keyword
MENU ▼
Read by QxMD icon Read
search

Protein

keyword
https://www.readbyqxmd.com/read/28227928/pca-criterion-for-svm-mlp-classifier-for-flavivirus-biomarker-from-salivary-sers-spectra-at-febrile-stage
#1
A R M Radzol, Khuan Y Lee, W Mansor, I S Omar, A R M Radzol, Khuan Y Lee, W Mansor, I S Omar, Khuan Y Lee, A R M Radzol, I S Omar, W Mansor
Non-structural protein (NS1) has been conceded as one of the biomarkers for flavivirus that causes diseases with life threatening consequences. NS1 is an antigen that allows detection of the illness at febrile stage, mostly from blood samples currently. Our work here intends to define an optimum model for PCA-SVM with MLP kernel for classification of flavivirus biomarker, NS1 molecule, from SERS spectra of saliva, which to the best of our knowledge has never been explored. Since performance of the model depends on the PCA criterion and MLP parameters, both are examined in tandem...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227824/hiv-1-iiib-capture-from-whole-blood-on-magnetic-microparticles
#2
Gregory L Damhorst, Jonathan M Kooiman, Rashid Bashir, Gregory L Damhorst, Jonathan M Kooiman, Rashid Bashir, Gregory L Damhorst, Rashid Bashir, Jonathan M Kooiman
Viral load quantification is a critical need for HIV management worldwide. However, the diagnostic technologies currently available are too limited by their size and expense to reach many remote and resource-limited populations. Toward the development of techniques which can be leveraged for point-of-care assays, we have investigated affinity capture of whole viruses using magnetic microparticles functionalized with antibodies or proteins targeting components of the HIV envelope. Results show the best performance from T-20, a small peptide employed in antiretroviral pharmacotherapy which targets an HIV envelope protein...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227691/understanding-the-cochlear-implant-environment-by-mapping-perilymph-proteomes-from-different-species
#3
Jonathan C Palmer, Megan S Lord, Jeremy L Pinyon, Andrew K Wise, Nigel H Lovell, Paul M Carter, Ya Lang Enke, Gary D Housley, Rylie A Green, Jonathan C Palmer, Megan S Lord, Jeremy L Pinyon, Andrew K Wise, Nigel H Lovell, Paul M Carter, Ya Lang Enke, Gary D Housley, Rylie A Green, Ya Lang Enke, Rylie A Green, Jonathan C Palmer, Nigel H Lovell, Paul M Carter, Jeremy L Pinyon, Gary D Housley, Andrew K Wise, Megan S Lord
Cochlear implants operate within a bony channel of the cochlea, bathed in a fluid known as the perilymph. The perilymph is a complex fluid containing ions and proteins, which are known to actively interact with metallic electrodes. To improve our understanding of how cochlear implant performance varies in preclinical in vivo studies in comparison to human trials and patient outcomes, the protein composition (or perilymph proteome) is needed. Samples of perilymph were gathered from feline and guinea pig subjects and analyzed using liquid chromatography with tandem mass spectrometry (LC-MS/MS) to produce proteomes and compare against the recently published human proteome...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227475/label-free-detection-of-sex-determining-region-y-sry-via-capacitive-biosensor
#4
Shilpa Sivashankar, Christos Sapsanis, Sumeyra Agambayev, Ulrich Buttner, Khaled Nabil Salama, Shilpa Sivashankar, Christos Sapsanis, Sumeyra Agambayev, Ulrich Buttner, Khaled Nabil Salama, Khaled Nabil Salama, Shilpa Sivashankar, Sumeyra Agambayev, Christos Sapsanis, Ulrich Buttner
In this work, we present for the first time, the use of a simple fractal capacitive biosensor for the quantification and detection of sex-determining region Y (SRY) genes. This section of genetic code, which is found on the Y chromosome, finds importance for study as it causes fetuses to develop characteristics of male sex-like gonads when a mutation occurs. It is also an important genetic code in men, and disorders involving the SRY gene can cause infertility and sexual malfunction that lead to a variety of gene mutational disorders...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227432/colony-size-effect-on-neural-differentiation-of-embryonic-stem-cells-microprinted-on-stromal-cells
#5
Ramila Joshi, James Buchanan, Hossein Tavana, Ramila Joshi, James Buchanan, Hossein Tavana, Ramila Joshi, James Buchanan, Hossein Tavana
Controlling cellular microenvironment to induce neural differentiation of embryonic stem cells (ESCs) remains a major challenge. We address this need by introducing a micro-engineered co-culture system that resembles embryonic development in terms of direct intercellular interactions and induces neural differentiation of ESCs. A polymeric aqueous two-phase system (ATPS)-mediated robotic microprinting technology allows precise localization of mouse ESCs (mESCs) over a layer of supporting stromal cells. mESCs proliferate over a 2-week culture period into a single colony of defined size...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227365/integrated-quantification-based-on-confocal-imaging-cell-crowding-modulates-heterogeneity-in-gpcr-mediated-calcium-oscillation
#6
Jophin G Joseph, S Nanda, S Vennamalla, G Bhure, Ranjana Singh, Soumya Jana, Lopamudra Giri, Jophin G Joseph, S Nanda, S Vennamalla, G Bhure, Ranjana Singh, Soumya Jana, Lopamudra Giri, Soumya Jana, Lopamudra Giri, Jophin G Joseph, S Nanda, Ranjana Singh, G Bhure, S Vennamalla
Results from single cell imaging, facilitated by high resolution microscopy, have demonstrated cell-to-cell variability within the same cell population in contexts ranging from cell growth to cell migration. Recent studies suggest that such variability conveys important information about diseased states. However, manual analysis and interpretation of heterogeneous calcium oscillation based on time-lapsed images, as practiced today, is tedious, and essentially infeasible for large datasets. As a practical alternative, we present an integrated platform that includes calcium imaging using confocal microscope, algorithmic cell segmentation, and statistical analysis...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227256/binding-affinity-prediction-of-s-cerevisiae-14-3-3-and-gyf-peptide-recognition-domains-using-support-vector-regression
#7
Volkan Uslan, Huseyin Seker, Volkan Uslan, Huseyin Seker, Huseyin Seker, Volkan Uslan
Proteins interact with other proteins and bio-molecules to carry out biological processes in a cell. Computational models help understanding complex biochemical processes that happens throughout the life of a cell. Domain-mediated protein interaction to peptides one such complex problem in bioinformatics that requires computational predictive models to identify meaningful bindings. In this study, domain-peptide binding affinity prediction models are proposed based on support vector regression. Proposed models are applied to yeast bmh 14-3-3 and syh GYF peptide-recognition domains...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227255/multi-omic-approaches-for-characterization-of-hepatocellular-carcinoma
#8
Habtom W Ressom, Cristina Di Poto, Alessia Ferrarini, Yunli Hu, Mohammad R Nezami Ranjbar, Ehwang Song, Rency S Varghese, Minkun Wang, Shiyue Zhou, Rui Zhu, Yiming Zuo, Mahlet G Tadesse, Yehia Mechref, Habtom W Ressom, Cristina Di Poto, Alessia Ferrarini, Yunli Hu, Mohammad R Nezami Ranjbar, Ehwang Song, Rency S Varghese, Minkun Wang, Shiyue Zhou, Rui Zhu, Yiming Zuo, Mahlet G Tadesse, Yehia Mechref, Mahlet G Tadesse, Shiyue ZhOU, Rui Zhu, Yehia Mechref, Alessia Ferrarini, Cristina Di Poto, Yiming Zuo, Habtom W Ressom, Mohammad R Nezami Ranjbar, Ehwang Song, Minkun Wang, Rency S Varghese, Yunli Hu
Multi-omic approaches offer the opportunity to characterize complex diseases such as cancer at various molecular levels. In this paper, we present transcriptomic, proteomic/glycoproteomic, glycomic, and metabolomic (TPGM) data we acquired by analysis of liver tissues from hepatocellular carcinoma (HCC) cases and patients with liver cirrhosis. We evaluated changes in the levels of transcripts, proteins, glycans, and metabolites between tumor and cirrhotic tissues by statistical methods. We demonstrated the potential of multi-omic approaches and network analysis to investigate the interactions among these biomolecules in the progression of liver cirrhosis to HCC...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227172/path-based-connectivity-for-clustering-genome-sequences
#9
Oznur Sengel, Olcay Kursun, Oznur Sengel, Olcay Kursun, Olcay Kursun, Oznur Sengel
Clustering is an unsupervised data mining tool and in bioinformatics, clustering genome sequences is used to group related biological sequences when there is no additional supervision. Sequence clusters are often related with gene/protein families, which can shed some light onto determining tertiary structures. To extract such hidden and valuable structures in a data set of genome sequences can benefit from better clustering methods such as the recently popular Spectral Clustering. In this study, we apply spectral clustering and its improved variations to sequence clustering task in our efforts to develop a novel approach for improving it...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227171/structural-classification-of-protein-sequences-based-on-signal-processing-and-support-vector-machines
#10
Charalambos Chrysostomou, Huseyin Seker, Charalambos Chrysostomou, Huseyin Seker, Huseyin Seker, Charalambos Chrysostomou
The function of any protein depends directly on its secondary and tertiary structure. Proteins can fold into a three-dimensional shape, which is primarily depended on the arrangement of amino acids in the primary structure. In recent years, with the explosive sequencing of proteins, it is unfeasible to perform detailed experimental studies, as these methodologies are very expensive and time consuming. This leaves the structure of the majority of currently available protein sequences unknown. In this paper, a predictive model is therefore presented for the classification of protein sequence's secondary structures, namely alpha helix and beta sheet...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227017/reconfigurable-hardware-software-codesign-methodology-for-protein-identification
#11
Venkateshwarlu Y Gudur, Sandeep Thallada, Abhinay R Deevi, Venkata Krishna Gande, Amit Acharyya, Vasundhra Bhandari, Paresh Sharma, Saqib Khursheed, Ganesh R Naik, Venkateshwarlu Y Gudur, Sandeep Thallada, Abhinay R Deevi, Venkata Krishna Gande, Amit Acharyya, Vasundhra Bhandari, Paresh Sharma, Saqib Khursheed, Ganesh R Naik, Saqib Khursheed, Paresh Sharma, Vasundhra Bhandari, Venkata Krishna Gande, Venkateshwarlu Y Gudur, Abhinay R Deevi, Amit Acharyya, Sandeep Thallada, Ganesh R Naik
In this paper we propose an on-the-fly reconfigurable hardware-software codesign based reconfigurable solution for real-time protein identification. Reconfigurable string matching is performed in the disciplines of protein identification and biomarkers discovery. With the generation of plethora of sequenced data and number of biomarkers for several diseases, it is becoming necessary to have an accelerated processing and on-the-fly reconfigurable system design methodology to bring flexibility to its usage in the medical science community without the need of changing the entire hardware every time with the advent of new biomarker or protein...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227013/pan-cancer-analysis-for-studying-cancer-stage-using-protein-and-gene-expression-data
#12
Sameer Mishra, Chanchala D Kaddi, May D Wang, Sameer Mishra, Chanchala D Kaddi, May D Wang, Sameer Mishra, Chanchala D Kaddi, May D Wang
Pan-cancer analyses attempt to discover similar features among multiple cancers to identify fundamental patterns common to cancer development and progression. A pan-cancer analysis integrating both protein expression and transcriptomic data is important because it can identify genes that are linked to proteins potentially responsible for a patient's status. This study aims to identify differentially expressed (DE) genes between early and advanced cases of multiple cancer types through the usage of RNA sequencing data...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28227003/automated-segmentation-and-classification-of-cell-nuclei-in-immunohistochemical-breast-cancer-images-with-estrogen-receptor-marker
#13
Julio Oscanoa, Franco Doimi, Richard Dyer, Jhahaira Araujo, Joseph Pinto, Benjamin Castaneda, Julio Oscanoa, Franco Doimi, Richard Dyer, Jhahaira Araujo, Joseph Pinto, Benjamin Castaneda, Jhahaira Araujo, Franco Doimi, Julio Oscanoa, Richard Dyer, Benjamin Castaneda, Joseph Pinto
Breast cancer is the most common malignant tumor in women worldwide. In recent years, there has been an increasing use of immunohistochemistry (the process of detecting the expression of certain proteins in cytological images) to obtain useful information for diagnosis. This paper presents an efficient algorithm that automatically detects breast cancer cell nuclei and divides them into two groups: those that express the ER marker and those that do not. First, the areas that belong to the carcinoma are automatically identified...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28226932/novel-refractive-index-biosensing-of-microcontact-printed-molecules-on-lithium-niobate
#14
Nikhil Bhalla, Shivani Sathish, Amy Q Shen, Nikhil Bhalla, Shivani Sathish, Amy Q Shen, Shivani Sathish, Amy Q Shen, Nikhil Bhalla
This work demonstrates, for the first time, the use of lithium niobate as a biosensor that detects local refractive index changes triggered by the presence of biomolecules on its surface. The sensitivity of the sensor was found to be 242±16 nm/RIU. As a case study, we immobilized proteins (IgG antibodies) using micro-contact printing to demonstrate sensing capabilities of the device. The validated proof of concept lays a foundation for developing lithium niobate based novel optical biosensors.
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28226930/highly-sensitive-detection-of-human-cancer-antigens-by-an-immunogold-silver-assay-chip-coupled-with-a-polythiophene-based-optical-sensor
#15
Nuno M M Pires, Tao Dong, Nuno M M Pires, Tao Dong, Nuno M M Pires, Tao Dong
This work presents a novel method for protein or cancer antigen detection in clinical samples by an immunogold-silver assay microfluidic biochip coupled with a polythiophene-based organic photodetector. The method has showed a detection limit below 1ng/mL and the low cost and high sensitivity of both organic photodetector and immunogold-silver assay make this method amenable for realization in a portable handheld probe tip biosensor.
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28226896/evaluation-of-biofouling-for-implantable-micro-dialysis-system
#16
T Ota, N To, Y Kanno, N Miki, T Ota, N To, Y Kanno, N Miki, T Ota, Y Kanno, N Miki, N To
Implantable artificial kidney can drastically improve the quality of life of the renal disease patients. In previous study, our group has developed a multi-layered micro dialysis device which is composed of micro stainless steel channels and nano-porous polyethersulfone (PES) membranes. The device conducts hemofiltration without dialysis fluids, which is advantageous in miniaturization. We investigated the water-permeability of the PES membrane through in vivo experiments using rat model of renal disease for 5 hours and verified the effectiveness of the device...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28226776/an-in-silico-model-of-the-effects-of-vitamin-d3-on-mycobacterium-infected-macrophage
#17
Maya Gough, Elebeoba May, Maya Gough, Elebeoba May, Maya Gough, Elebeoba May
Mycobacterium tuberculosis is a global health concern, causing over one million deaths a year. Alveolar macrophages, as the primary host cell of this intracellular bacterium, play an important role in the course of disease. Vitamin D3 is known to have a potent effect on macrophage behavior during infection, modulating the production of pro- and anti-inflammatory cytokines and immune effector molecules. In a vitamin D3 deficient host, the immune systems response to infection is greatly impaired. We used a quantitative systems biology approach to model the intracellular effects of vitamin D3 and compared our simulation output to our in vitro model of mycobacterium infection of macrophages in the presence and absence of Vitamin D3...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28226774/modeling-non-clinical-and-clinical-drug-tests-in-gaucher-disease
#18
Clyde F Phelix, Allen K Bourdon, Greg Villareal, Richard G LeBaron, Clyde F Phelix, Allen K Bourdon, Greg Villareal, Richard G LeBaron, Richard G LeBaron, Clyde F Phelix, Allen K Bourdon, Greg Villareal
There is need for modeling biological systems to accelerate drug pipelines for treating metabolic diseases. The eliglustat treatment for Gaucher disease is approved by the FDA with a companion genomic test. The Transcriptome-To-Metabolome™ biosimulation technology was used to model, in silico, a standard non-clinical eliglustat test with an in vitro canine kidney cell system over-expressing a human gene; and a clinical test using human fibroblasts from control and Gaucher disease subjects. Protein homology modeling and docking studies were included to gather affinity parameters for the kinetic metabolic model...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28226772/computational-analysis-of-androgen-receptor-dependent-radiosensitivity-in-prostate-cancer
#19
Mengdi Qian, Alexandru Almasan, Evren Gurkan-Cavusoglu, Mengdi Qian, Alexandru Almasan, Evren Gurkan-Cavusoglu, Mengdi Qian, Evren Gurkan-Cavusoglu, Alexandru Almasan
In this study, we quantitatively analyze the mechanism by which androgen deprivation therapy (ADT) is enhancing radiosensitivity in prostate cancer (PCa) patients. It has been shown in laboratory experiments, as well as in patient data in the literature, that the androgen receptor (AR) reduces the effectiveness of ionizing radiation treatment by enhancing the non-homologous end joining (NHEJ) repair of radiation damage. The suppression of AR by ADT suppresses the activity of NHEJ that leads to radiosensitivity in PCa patients...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28226455/the-effect-of-multiple-thin-film-coatings-of-protein-loaded-sol-gel-on-total-multi-electrode-array-thickness
#20
Matthew D McDermott, Kevin J Otto, Matthew D McDermott, Kevin J Otto, Matthew D McDermott, Kevin J Otto
Tetramethyl orthosilicate shows promise as a thin-film delivery vehicle for multi-electrode arrays for drug release and electrical performance; however, its effect upon device footprint has yet to be assessed. Using a previously established silicon wafer chip model, the thickness of one, two, and four protein doped coatings of sol-gel were analyzed via profilometry. Coating thickness was found to be 0.4μm, 1.1μm and 2.2μm on each side of the device. This addition to a native MEA is minimal when compared to other drug delivery paradigms currently associated with neural implants...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
keyword
keyword
4155
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"