistance ratio ranging from 0.75 - 1.45. This study addressed the fluctuation of time-related susceptibility status of Ae. albopictus towards …

Contact Hypersensitivity To Oxazolone Provokes Vulvar Mechanical Hyperalgesia In Mice, Tijana Martinova, Rose Glenn-Finer, Sarah Burley, Elena Tonc, Alyssa Ashbaugh, Linnea Swanson, Randy S. Daughters, Devavani Chatterjea

Devavani Chatterjea

No abstract provided.

Effects Of Flow Restoration On Mussel Growth In A Wild And Scenic North American River, Brandon J. Sansom, Daniel J. Hornbach, Mark C. Hove, Jason S. Kilgore

Daniel J. Hornbach

No abstract provided.