Life Sciences Commons^™

Transforming Growth Factor Betas Induce Mmp-2 And Mmp-9 Secretion Via Smad-Dependent Signaling In Human Endometrial And Endometriotic Cells, Ezekiel O. Mecha, Cong Sui, Charles O.A . Omwandho, Hans-Rudolf Tinneberg, Lutz Konrad

Innovative Research Publications IRP India

Transforming growth factor-betas (TGF-βs) are elevated during menstruation and are involved in endometriosis. Similarly, matrix metalloproteinases like MMP-2 are also highly expressed in patients with endometriosis. Expression of gelatinases, MMP-2 and MMP-9, is increased by TGF-βs. TGF- βs bind and activate receptor-mediated Smad proteins to mediate gene expression, however, also non-Smad signaling pathways participate in signal transduction of the TGF-βs. In this study, we found that of MMP-2 and MMP-9 is higher in stromal cells especially in endometriotic cells compared to epithelial cells. Treatment of endometrial and endometriotic stromal and epithelial cells with TGF-β1 or TGF-β2 decreased cell numbers, induced …

Mcnamara 201412 Nih Scap Innocentive Challenge Solution - T-Bow Rainbow T-Cells And Tumor Cells Spatial Multiplexing Gene Expression Reporter System – Plus Supplement Plus Posters - 20151027 - Please Download "75" Instead, George Mcnamara

George McNamara

McNamara 201412 NIH SCAP InnoCentive Challenge Solution - T-Bow Rainbow T-cells and Tumor Cells Spatial Multiplexing Gene Expression Reporter System – plus supplement plus posters - 20151027.

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Please download the current 20151027 (October 27, 2015) Tattletales and T-Bow update from

http://works.bepress.com/gmcnamara/75/

The bepress web site is not letting me replace the old pdf here at "65" with the additional 10 pages update.

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The download is my/Cooper lab solution (submission) to the 2014 NIH Single Cell Analysis Program (SCAP) InnoCentive Challenge, "Follow That Cell". I submitted the Solution on 20141215Mon (with 20 minutes to spare). The Challenge web page …

Tattletales And T-Bow Update 20151027tue, George Mcnamara

George McNamara

20151027Tue this "75"

http://works.bepress.com/gmcnamara/75

is my update of "65" posting

See text at

http://works.bepress.com/gmcnamara/65/

for text summary. The PDf here in "75" supersedes "65".

The PDF here has 10 pages added to the end from the "65" version (pages 40-49 of PDF when including the bepress cover page)..

here is the text in my cover page (bepress may add its own cover):

20151027Tue: added 10 page e-poster at bottom explaining Binary Tattletales and T-Bow. That is, binary with respect to protein components. For one color (number of repeats, epitope tags, FPs are examples, here rounded to convenient numbers):

1. 100 …

Isotopic Discrimination In The Double-Crested Cormorant (Phalacrocorax Auritus), Elizabeth C. Craig, Brian S. Dorr, Katie C. Hanson-Dorr, Jed P. Sparks, Paul D. Curtis

Brian S Dorr

The diet-tissue discrimination factor is the amount by which a consumer’s tissue varies isotopically from its diet, and is therefore a key element in models that use stable isotopes to estimate diet composition. In this study we measured discrimination factors in blood (whole blood, red blood cells and plasma), liver, muscle and feathers of Double- crested Cormorants (Phalacrocorax auritus) for stable isotope ratios of carbon, nitrogen and sulfur. Cormorants exhibited discrimination factors that differed significantly among tissue types (for carbon and nitrogen), and differed substantially (in the context of the isotopic variation among relevant prey species) from those observed in …

Evaluation Of Effective Operational Cycle Time And Bioprocess Parameters In A Sequential Batch Reactor For Efficient Organic And Nutrient Removal From Domestic Sewage, Sandip S. Magdum, Siva Kumar Varigala, Yogesh N. Patil, Gauri P. Minde, Janardhan B. Bornare, V. Kalyanraman

Sandip S. Magdum

Anaerobic, anoxic and aerobic environment can be simulated in the single stage sequential batch reactor (SBR) . Various design conditions viz., combinations of different phase time and different cycle time, hydraulic residence time (HRT), substrate loading rate, sludge age (SRT) and aeration time were analyzed for optimum biological treatment. The pilot runs were evaluated with the design conditions of food/microbe ratio (F/M) 0.2 per day and MLSS of 4950 mg/L. For the given design conditions 4, 5 and 6 hours cycle lengths were analyzed for their efficient performance with 30-33% of decant volume for sewage containing C:N:P of 100:8:2. Studies …

A Study On Garments Dyeing With Direct Dyes And Pigments In Bangladesh, Tanushree Saha, Rasheda Begum Dina

Innovative Research Publications IRP India

Garment dyeing has been practiced for many years, both commercially and as a home procedure. Recently, interest in this technique has increased since it makes possible to give rapidest response to consumer demand, reduces lead times and inventory. To establish a profitable garment dyeing plant, all manufacturing steps must be carefully controlled. In this paper, we have tried to give an idea about the process of using different types of dyes in garments dyeing and their fastness properties.

Methods Of Detecting Target Nucleic Acids, Amyi Austin

amyi austin

This paper talks about the methods of measuring target nucleic acids,which includes 5 sections:1.abstract, 2.what to claim,3.background, 4. summary, 5.note

Argument Map: Loewi's Argument That Neuro-Transmission Works With Chemical Signals Instead Of Eletrical (Short Version), Michael Hoffmann

Michael H.G. Hoffmann

This argument shows how the hypothesis that muscles are probably stimulated exclusively by chemical signals and not by electrical ones can be justified by Loewi's experimentum crucis.

The Complexity Of Molecular Interactions And Bindings Between Cyclic Peptide And Inhibit Polymerase A And B1 (Pac-Pb1n) H1n1, Arli A. Parikesit, Harry Noviardi Hn, Djati Kerami Dk, Usman Sumo Friend Tambunan Usft

Arli A Parikesit

The influenza/H1N1 virus has caused hazard in the public health of many countries. Hence, existing influenza drugs could not cope with H1N1 infection due to the high mutation rate of the virus. In this respect, new method to block the virus was devised. The polymerase pac-pb1n enzyme is responsible for the replication of H1N1 virus. Thus, novel inhibitors were developed to ward off the functionality of the enzyme. In this research, cyclic peptides has been chosen to inhibit PAc-PB1n due to its proven stability in reaching the drug target. Thus, computational method for elucidating the molecular interaction between cyclic peptides …

The In Silico Molecular Interaction Of Organoboron Compounds As Curative Measure Toward Cervical Cancer, Ridla Bakri Rb, Arli A. Parikesit, Cipta Prio Satryanto Cps, Djati Kerami Dk, Usman Sumo Friend Tambunan Usft

Arli A Parikesit

No abstract provided.

Argument Map: Devoloping Scientific Hypotheses And Experimental Designs In Form Of An Argumentation. Loewi's Crucial Experiment On Chemical Neurotransmission, Michael Hoffmann

Michael H.G. Hoffmann

This argument map presents Paul Loewi’s crucial experiment in which he showed that neural transmissions of signals are chemical in nature, not electrical, in form of an argumentation. The map can be used in science education to show how the formulation of hypotheses should be related to a corresponding determination of experimental designs.

Experimental Demonstration Of Bindingless Signal Delivery In Human Cells Via Microfluidics, Fang-Tzu Chuang

Fang-Tzu Chuang

The cellular signal transduction is commonly believed to rely on the direct “contact” or “binding” of the participating molecule reaction that depends positively on the corresponding molecule concentrations. In living systems, however, it is somewhat difficult to precisely match the corresponding rapid “binding,” depending on the probability of molecular collision, existing in the cellular receptor-ligand interactions. Thus, a question arises that if there is another mechanism (i.e., bindingless) that could promote this signal communication. According to this hypothesis, we report a cellular model based on the examination of intracellular calcium concentration to explore whether the unidentified signal delivery in cells …

Biokimia Dan Teknologi Farmasi: Desain Obat Dan Vaksin Dengan Pendekatan Biomedis Molekular, Usman Sumo Friend Tambunan Usft, Arli A. Parikesit Aap

Arli A Parikesit

No abstract provided.

Modelling And Optimal Control Of A Time-Delayed Switched System In Fed-Batch Process, Chongyang Liu, Zhaohua Gong

Chongyang Liu

The main control goal of the fed-batch process is to maximize the yield of target product as well as to minimize the operation costs simultaneously. Considering the existence of time delay and the switching nature in the fed-batch process, a time-delayed switched system is proposed to formulate the 1,3-propanediol (1,3-PD) production process. Some important properties of the system are also discussed. Taking the switching instants and the terminal time as the control variables, a free terminal time delayed optimal control problem is then presented. Using a time-scaling transformation and parameterizing the switching instants into new parameters, an equivalently optimal control …

Agricultural Geo-Engineering; Past, Present & Future, Erich J. Knight Mr.

Erich J Knight Mr.

Historic hall marks of GHG emissions are reviewed, providing repeated demonstration of anthropogenic land use changes on climate forcing.

New Astrophysical and Paleoclimate concordance with extinction events demonstrating climate adaptation by prehistoric man.

A review of new research concerning Soil Carbon, Carboniferous Aerosols, extent of Pyrolytic-Carbon fraction in soil and the first survey of the extensive deep soil carbon sink.

How thermal conversion technologies can integrate and optimize the recycling of valuable nutrients while providing energy and building soil carbon.

New discoveries from the Advanced Spectrometry & Meta-Genomics studies in soil microbiology which demonstrate unaccounted for ecological services provided by …

Enhanced Transmission Of Higher Order Plasmon Modes With Random Au Nanoparticles In Periodic Hole Arrays, Fang-Tzu Chuang

Fang-Tzu Chuang

The enhanced transmission of higher order plasmon modes with random gold nanoparticles embedded in periodic hole arrays using asymmetric pair aperture as a unit is investigated in the midinfrared regime. Different thicknesses of gold film were deposited inside holes and then annealed to form randomly sized and distributed nanoparticles. The holes deposited with thin gold film exhibit significantly enhanced transmission in higher order modes after thermal annealing. The enormous local electric field around the nanoparticles enhances the scattering effect that contributes to the enhanced infrared transmission. This unique design, which integrates localized and propagating surface plasmons, provides an easy way …

Screening Of Commercial Cyclic Peptides As Inhibitor Envelope Protein Dengue Virus (Denv) Through Molecular Docking And Molecular Dynamics, Arli A. Parikesit, Kinanty Kinanty, Usman Sumo F. Tambunan

Arli A Parikesit

Dengue virus (DENV) has spread throughout the world, especially in tropical climates. Effective treatment of DENV infection is not yet available although several candidate vaccines have been developed. Treatment at this time is only to reduce symptoms and reduce the risk of death. Therefore, antiviral treatment is much needed. Envelope protein is one of the structural proteins of DENV which is known and could be a target of antiviral inhibitors and plays a special role in the fusion process. The aim of this research is to screen the commercial cyclic peptides which are used as inhibitors of envelope protein DENV …

Microfabricated Nanotopological Surfaces For Study Of Adhesion-Dependent Cell Mechanosensitivity, Weiqiang Chen, Yubing Sun, Jianping Fu

Weiqiang Chen

Cells exhibit high sensitivity and diverse responses to the intrinsic nanotopography of the extracellular matrix through their nanoscale cellular sensing machinery. A simple microfabrication method for precise control and spatial patterning of the local nanoroughness on glass surfaces by using photolithography and reactive ion etching is reported. It is demonstrated that local nanoroughness as a biophysical cue could regulate a diverse array of NIH/3T3 fi broblast behaviors, including cell morphology, adhesion, proliferation, migration, and cytoskeleton contractility. The capability to control and further predict cellular responses to nanoroughness might suggest novel methods for developing biomaterials mimicking nanotopographic structures in vivo for …

A Reliable And High Yielding Method For Isolation Of Genomic Dna From Ammi Majus., Sandip S. Magdum

Sandip S. Magdum

The developed protocol describes a cheaper, quicker and reliable method for the isolation of pure DNA from medicinal herbs, such as Ammi majus, which produces the secondary metabolites xanthotoxin and berganpectane having immense medicinal importance. Use of CTAB, liquid nitrogen and EDTA in different isolation protocols analyzed for A. majus, all were ended with polysaccharide and protein contamination with low purity of DNA (A260/280 = 1.3 – 1.6), revealed a need for method modification for the inexpensive and rapid isolation of pure DNA. Developed reliable and competent protocol isolated enough pure DNA (A260/280 = 1.81) without following time consuming lengthy …

Effect Of Agrobacterium Induced Necrosis, Antibiotic Induced Phytotoxicity And Other Factors In Successful Plant Transformation., Sandip S. Magdum

Sandip S. Magdum

Agrobacterium tumefaciens infection and antibiotic wash are the critical steps of Agrobacterium mediated plant transformation procedure, most time responsible for lower transformation efficiency due to necrosis and phytotoxicity caused by biotic stress of Agrobacterium and abiotic stress by antibiotics respectively. Ammi majus Egyptian origin medicinal plant and Pearl millet cereal grain crop were studied for their stress responses to Agrobacterium mediated transformation (AMT). Agrobacterium strains LBA4404 (O.D.=0.6-0.8) and EHA105 (O.D.=0.2-0.4) were used for transformation experiments to infect calli of Ammi majus and embryogenic calli of Pearl millet respectively. Incase of antibiotic wash, Cefotaxime 500 mg L-1 was used for LBA4404 …

Functions And Future Applications Of F1 Atpase As Nanobioengine - Powering The Nanoworld!, Sandip S. Magdum

Sandip S. Magdum

Recent nanotechnological revolution mandates astonishing imagination about future nanoworld. Nature has ability to create nanobiomolecules which can function in extraordinary way which can be used to produce nano hybrid systems. The opportunity to use such nanobiomolecules in combination of nanomechanical systems for development of novel nano hybrid systems for their various applications needs to explore in further nanotechnological development. F1 ATPase is a subunit of ATP synthase, which is one of the biomolecular structure works on the plasma membrane of the living cell. The reversible function of F1 ATPase gives a counterclockwise rotation of γ shaft by hydrolyzing ATP and …

Bone Morphogenetic Protein 4 Inhibition Of Tgfβ-2 Induced Cross-Linked Actin Networks In Human Trabecular Meshwork Cells, Rafael A. Lima, Michela Montecchi-Palmer, Jaclyn Bermudez, Abbot F. Clark Phd, Robert J. Wordinger Phd

ral5@rice.edu

Bone Morphogenetic Protein 4 Inhibition of TGFβ-2 Induced Cross-Linked Actin Networks (CLANs) in Human Trabecular Meshwork Cells

RAFAEL A. LIMA1, MICHELA MONTECCHI-PALMER2,3, JACLYN BERMUDEZ2 ABBOT F. CLARK2, AND ROBERT J. WORDINGER2

1 Rice University, Houston, Texas, 2 Department of Cell Biology and Anatomy, North Texas Eye Research Institute, University of North Texas Health Science Center, Fort Worth, Texas, 3 Alcon Research, Ltd., Fort Worth, Texas

Background:

Primary open-angle glaucoma (POAG) is a degenerative eye disease characterized by irreversible loss of retinal ganglion cells. One of the most significant risk factors for POAG is increased intraocular pressure (IOP). Elevated IOP is …

Nanoroughened Surfaces For Efficient Capture Of Circulating Tumor Cells Without Using Capture Antibodies, Weiqiang Chen, Shinuo Weng, Feng Zhang, Steven Allen, Xiang Li, Liwei Bao, Raymond H. W. Lam, Jill A. Macoska, Sofia D. Merajver, Jianping Fu

Weiqiang Chen

Circulating tumor cells (CTCs) detached from both primary and metastatic lesions represent a potential alternative to invasive biopsies as a source of tumor tissue for the detection, characterization and monitoring of cancers. Here we report a simple yet effective strategy for capturing CTCs without using capture antibodies. Our method uniquely utilized the differential adhesion preference of cancer cells to nanorough surfaces when compared to normal blood cells and thus did not depend on their physical size or surface protein expression, a significant advantage as compared to other existing CTC capture techniques.

Effect Of Paired Apertures In A Periodic Hole Array On Higher Order Plasmon Modes, Fang-Tzu Chuang

Fang-Tzu Chuang

We demonstrate that the transmission of higherorder surface plasmon modes in the mid-infrared range can be enhanced through rectangular hole array on the basis of paired apertures. Experiments prove that enhanced high-order transmission can be generated by either identical shapes or combinations of different hole shapes in pairs. The structure factor is adopted to explain the observed intensity of enhanced transmission. Numerical simulations of the enhanced secondorder mode verify a significant field enhancement in a unit cell of pairs. It is clarified that the separation between the paired apertures and the paired resonance is the key to determine certain higher-order …

Two Infrared Emission Modes With Different Wavelengths And Orthogonal Polarization In A Waveguide Thermal Emitter, Fang-Tzu Chuang

Fang-Tzu Chuang

This study investigates a Au/SiO2/Au waveguide thermal emitter incorporating a metallic grating embedded in the SiO2 layer. The metal grating acts as a beam splitter, dividing the device into two waveguide structures determined by the polarization of the waveguide modes. The thermal radiation spectrum exhibits two peaks with orthogonal polarization. The emitted wavelengths of the two waveguide modes can be adjusted by controlling the thickness of the SiO2 layers on both sides of the metallic grating during the fabrication process. The emission peaks have ratios of the full width at half maximum to the peak wavelength of 0.057 and 0.05 …

Nanoprojection Lithography Using Self-Assembled Interference Modules For Manufacturing Plasmonic Gratings, Fang-Tzu Chuang

Fang-Tzu Chuang

Abstract—A new nanoprojection lithography (NPL) is proposed to manufacture plasmonic nanogratings. Here, low-cost self-assembly elastomeric polydimethylsiloxane wavy structures are used as the interference modules, with their periods and amplitudes largely controlled by the applied mechanical strain in the synthesis process. Well defined plasmonic grating couplers with desired feature sizes and wavelengths of operation were obtained. This NPL may enable large-area and flash manufacturing of plasmonic nanogratings with tunable array periods.

Nanotopography Influences Adhesion, Spreading, And Self-Renewal Of Human Embryonic Stem Cells, Weiqiang Chen, Luis G. Villa-Diaz, Yubing Sun, Shinuo Weng, Jin Koo Kim, Raymond H. W. Lam, Lin Han, Rong Fan, Paul H. Krebsbach, Jianping Fu

Weiqiang Chen

Human embryonic stem cells (hESCs) have great potentials for future cell-based therapeutics. However, their mechanosensitivity to biophysical signals from the cellular microenvironment is not well characterized. Here we introduced an effective microfabrication strategy for accurate control and patterning of nanoroughness on glass surfaces. Our results demonstrated that nanotopography could provide a potent regulatory signal over different hESC behaviors, including cell morphology, adhesion, proliferation, clonal expansion, and self-renewal. Our results indicated that topological sensing of hESCs might include feedback regulation involving mechanosensory integrin-mediated cell matrix adhesion, myosin II, and E-cadherin. Our results also demonstrated that cellular responses to nanotopography were cell-type …

Health Effects Of Trihalomethanes As Chlorinated Disinfection By Products: A Review Article, Mohammad Reza Mohammad Shafiee, Lobat Taghavi

Mohammad Reza Mohammad Shafiee

Trihalomethanes (THMs) were among the first disinfection byproducts to be discovered in chlorinated water. The substances form during a reaction between chlorine and organic matter in the water. Trihalomethanes are suspected to have negative effects on birth such as, low birth weight, intrauterine growth retardation in term births, as well as gestational age and preterm delivery. There are also some evidences showing these by-products to be mutagenic and carcinogenic, the greatest amount of evidence being related to the bladder cancer. However, there exist inconsistencies regarding such effects of THMs as different studies have provided different results in this regard. The …

Integrative Bayesian Analysis Of High-Dimensional Multi-Platform Genomics Data, Wenting Wang, Veerabhadran Baladandayuthapani, Jeffrey S. Morris, Bradley M. Broom, Ganiraju C. Manyam, Kim-Anh Do

Jeffrey S. Morris

Motivation: Analyzing data from multi-platform genomics experiments combined with patients’ clinical outcomes helps us understand the complex biological processes that characterize a disease, as well as how these processes relate to the development of the disease. Current integration approaches that treat the data are limited in that they do not consider the fundamental biological relationships that exist among the data from platforms.

Statistical Model: We propose an integrative Bayesian analysis of genomics data (iBAG) framework for identifying important genes/biomarkers that are associated with clinical outcome. This framework uses a hierarchical modeling technique to combine the data obtained from multiple platforms …

Hslic Fall 2012 Scholarship Committee Report, Ann Jordan

Ann Jordan

No abstract provided.