keyword
MENU ▼
Read by QxMD icon Read
search

biomolecular

keyword
https://www.readbyqxmd.com/read/29352366/a-new-class-of-cest-experiment-based-on-selecting-different-magnetization-components-at-the-start-and-end-of-the-cest-relaxation-element-an-application-to-1h-cest
#1
Tairan Yuwen, Lewis E Kay
Chemical exchange saturation transfer (CEST) experiments are becoming increasingly popular for investigating biomolecular exchange dynamics with rates on the order of approximately 50-500 s-1 and a rich toolkit of different methods has emerged over the past few years. Typically, experiments are based on the evolution of longitudinal magnetization, or in some cases two-spin order, during a fixed CEST relaxation delay, with the same class of magnetization prepared at the start and selected at end of the CEST period...
January 19, 2018: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/29352252/towards-an-experimental-classification-system-for-membrane-active-peptides
#2
G D Brand, M H S Ramada, T C Genaro-Mattos, C Bloch
Mature proteins can act as potential sources of encrypted bioactive peptides that, once released from their parent proteins, might interact with diverse biomolecular targets. In recent work we introduced a systematic methodology to uncover encrypted intragenic antimicrobial peptides (IAPs) within large protein sequence libraries. Given that such peptides may interact with membranes in different ways, resulting in distinct observable outcomes, it is desirable to develop a predictive methodology to categorize membrane active peptides and establish a link to their physicochemical properties...
January 19, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29352125/biomolecular-regulation-composition-and-nanoarchitecture-of-bone-mineral
#3
Atharva A Poundarik, Adele Boskey, Caren Gundberg, Deepak Vashishth
Tough natural nanocomposites like bone, nacre and sea sponges contain within their hierarchy, a mineral (phosphate, silicate or carbonate) phase that interacts with an organic phase. In bone, the role of mineral ultrastructure (organization, morphology, composition) is crucial to the mechanical and biological properties of the tissue. Better understanding of mineral interaction with the organic matrix, in particular non-collagenous proteins, osteocalcin (OC) and osteopontin (OPN), can lead to better design of biomimetic materials...
January 19, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29350184/chirality-in-molecular-collision-dynamics
#4
Andrea Lombardi, Federico Palazzetti
Chirality is a phenomenon that permeates the natural world, with implications for atomic and molecular physics, for fundamental forces and for the mechanisms at the origin of the early evolution of life and biomolecular homochirality. The manifestations of chirality in chemistry and biochemistry are numerous, the striking ones being chiral recognition and asymmetric synthesis with important applications in molecular sciences and in industrial and pharmaceutical chemistry. Chiral discrimination phenomena, due to the existence of two enantiomeric forms, very well known in the case of interaction with light, but still nearly disregarded in molecular collision studies...
January 19, 2018: Journal of Physics. Condensed Matter: An Institute of Physics Journal
https://www.readbyqxmd.com/read/29348593/temporal-diabetes-induced-biochemical-changes-in-distinctive-layers-of-mouse-retina
#5
Ebrahim Aboualizadeh, Christine M Sorenson, Alex J Schofield, Miriam Unger, Nader Sheibani, Carol J Hirschmugl
To discover the mechanisms underlying the progression of diabetic retinopathy (DR), a more comprehensive understanding of the biomolecular processes in individual retinal cells subjected to hyperglycemia is required. Despite extensive studies, the changes in the biochemistry of retinal layers during the development of DR are not well known. In this study, we aimed to determine a more detailed understanding of the natural history of DR in Akita/+ (type 1 diabetes model) male mice with different duration of diabetes...
January 18, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29345980/society-of-biomolecular-imaging-and-informatics-high-content-screening-high-content-analysis-emerging-technologies-in-biological-models-when-and-why
#6
Ann F Hoffman, John Nolan, David F Gebhard, Debra Nickischer, Wienand Omta, Sam Cooper, Sharon Presnell, Judi Wardwell-Swanson, Myles Fennell
No abstract text is available yet for this article.
January 2018: Assay and Drug Development Technologies
https://www.readbyqxmd.com/read/29345978/research-in-rare-disease-from-genomics-to-proteomics
#7
Jessica Lacoste
Jessica Lacoste from the Donnelly Centre at the University of Toronto was awarded best poster at the annual Society of Biomolecular Imaging and Informatics meeting held in San Diego, September 2017. Her work focuses on characterizing the protein localization of variants involved in rare disease. The current works and future directions of research in rare disease are summarized in the following overview.
January 2018: Assay and Drug Development Technologies
https://www.readbyqxmd.com/read/29344135/identification-of-differentially-expressed-genes-in-oral-squamous-cell-carcinoma-tca8113-cells
#8
Jun Wang, Lifeng Li, Lina Gao, Chao Guan, Kexin Su, Linlin Li, Wenping Luo, Hongying Chen, Ping Ji
Previous studies have demonstrated that cancer cells with increased levels of aldehyde dehydrogenase 'bright' activity (ALDHbr) exhibit stem cell properties compared with cells exhibiting decreased ALDH activity (ALDHlow). To screen possible biomarkers of cancer stem cells in tongue squamous cell carcinoma, ALDHbr and ALDHlow cells were isolated from the tongue squamous cell carcinoma TCA8113 cell line, and suppression subtractive hybridization was performed to identify differentially expressed genes in the two subpopulations...
December 2017: Oncology Letters
https://www.readbyqxmd.com/read/29341613/what-gives-an-insulin-hexamer-its-unique-shape-and-stability-role-of-ten-confined-water-molecules
#9
Saumyak Mukherjee, Sayantan Mondal, Ashish Anilrao Deshmukh, Balasubramanian Gopal, Biman Bagchi
Self-assembly of proteins often gives rise to interesting quasi-stable structures that serve important biological purposes. Insulin hexamer is such an assembly. While monomer is the biologically active form of insulin, hexamer serves as the storehouse of the hormone. The hexamer also prevents the formation of higher order aggregates. While several studies explored the role of bivalent metal ions like Zn2+, Ca2+ etc. in the stabilization of the hexameric form, the role of water molecules has been ignored. We combine molecular dynamics simulations, quantum calculations and X-ray analyses to discover that a team of approximately ten water molecules confined inside a barrel-shaped nano-cavity at the center of insulin hexamer is one of the major causes that account for the unusual stability of the biomolecular assembly...
January 17, 2018: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/29338211/highly-stable-rna-capture-by-dense-cationic-polymer-brushes-for-the-design-of-cytocompatible-serum-stable-sirna-delivery-vectors
#10
Danyang Li, Amir S Sharili, John Connelly, Julien E Gautrot
The high density of polymer brushes confers to these coatings unique physico-chemical properties, in particular for the regulation of biomolecular interaction and the design of highly selective coatings for biosensors and protein patterning. Here we show that high density poly(dimethylaminoethyl methacrylate) cationic polymer brushes enable the stable uptake of high levels of oligonucleotides. This is proposed to result from the high degree of crowding and associated increase in entropic driving force for the binding of polyelectrolytes such as nucleic acid molecules...
January 16, 2018: Biomacromolecules
https://www.readbyqxmd.com/read/29337131/modelling-non-markovian-fluctuations-in-intracellular-biomolecular-transport
#11
Wilson I Barredo, Christopher C Bernido, M Victoria Carpio-Bernido, Jinky B Bornales
To model non-Markovian fluctuations arising in biomolecular transport, we introduce a stochastic process with memory where Brownian motion is modulated sinusoidally. The probability density function and moments of this non-Markovian process are evaluated analytically as Hida stochastic functional integrals. Comparison of graphs of computed variance vis-á -vis empirical data for protein diffusion coefficients closely match with both exhibiting emergent superdiffusive then subdiffusive behavior for longer proteins...
January 11, 2018: Mathematical Biosciences
https://www.readbyqxmd.com/read/29336148/logic-catalytic-interconversion-of-g-molecular-hydrogel
#12
Ruibo Zhong, Mingshu Xiao, Changfeng Zhu, Xizhong Shen, Qian Tang, Weijia Zhang, Lihua Wang, Shiping Song, Xiangmeng Qu, Hao Pei, Cheng Wang, Li Li
By incorporating hemin into G-quadruplex (G4) during cation-templated self-assembly between guanosine and KB(OH)4, we have constructed an artificial enzyme hydrogel (AEH)-based system for the highly sensitive and selective detection of Pb2+. The sensing strategy is based on a Pb2+-induced decrease in AEH activity. Due to the higher efficiency of Pb2+ for stabilizing G4 compared with K+, the Pb2+ ions substitute K+ and trigger hemin release from G4, thus giving rise to a conformational interconversion accompanied by the loss of enzyme activity...
January 16, 2018: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29335674/noble-metal-nanoparticles-in-biosensors-recent-studies-and-applications
#13
Hedieh Malekzad, Parham Sahandi Zangabad, Hamed Mirshekari, Mahdi Karimi, Michael R Hamblin
The aim of this review is to cover advances in noble metal nanoparticle (MNP)-based biosensors and to outline the principles and main functions of MNPs in different classes of biosensors according to the transduction methods employed. The important biorecognition elements are enzymes, antibodies, aptamers, DNA sequences, and whole cells. The main readouts are electrochemical (amperometric and voltametric), optical (surface plasmon resonance, colorimetric, chemiluminescence, photoelectrochemical, etc.) and piezoelectric...
June 27, 2017: Nanotechnology Reviews
https://www.readbyqxmd.com/read/29335563/visualization-and-analysis-of-non-covalent-contacts-using-the-protein-contacts-atlas
#14
Melis Kayikci, A J Venkatakrishnan, James Scott-Brown, Charles N J Ravarani, Tilman Flock, M Madan Babu
Visualizations of biomolecular structures empower us to gain insights into biological functions, generate testable hypotheses, and communicate biological concepts. Typical visualizations (such as ball and stick) primarily depict covalent bonds. In contrast, non-covalent contacts between atoms, which govern normal physiology, pathogenesis, and drug action, are seldom visualized. We present the Protein Contacts Atlas, an interactive resource of non-covalent contacts from over 100,000 PDB crystal structures. We developed multiple representations for visualization and analysis of non-covalent contacts at different scales of organization: atoms, residues, secondary structure, subunits, and entire complexes...
January 15, 2018: Nature Structural & Molecular Biology
https://www.readbyqxmd.com/read/29331484/novel-biomolecular-information-in-rotenone-induced-cellular-model-of-parkinson-s-disease
#15
D Lin, Y Liang, D Zheng, Y Chen, X Jing, M Lei, Z Zeng, T Zhou, X Wu, S Peng, K Huang, L Yang, S Xiao, J Liu, E Tao
In order to uncover the remarkable pathogenic genes or molecular pathological process in Parkinson's disease (PD), we employed a microarray analysis upon the cellular PD model induced by rotenone. Compared to the control group, 2174 genes were screened out to be expressed differently in the rotenone-induced group by certain criterion. GO analysis and the pathways analysis showed the significant enrichment of genes that were associated with the biological process of cell cycle, apoptotic process, organelle fusion, mitochondrial lesion, endoplasmic reticulum stress and so on...
January 10, 2018: Gene
https://www.readbyqxmd.com/read/29331124/characterizing-protein-conformations-by-correlation-analysis-of-coarse-grained-contact-matrices
#16
Richard J Lindsay, Jan Siess, David P Lohry, Trevor S McGee, Jordan S Ritchie, Quentin R Johnson, Tongye Shen
We have developed a method to capture the essential conformational dynamics of folded biopolymers using statistical analysis of coarse-grained segment-segment contacts. Previously, the residue-residue contact analysis of simulation trajectories was successfully applied to the detection of conformational switching motions in biomolecular complexes. However, the application to large protein systems (larger than 1000 amino acid residues) is challenging using the description of residue contacts. Also, the residue-based method cannot be used to compare proteins with different sequences...
January 14, 2018: Journal of Chemical Physics
https://www.readbyqxmd.com/read/29331119/molecular-dynamics-investigation-of-water-exchange-reactions-on-lanthanide-ions-in-water-1-ethyl-3-methylimidazolium-trifluoromethylsufate-emim-otf
#17
Yi-Jung Tu, Zhijin Lin, Matthew J Allen, G Andrés Cisneros
We report a kinetic study of the water exchange on lanthanide ions in water/[1-ethyl-3-methylimidazolium][trifluoromethylsufate] (water/[EMIm][OTf]). The results from 17O-NMR measurements show that the water-exchange rates in water/[EMIm][OTf] increase with decreasing size of the lanthanide ions. This trend for water-exchange is similar to the previously reported trend in water/1-ethyl-3-methylimidazolium ethyl sulfate (water/[EMIm][EtSO4]) but opposite to that in water. To gain atomic-level insight into these water-exchange reactions, molecular dynamics simulations for lanthanide ions in water/[EMIm][OTf] have been performed using the atomic-multipole-optimized-energetics-for-biomolecular-application polarizable force field...
January 14, 2018: Journal of Chemical Physics
https://www.readbyqxmd.com/read/29330544/perceptions-of-legislation-relating-to-the-sharing-of-genomic-biobank-results-with-donors-a-survey-of-bbmri-eric-biobanks
#18
Minna Brunfeldt, Harriet Teare, Sirpa Soini, Helena Kääriäinen
Biobanks accumulate huge amounts of research findings, including participants' genomic data. Increasingly this leads to biobanks receiving research results that could be of clinical significance to biobank participants. The EU Horizon 2020 Project 'Genetics Clinic of the Future' surveyed European biobanks' perceptions of the legal and regulatory requirements for communicating individual research results to donors. The goal was to gain background knowledge for possible future guidelines, especially relating to the consent process...
January 12, 2018: European Journal of Human Genetics: EJHG
https://www.readbyqxmd.com/read/29329080/intrauterine-inflammatory-activation-functional-progesterone-withdrawal-and-the-timing-of-term-and-preterm-birth
#19
REVIEW
Jeffrey A Keelan
The central role of inflammatory processes in labour and delivery is now well-recognised. However, the biomolecular, immunological and endocrine mechanisms involved in the labour process, and the clinical manifestations of inflammation in pregnancy, are complex, variable and modulated by factors such as aetiology, ethnicity and gestational age. In this review, evidence is presented of the pivotal relationship between progesterone and inflammation in pregnancy in terms of determining the timing of labour and delivery...
December 22, 2017: Journal of Reproductive Immunology
https://www.readbyqxmd.com/read/29328431/bioinformatic-analysis-of-gene-expression-profiling-of-intracranial-aneurysm
#20
Lijuan Bo, Bo Wei, Zhanfeng Wang, Chaohui Li, Zheng Gao, Zhuang Miao
Intracranial aneurysm (IA) is a severe clinical condition of primary concern and currently, there is no effective therapeutic reagent. The present study aimed to investigate the molecular mechanism of IA via bioinformatic analysis. Various gene expression profiles (GSE26969) were downloaded from the Gene Expression Omnibus database, including 3 IA and 3 normal superficial temporal artery samples. Firstly, the limma package in R language was used to identify differentially expressed genes (DEGs; P‑value <0...
December 29, 2017: Molecular Medicine Reports
keyword
keyword
54480
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"