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https://www.readbyqxmd.com/read/28230815/conceptual-foundations-of-systems-biology-explaining-complex-cardiac-diseases
#1
REVIEW
George E Louridas, Katerina G Lourida
Systems biology is an important concept that connects molecular biology and genomics with computing science, mathematics and engineering. An endeavor is made in this paper to associate basic conceptual ideas of systems biology with clinical medicine. Complex cardiac diseases are clinical phenotypes generated by integration of genetic, molecular and environmental factors. Basic concepts of systems biology like network construction, modular thinking, biological constraints (downward biological direction) and emergence (upward biological direction) could be applied to clinical medicine...
February 21, 2017: Healthcare (Basel, Switzerland)
https://www.readbyqxmd.com/read/28192937/amplification-and-quantification-of-an-antisense-oligonucleotide-from-target-microrna-using-programmable-dna-and-a-biological-nanopore
#2
Moe Hiratani, Masayuki Ohara, Ryuji Kawano
This paper describes a strategy for autonomous diagnoses of cancers using microRNA (miRNA) and therapy for tumor cells by DNA computing techniques and nanopore measurement. Theranostics, which involves the combination of diagnosis and therapy, has emerged as an approach for personalized medicine or point-of-care cancer diagnostics. DNA computing will become a potent tool for theranostics because it functions completely autonomously without the need for external regulations. However, conventional theranostics using DNA computing involves a one-to-one reaction in which a single input molecule generates a single output molecule; the concentration of the antisense drug is insufficient for the therapy in this type of reaction...
February 9, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28183595/carbon-nanotube-as-a-carrier-in-drug-delivery-system-for-carnosine-dipeptide-a-computer-simulation-study
#3
Sepideh Ketabi, Leila Rahmani
Biological application of carbon nanotube in drug delivery is our main concern in this investigation. For this purpose interaction of carnosine and carbon nanotube was studied in both gas phase and separately in aqueous media. Three possible interactions of carnosine dipeptide with (5,5) carbon nanotube in physiological media were considered. At first step each species were modeled using quantum mechanical calculations, in the next step, their properties in aqueous solution were studied by applying Monte Carlo simulations...
April 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28159490/chemohormonal-therapy-in-metastatic-hormone-sensitive-prostate-cancer-sweeney-cj-chen-yh-carducci-m-liu-g-jarrard-df-eisenberger-m-wong-yn-hahn-n-kohli-m-cooney-mm-dreicer-r-vogelzang-nj-picus-j-shevrin-d-hussain-m-garcia-ja-dipaola-rs-department-of-medicine
#4
Eggener Scott
BACKGROUND: Androgen deprivation therapy (ADT) has been the backbone of treatment for metastatic prostate cancer since the 1940s. We assessed whether concomitant treatment with ADT plus docetaxel would result in longer overall survival than that with ADT alone. METHODS: We assigned men with metastatic, hormone-sensitive prostate cancer to receive either ADT plus docetaxel (at a dose of 75mg per square meter of body-surface area every 3wk for 6 cycles) or ADT alone...
March 2017: Urologic Oncology
https://www.readbyqxmd.com/read/28128933/computational-sensing-using-low-cost-and-mobile-plasmonic-readers-designed-by-machine-learning
#5
Zachary S Ballard, Daniel Shir, Aashish Bhardwaj, Sarah Bazargan, Shyama Sathianathan, Aydogan Ozcan
Plasmonic sensors have been used for a wide range of biological and chemical sensing applications. Emerging nanofabrication techniques have enabled these sensors to be cost-effectively mass manufactured onto various types of substrates. To accompany these advances, major improvements in sensor read-out devices must also be achieved to fully realize the broad impact of plasmonic nanosensors. Here, we propose a machine learning framework which can be used to design low-cost and mobile multispectral plasmonic readers that do not use traditionally employed bulky and expensive stabilized light sources or high-resolution spectrometers...
February 1, 2017: ACS Nano
https://www.readbyqxmd.com/read/28126242/artificial-intelligence-in-medicine
#6
Pavel Hamet, Johanne Tremblay
Artificial Intelligence (AI) is a general term that implies the use of a computer to model intelligent behavior with minimal human intervention. AI is generally accepted as having started with the invention of robots. The term derives from the Czech word robota, meaning biosynthetic machines used as forced labor. In this field, Leonardo Da Vinci's lasting heritage is today's burgeoning use of robotic-assisted surgery, named after him, for complex urologic and gynecologic procedures. Da Vinci's sketchbooks of robots helped set the stage for this innovation...
January 11, 2017: Metabolism: Clinical and Experimental
https://www.readbyqxmd.com/read/28120706/advanced-in-silico-approaches-for-drug-discovery-mining-information-from-multiple-biological-and-chemical-data-through-mtk-qsber-and-pt-qspr-strategies
#7
Alejandro Speck-Planche, Maria Natália Dias Soeiro Cordeiro
The last decade has been seeing an increase of public-private partnerships in drug discovery, mostly driven by factors such as the decline in productivity, the high costs, time, and resources needed, along with the requirements of regulatory agencies. In this context, traditional computer-aided drug discovery techniques have been playing an important role, enabling the identification of new molecular entities at early stages. However, recent advances in chemoinformatics and systems pharmacology, alongside with a growing body of high quality, publicly accessible medicinal chemistry data, have led to the emergence of novel in silico approaches...
January 24, 2017: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/28119762/synthesis-spectroscopic-dielectric-molecular-docking-and-dft-studies-of-3e-3-4-methylbenzylidene-3-4-dihydro-2h-chromen-2-one-an-anticancer-agent
#8
T Beena, L Sudha, A Nataraj, V Balachandran, D Kannan, M N Ponnuswamy
BACKGROUND: Coumarin (2H-chromen-2-one) and its derivatives have a wide range of biological and pharmaceutical activities. They possess antitumor, anti-HIV, anticoagulant, antimicrobial, antioxidant, and anti-inflammatory activities. Synthesis and isolation of coumarins from different species have attracted the attention of medicinal chemists. Herein, we report the synthesis, molecular structure, dielectric, anticancer activity and docking studies with the potential target protein tankyrase...
2017: Chemistry Central Journal
https://www.readbyqxmd.com/read/28113061/comment-on-the-paper-network-and-nakamura-tridiagonal-computational-simulation-of-electrically-conducting-biopolymer-micro-morphic-transport-phenomena-o-anwar-b%C3%A3-g-j-zueco-m-norouzi-m-davoodi-a-a-joneidi-assma-f-elsayed-computers-in-biology-and-medicine-44
#9
https://www.readbyqxmd.com/read/28109168/integrated-omics-analysis-of-specialized-metabolism-in-medicinal-plants
#10
Amit Rai, Kazuki Saito, Mami Yamazaki
Medicinal plants are the rich source of highly diverse specialized metabolites with important pharmacological properties. Until recently, plant biologists were limited in their approach to explore biosynthetic pathways of these metabolites, mainly due to the scarcity of plant genomics resources. Recent advancements in the high-throughput large-scale analytical methods have enabled plant biologists to discover biosynthetic pathways for important plant-based medicinal metabolites. Reduced cost to generate omics datasets, and the development of computational tools for their analysis and integration have led to the elucidation of biosynthetic pathways of several plant origin bio-active metabolites...
January 21, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28106223/next-generation-of-network-medicine-interdisciplinary-signaling-approaches
#11
REVIEW
Tamas Korcsmaros, Maria Victoria Schneider, Giulio Superti-Furga
In the last decade, network approaches have transformed our understanding of biological systems. Network analyses and visualizations have allowed us to identify essential molecules and modules in biological systems, and improved our understanding of how changes in cellular processes can lead to complex diseases, such as cancer, infectious and neurodegenerative diseases. "Network medicine" involves unbiased large-scale network-based analyses of diverse data describing interactions between genes, diseases, phenotypes, drug targets, drug transport, drug side-effects, disease trajectories and more...
February 20, 2017: Integrative Biology: Quantitative Biosciences From Nano to Macro
https://www.readbyqxmd.com/read/28097472/proceedings-of-the-third-international-molecular-pathological-epidemiology-mpe-meeting
#12
REVIEW
Peter T Campbell, Timothy R Rebbeck, Reiko Nishihara, Andrew H Beck, Colin B Begg, Alexei A Bogdanov, Yin Cao, Helen G Coleman, Gordon J Freeman, Yujing J Heng, Curtis Huttenhower, Rafael A Irizarry, N Sertac Kip, Franziska Michor, Daniel Nevo, Ulrike Peters, Amanda I Phipps, Elizabeth M Poole, Zhi Rong Qian, John Quackenbush, Harlan Robins, Peter K Rogan, Martha L Slattery, Stephanie A Smith-Warner, Mingyang Song, Tyler J VanderWeele, Daniel Xia, Emily C Zabor, Xuehong Zhang, Molin Wang, Shuji Ogino
Molecular pathological epidemiology (MPE) is a transdisciplinary and relatively new scientific discipline that integrates theory, methods, and resources from epidemiology, pathology, biostatistics, bioinformatics, and computational biology. The underlying objective of MPE research is to better understand the etiology and progression of complex and heterogeneous human diseases with the goal of informing prevention and treatment efforts in population health and clinical medicine. Although MPE research has been commonly applied to investigating breast, lung, and colorectal cancers, its methodology can be used to study most diseases...
February 2017: Cancer Causes & Control: CCC
https://www.readbyqxmd.com/read/28094442/identifying-niche-mediated-regulatory-factors-of-stem-cell-phenotypic-state-a-systems-biology-approach
#13
Srikanth Ravichandran, Antonio Del Sol
Understanding how the cellular niche controls the stem cell phenotype is often hampered due to the complexity of variegated niche composition, its dynamics, and nonlinear stem cell-niche interactions. Here, we propose a systems biology view that considers stem cell-niche interactions as a many-body problem amenable to simplification by the concept of mean field approximation. This enables approximation of the niche effect on stem cells as a constant field that induces sustained activation/inhibition of specific stem cell signaling pathways in all stem cells within heterogeneous populations exhibiting the same phenotype (niche determinants)...
January 17, 2017: FEBS Letters
https://www.readbyqxmd.com/read/28067293/drug-response-prediction-as-a-link-prediction-problem
#14
Zachary Stanfield, Mustafa Coşkun, Mehmet Koyutürk
Drug response prediction is a well-studied problem in which the molecular profile of a given sample is used to predict the effect of a given drug on that sample. Effective solutions to this problem hold the key for precision medicine. In cancer research, genomic data from cell lines are often utilized as features to develop machine learning models predictive of drug response. Molecular networks provide a functional context for the integration of genomic features, thereby resulting in robust and reproducible predictive models...
January 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28048692/mo-fg-207b-01-thorax-lung
#15
H Aerts
State-of-the-Art in Radiomics in Radiology and Radiation Oncology Radiomics is the science of converting medical images into mineable data, data that are descriptive of "phenotypes," which may provide diagnostic, prognostic, or therapeutic information. Genomics is the science of sequencing and analyzing the function and structure of genomes; the complete set of DNA in a single cell of an organism. In turn, imaging genomics (or radiogenomics) is concerned with the correlation between image-based features, as determined by radiomics, and gene expression, as determined by genomics...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048264/su-d-207b-02-early-grade-classification-in-meningioma-patients-combining-radiomics-and-semantics-data
#16
T Coroller, W Bi, M Abedalthagafi, A Aizer, W Wu, N Greenwald, R Beroukhim, O Al-Mefty, S Santagata, I Dunn, B Alexander, R Huang, H Aerts
PURPOSE: The clinical management of meningioma is guided by its grade and biologic behavior. Currently, diagnosis of tumor grade follows surgical resection and histopathologic review. Reliable techniques for pre-operative determination of tumor behavior are needed. We investigated the association between imaging features extracted from preoperative gadolinium-enhanced T1-weighted MRI and meningioma grade. METHODS: We retrospectively examined the pre-operative MRI for 139 patients with de novo WHO grade I (63%) and grade II (37%) meningiomas...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28048031/mo-fg-207b-02-breast
#17
H Li
State-of-the-Art in Radiomics in Radiology and Radiation Oncology Radiomics is the science of converting medical images into mineable data, data that are descriptive of "phenotypes," which may provide diagnostic, prognostic, or therapeutic information. Genomics is the science of sequencing and analyzing the function and structure of genomes; the complete set of DNA in a single cell of an organism. In turn, imaging genomics (or radiogenomics) is concerned with the correlation between image-based features, as determined by radiomics, and gene expression, as determined by genomics...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28047352/mo-fg-207b-03-brain
#18
P Tiwari
State-of-the-Art in Radiomics in Radiology and Radiation Oncology Radiomics is the science of converting medical images into mineable data, data that are descriptive of "phenotypes," which may provide diagnostic, prognostic, or therapeutic information. Genomics is the science of sequencing and analyzing the function and structure of genomes; the complete set of DNA in a single cell of an organism. In turn, imaging genomics (or radiogenomics) is concerned with the correlation between image-based features, as determined by radiomics, and gene expression, as determined by genomics...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28047213/th-ab-209-07-high-resolution-x-ray-induced-acoustic-computed-tomography
#19
L Xiang, S Tang, M Ahmad, L Xing
PURPOSE: X-ray radiographic absorption imaging is an invaluable tool in medical diagnostics, biology and materials science. However, the use of conventional CT is limited by two factors: the detection sensitivity to weak absorption material and the radiation dose from CT scanning. The purpose of this study is to explore X-ray induced acoustic computed tomography (XACT), a new imaging modality, which combines X-ray absorption contrast and high ultrasonic resolution to address these challenges...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28046682/mo-fg-207b-04-respond-to-therapy
#20
W Lu
State-of-the-Art in Radiomics in Radiology and Radiation Oncology Radiomics is the science of converting medical images into mineable data, data that are descriptive of "phenotypes," which may provide diagnostic, prognostic, or therapeutic information. Genomics is the science of sequencing and analyzing the function and structure of genomes; the complete set of DNA in a single cell of an organism. In turn, imaging genomics (or radiogenomics) is concerned with the correlation between image-based features, as determined by radiomics, and gene expression, as determined by genomics...
June 2016: Medical Physics
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