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Two Modifications, One Protein: The Multiple Roles The Histone Acetyltransferase, Pcaf, Plays In Post Translational Modifications., Ronald Shanderson 2014 Georgia State University

Two Modifications, One Protein: The Multiple Roles The Histone Acetyltransferase, Pcaf, Plays In Post Translational Modifications., Ronald Shanderson

Georgia State Undergraduate Research Conference

No abstract provided.


Investigating Mitochondrial Protein Trafficking In Crithidia Fasciculata, Jeremiah Arnold 2014 Georgia State University

Investigating Mitochondrial Protein Trafficking In Crithidia Fasciculata, Jeremiah Arnold

Georgia State Undergraduate Research Conference

No abstract provided.


L-Carnitine Supplementation: A Potential Treatment For Cancer Cachexia, Aaron Kwong, Obaidullah Khan, Katrina Fleming, Sina Moshiri, Muhammad Hashmi 2014 McMaster University

L-Carnitine Supplementation: A Potential Treatment For Cancer Cachexia, Aaron Kwong, Obaidullah Khan, Katrina Fleming, Sina Moshiri, Muhammad Hashmi

The Meducator

Cachexia is a paraneoplastic syndrome that exhibits rampant muscle wasting, unintentional weight loss, fatigue, weakness, and overall loss of appetite, none of which can be abated by an increase in caloric intake. Metabolic derailment by cachexia is so severe in cancer patients that it can shorten lifetime expectancy and lead to death before the course of treatment is finished. Etiology may involve proinflammatory cytokines, but the abnormal loss of muscle, protein, and fat suggests an underlying metabolic dysfunction that contributes to cachexia. Previous research has shown reduction of L-carnitine in cachectic patients and chemotherapy-induced damage to the L-carnitine transport system ...


The Roles Of Hedgehog And Ap-2 Signaling In The Regulation Of Lens Development, Christine L. Kerr 2014 McMaster University

The Roles Of Hedgehog And Ap-2 Signaling In The Regulation Of Lens Development, Christine L. Kerr

Open Access Dissertations and Theses

Lens development is an intricate process governed by growth factor signaling and a hierarchy of transcription factors that regulate important processes required for normal lens development.

Midline hedgehog (Hh) signaling has been implicated in lens defects including cyclopia and lens degeneration in rodents and fish. A lens specific model of hedgehog signaling has not been examined, and it was unknown whether the lens is able to respond to Hh signals. To investigate this question, and to determine any consequences of abnormal Hh signaling on lens development, a mouse model of constitutively active smoothened in the surface ectoderm and derivatives, (including ...


More Fish (4 Of 4), George McNamara 2014 The University of Texas

More Fish (4 Of 4), George Mcnamara

George McNamara

More Stellaris FISH and GPU Deconvolution, 20140313Thur - part 4 of 4

Please see other content in the FISH Imaging section of

http://works.bepress.com/gmcnamara/subject_areas.html

for details on the microscope. Briefly: Leica DMI6000 inverted microscope, SOLA lamp, Hamamatsu FLASH4.0 sCMOS camera, 100 nm XY, 200 nm Z pixels, 32 planes (16 um Z), MetaMorph 7.8 acquisition software.

Four zip files:

http://works.bepress.com/gmcnamara/43

http://works.bepress.com/gmcnamara/44

http://works.bepress.com/gmcnamara/45

http://works.bepress.com/gmcnamara/46

with two dataset (001, 002), raw and deconvolved using Bruce & Butte ...


Cell Morphometry, George McNamara 2014 The University of Texas

Cell Morphometry, George Mcnamara

George McNamara

Cell Morphometry ZIP content by George McNamara

http://works.bepress.com/gmcnamara/41

Robert Murphy's TypIC (typical cell Chooser,

http://murphylab.web.cmu.edu/services/TypIC/

now superseded by PSLID and SLIF

http://murphylab.web.cmu.edu/services/ ), was a "game changer" for me with respect to cell shape analysis. Rather than trying to compute the average of (say) a triangle and a pentagon ... which might result in a square, or a rectange, or some bizarre quadrilateral ... R.M. advocated using the median. OK, in a 2 member dataset this would result in averaging the two shapes (if use ...


Tattletales And T-Bow Update 20140313thur, George McNamara 2014 The University of Texas

Tattletales And T-Bow Update 20140313thur, George Mcnamara

George McNamara

George McNamara 20140313Thur

http://works.bepress.com/gmcnamara/42

Tattletales and T-Bow Update

Please see also http://works.bepress.com/gmcnamara/16

Tattletales: multiplex fluorescent protein biosensors by spatial localization with TALE-FPs, Cas9-FPs, ZF-FPs, LacI-FPs, TetR-FPs, etc.

T-Bow: Rainbow T-cells and Tumor cells (and ES cells, iPS cells, other cells and organisms). You can think of this as "Brainbow meets TALENs/Cas9/ZFNs/other DNA sequence specific binding proteins".

If not familiar with Brainbow, see

http://en.wikipedia.org/wiki/Brainbow

If not familiar with TALENs, Cas9, etc, see

http://www.addgene.org/genome_engineering/

Big idea: localizing fluorescent proteins - and ...


More Fish (2 Of 4), George McNamara 2014 The University of Texas

More Fish (2 Of 4), George Mcnamara

George McNamara

More Stellaris FISH and GPU Deconvolution, 20140313Thur - part 2 of 4

Please see other content in the FISH Imaging section of

http://works.bepress.com/gmcnamara/subject_areas.html

for details on the microscope. Briefly: Leica DMI6000 inverted microscope, SOLA lamp, Hamamatsu FLASH4.0 sCMOS camera, 100 nm XY, 200 nm Z pixels, 32 planes (16 um Z), MetaMorph 7.8 acquisition software.

Four zip files:

http://works.bepress.com/gmcnamara/43

http://works.bepress.com/gmcnamara/44

http://works.bepress.com/gmcnamara/45

http://works.bepress.com/gmcnamara/46

with two dataset (001, 002), raw and deconvolved using Bruce & Butte ...


More Fish (1 Of 4), George McNamara 2014 The University of Texas

More Fish (1 Of 4), George Mcnamara

George McNamara

More Stellaris FRISH and GPU Deconvolution, 20140313Thur - part 1 of 4

Please see other content in the FISH Imaging section of

http://works.bepress.com/gmcnamara/subject_areas.html

for details on the microscope. Briefly: Leica DMI6000 inverted microscope, SOLA lamp, Hamamatsu FLASH4.0 sCMOS camera, 100 nm XY, 200 nm Z pixels, 32 planes (16 um Z), MetaMorph 7.8 acquisition software.

Four zip files:

http://works.bepress.com/gmcnamara/43

http://works.bepress.com/gmcnamara/44

http://works.bepress.com/gmcnamara/45

http://works.bepress.com/gmcnamara/46

with two dataset (001, 002), raw and deconvolved using Bruce & Butte ...


More Fish (3 Of 4), George McNamara 2014 The University of Texas

More Fish (3 Of 4), George Mcnamara

George McNamara

More Stellaris FISH and GPU Deconvolution, 20140313Thur - part 3 of 4

Please see other content in the FISH Imaging section of

http://works.bepress.com/gmcnamara/subject_areas.html

for details on the microscope. Briefly: Leica DMI6000 inverted microscope, SOLA lamp, Hamamatsu FLASH4.0 sCMOS camera, 100 nm XY, 200 nm Z pixels, 32 planes (16 um Z), MetaMorph 7.8 acquisition software.

Four zip files:

http://works.bepress.com/gmcnamara/43

http://works.bepress.com/gmcnamara/44

http://works.bepress.com/gmcnamara/45

http://works.bepress.com/gmcnamara/46

with two dataset (001, 002), raw and deconvolved using Bruce & Butte ...


A Kras-Directed Transcriptional Silencing Pathway That Mediates The Cpg Island Methylator Phenotype, Ryan W. Serra, Minggang Fang, Sung Mi Park, Lloyd Hutchinson, Michael R. Green 2014 University of Massachusetts Medical School

A Kras-Directed Transcriptional Silencing Pathway That Mediates The Cpg Island Methylator Phenotype, Ryan W. Serra, Minggang Fang, Sung Mi Park, Lloyd Hutchinson, Michael R. Green

Program in Molecular Medicine Publications and Presentations

Approximately 70% of KRAS-positive colorectal cancers (CRCs) have a CpG island methylator phenotype (CIMP) characterized by aberrant DNA hypermethylation and transcriptional silencing of many genes. The factors involved in, and the mechanistic basis of, CIMP is not understood. Among the CIMP genes are the tumor suppressors p14(ARF), p15(INK4B), and p16(INK4A), encoded by the INK4-ARF locus. In this study, we perform an RNA interference screen and identify ZNF304, a zinc-finger DNA-binding protein, as the pivotal factor required for INK4-ARF silencing and CIMP in CRCs containing activated KRAS. In KRAS-positive human CRC cell lines and tumors, ZNF304 is bound ...


Endocytosis And Vacuolar Degradation Of The Yeast Cell Surface Glucose Sensors Rgt2 And Snf3, Adhiraj Roy, Jeong-Ho Kim 2014 Himmelfarb Health Sciences Library, The George Washington University

Endocytosis And Vacuolar Degradation Of The Yeast Cell Surface Glucose Sensors Rgt2 And Snf3, Adhiraj Roy, Jeong-Ho Kim

Biochemistry and Molecular Medicine Faculty Publications

Sensing and signaling the presence of extracellular glucose is crucial for the yeast Saccharomyces cerevisiae because of its fermentative metabolism, characterized by high glucose flux through glycolysis. The yeast senses glucose through the cell surface glucose sensors Rgt2 and Snf3, which serve as glucose receptors that generate the signal for induction of genes involved in glucose uptake and metabolism. Rgt2 and Snf3 detect high and low glucose concentrations, respectively, perhaps due to their different affinities for glucose. Here, we provide evidence that cell surface levels of glucose sensors are regulated by ubiquitination and degradation. The glucose sensors are removed from ...


Characterization Of The Visceral Endoderm Components In Early Post-Implantation Mouse Embryo Development: A Dissertation, Tingting Huang 2014 University of Massachusetts Medical School

Characterization Of The Visceral Endoderm Components In Early Post-Implantation Mouse Embryo Development: A Dissertation, Tingting Huang

GSBS Dissertations and Theses

Early post-implantation vertebrate embryos are shaped by complex cellular and molecular mechanisms. In mice, the visceral endoderm, an extraembryonic cell lineage that appears before gastrulation, provides several important functions such as nutrition and mechanical protection. My thesis research focused on the role of the visceral endoderm in embryo patterning, a newly discovered function for this tissue. My results showed that an interplay between two subpopulations of visceral endoderm the anterior and posterior visceral endoderm, located on the opposite sides of the developing conceptus, are critical for the establishment of the anteroposterior body axis of the embryo. I also found that ...


Arf4 Is Required For Mammalian Development But Dispensable For Ciliary Assembly, John A. Follit, Jovenal T. San Agustin, Julie A. Jonassen, Tingting Huang, Jaime A. Rivera-Perez, Kimberly D. Tremblay, Gregory J. Pazour 2014 University of Massachusetts Medical School

Arf4 Is Required For Mammalian Development But Dispensable For Ciliary Assembly, John A. Follit, Jovenal T. San Agustin, Julie A. Jonassen, Tingting Huang, Jaime A. Rivera-Perez, Kimberly D. Tremblay, Gregory J. Pazour

GSBS Student Publications

The primary cilium is a sensory organelle, defects in which cause a wide range of human diseases including retinal degeneration, polycystic kidney disease and birth defects. The sensory functions of cilia require specific receptors to be targeted to the ciliary subdomain of the plasma membrane. Arf4 has been proposed to sort cargo destined for the cilium at the Golgi complex and deemed a key regulator of ciliary protein trafficking. In this work, we show that Arf4 binds to the ciliary targeting sequence (CTS) of fibrocystin. Knockdown of Arf4 indicates that it is not absolutely required for trafficking of the fibrocystin ...


3b Project Data - Raw Tiff Series And Cropped Series, George McNamara 2014 The University of Texas

3b Project Data - Raw Tiff Series And Cropped Series, George Mcnamara

George McNamara

Fluorescence microscopy data acquired for 3B Bayesian localization microscopy.

Settings: 100 nm XY pixel size. 50 millisecond exposures, MetaMorph stream acquisition mode (as fast as possible). Stellaris FISH mammalian cells labeled with Quasar 670 fluorophores, one molecule per 20mer FISH probe, ~48 probes to TOP1 mRNA (Topoisomerase 1).

More on the 3B project and Stellaris FISH data at http://works.bepress.com/gmcnamara/38/

and at Susan Cox's web sites http://www.coxphysics.com/3b/ http://superresolved.com/


Smurf2 Regulates Hematopoietic Stem Cell Self-Renewal And Aging, Charusheila Ramkumar, Yahui Kong, Sally E. Trabucco, Rachel M. Gerstein, Hong Zhang 2014 University of Massachusetts Medical School

Smurf2 Regulates Hematopoietic Stem Cell Self-Renewal And Aging, Charusheila Ramkumar, Yahui Kong, Sally E. Trabucco, Rachel M. Gerstein, Hong Zhang

GSBS Student Publications

The age-dependent decline in the self-renewal capacity of stem cells plays a critical role in aging, but the precise mechanisms underlying this decline are not well understood. By limiting proliferative capacity, senescence is thought to play an important role in age-dependent decline of stem cell self-renewal, although direct evidence supporting this hypothesis is largely lacking. We have previously identified the E3 ubiquitin ligase Smurf2 as a critical regulator of senescence. In this study, we found that mice deficient in Smurf2 had an expanded hematopoietic stem cell (HSC) compartment in bone marrow under normal homeostatic conditions, and this expansion was associated ...


Blockade Of Mast Cell Activation Reduces Cutaneous Scar Formation, Lin Chen, Megan Schrementi, Matthew J. Ranzer, Traci A. Wilgus, Luisa A. DiPietro 2014 Illinois Mathematics and Science Academy

Blockade Of Mast Cell Activation Reduces Cutaneous Scar Formation, Lin Chen, Megan Schrementi, Matthew J. Ranzer, Traci A. Wilgus, Luisa A. Dipietro

Faculty Publications & Research

Damage to the skin initiates a cascade of well-orchestrated events that ultimately leads to repair of the wound. The inflammatory response is key to wound healing both through preventing infection and stimulating proliferation and remodeling of the skin. Mast cells within the tissue are one of the first immune cells to respond to trauma, and upon activation they release pro-inflammatory molecules to initiate recruitment of leukocytes and promote a vascular response in the tissue. Additionally, mast cells stimulate collagen synthesis by dermal fibroblasts, suggesting they may also influence scar formation. To examine the contribution of mast cells in tissue repair ...


Transcription Factor Binding To Caenorhabditis Elegans First Introns Reveals Lack Of Redundancy With Gene Promoters, Juan I. Fuxman Bass, Alex M. Tamburino, Akihiro Mori, Nathan Beittel, Matthew T. Weirauch, John S. Reece-Hoyes, Albertha J. M. Walhout 2014 University of Massachusetts Medical School

Transcription Factor Binding To Caenorhabditis Elegans First Introns Reveals Lack Of Redundancy With Gene Promoters, Juan I. Fuxman Bass, Alex M. Tamburino, Akihiro Mori, Nathan Beittel, Matthew T. Weirauch, John S. Reece-Hoyes, Albertha J. M. Walhout

Program in Systems Biology Publications and Presentations

Gene expression is controlled through the binding of transcription factors (TFs) to regulatory genomic regions. First introns are longer than other introns in multiple eukaryotic species and are under selective constraint. Here we explore the importance of first introns in TF binding in the nematode Caenorhabditis elegans by combining computational predictions and experimentally derived TF-DNA interaction data. We found that first introns of C. elegans genes, particularly those for families enriched in long first introns, are more conserved in length, have more conserved predicted TF interactions and are bound by more TFs than other introns. We detected a significant positive ...


Blood Vessel Z-Series Image Data Set From Confocal Microscopy 2013 Book, George McNamara 2014 The University of Texas

Blood Vessel Z-Series Image Data Set From Confocal Microscopy 2013 Book, George Mcnamara

George McNamara

Blood Vessel Z-series image data set from Confocal Microscopy 2013 book chapter:

McNamara G, Yanai A, Khankaldyyan V, Laug WE, Boden J, Webster K, Li Y, Wen R. Low magnification confocal microscopy of tumor angiogenesis. Methods Mol Biol. 2014; 1075: 149-75.

doi: 10.1007/978-1-60761-847-8_6. PubMed PMID: 24052350.

See also:

Jeffrey Boden, Jianqin Wei, George McNamara, Hans Layman, Midhat Abdulreda, Fotios Andreopoulos, and Keith A. Webster. Whole-mount imaging of the mouse hindlimb vasculature using the lipophilic carbocyanine dye DiI. Biotechniques Rapid Dispatches, July 2012, pp. 1–4

http://www.biotechniques.com/rapiddispatches/Whole-mount-imaging-of-the-mouse-hindlimb-vasculature-using-the-lipophilic-carbocyanine-dye-DiI./biotechniques-333144.html

Supplemental file:

http://www.biotechniques ...


Calpain 5: A Non-Classical Calpain Highly Expressed In The Cns And Localized To Mitochondria And Nuclear Pml Bodies, Ranjana Singh 2014 University of Kentucky

Calpain 5: A Non-Classical Calpain Highly Expressed In The Cns And Localized To Mitochondria And Nuclear Pml Bodies, Ranjana Singh

Theses and Dissertations--Anatomy and Neurobiology

Calpain 5 (CAPN5) is a non-classical member of the calpain family. It lacks the EF-hand motif characteristic of the classical calpains, calpain 1 and 2, but retains catalytic and Ca2+ binding non EF domains. Tra-3, an ortholog of CAPN5, is involved in necrotic cell death in C.elegans; although specific role of CAPN5 has not been investigated in the mammalian CNS. I compared relative mRNA levels of calpains in rat CNS, which revealed that CAPN5 is the second most highly expressed calpain. We examined relative levels of CAPN5 from late embryonic day 18 to postnatal day 90 and found ...


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