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https://www.readbyqxmd.com/read/29329368/discovering-personalized-driver-mutation-profiles-of-single-samples-in-cancer-by-network-control-strategy
#1
Wei-Feng Guo, Shao-Wu Zhang, Li-Li Liu, Fei Liu, Qian-Qian Shi, Lei Zhang, Ying Tang, Tao Zeng, Luonan Chen
Motivation: It is a challenging task to discover personalized driver genes that provide crucial information on disease risk and drug sensitivity for individual patients. However, few methods have been proposed to identify the personalized-sample driver genes from the cancer omics data due to the lack of samples for each individual. To circumvent this problem, here we present a novel single-sample controller strategy (SCS) to identify personalized driver mutation profiles from network controllability perspective...
January 10, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29327744/spinel-co3o4-nanomaterials-for-efficient-and-stable-large-area-carbon-based-printed-perovskite-solar-cells
#2
Amna Bashir, Sudhanshu Shukla, Jia Haur Lew, Shashwat Shukla, Annalisa Bruno, Disha Gupta, Tom Baikie, Rahul Patidar, Zareen Akhter, Anish Priyadarshi, Nripan Mathews, Subodh G Mhaisalkar
Carbon based perovskite solar cells (PSCs) are fabricated through easily scalable screen printing techniques, using abundant and cheap carbon to replace the hole transport material (HTM) and the gold electrode further reduces costs, and carbon acts as a moisture repellent that helps in maintaining the stability of the underlying perovskite active layer. An inorganic interlayer of spinel cobaltite oxides (Co3O4) can greatly enhance the carbon based PSC performance by suppressing charge recombination and extracting holes efficiently...
January 12, 2018: Nanoscale
https://www.readbyqxmd.com/read/29314319/a-solution-processed-transparent-nio-hole-extraction-layer-for-high-performance-inverted-perovskite-solar-cells
#3
Li Juan Tang, Xiao Chen, Tian Yu Wen, Shuang Yang, Jun Jie Zhao, Hong Wei Qiao, Yu Hou, Huagui Yang
A highly transparent NiO layer was prepared by a solution processing method with nickel (II) 2-ethylhexanoate in non-polar solvent and utilized as HTM in perovskite solar cells. Excellent optical transmittance and the matched energy level lead to the enhanced power conversion efficiency (PCE, 18.15%) than that of conventional sol-gel-processed NiO based device (12.98%).
January 4, 2018: Chemistry: a European Journal
https://www.readbyqxmd.com/read/29305605/role-of-the-autotaxin-lpa-pathway-in-dexamethasone-induced-fibrotic-responses-and-extracellular-matrix-production-in-human-trabecular-meshwork-cells
#4
Megumi Honjo, Nozomi Igarashi, Junko Nishida, Makoto Kurano, Yutaka Yatomi, Koji Igarashi, Kuniyuki Kano, Junken Aoki, Makoto Aihara
Purpose: Dexamethasone (Dex) regulates aqueous humor outflow by inducing reorganization of the cytoskeleton and extracellular matrix (ECM) production. Rho kinase (ROCK) has an important role in this process, but the upstream pathway leading to its activation remains elusive. The purpose of the study was to determine the role of autotaxin (ATX), an enzyme involved in the generation of lysophosphatidic acid (LPA), in the Dex-induced fibrotic response and ECM production in human trabecular meshwork (HTM) cells...
January 1, 2018: Investigative Ophthalmology & Visual Science
https://www.readbyqxmd.com/read/29305179/irspot-adpm-identify-recombination-spots-by-incorporating-the-associated-dinucleotide-product-model-into-chou-s-pseudo-components
#5
Lichao Zhang, Liang Kong
Gene recombination is a key process to produce hereditary differences. Recombination spot identification plays an important role in revealing genome evolution and promoting DNA function study. However, traditional experiments are not good at identifying recombination spot with huge amounts of DNA sequences springed up by sequencing. At present, some machine learning methods have been proposed to speed up this identification process. However, the correlations between nucleotides pairs at different positions along DNA sequence is often ignored, which reflects the important sequence order information...
January 2, 2018: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/29296786/icam-1-targeted-thrombomodulin-mitigates-tissue-factor-driven-inflammatory-thrombosis-in-a-human-endothelialized-microfluidic-model
#6
Colin F Greineder, Ian H Johnston, Carlos H Villa, Kandace Gollomp, Charles T Esmon, Douglas B Cines, Mortimer Poncz, Vladimir R Muzykantov
Diverse human illnesses are characterized by loss or inactivation of endothelial thrombomodulin (TM), predisposing to microvascular inflammation, activation of coagulation, and tissue ischemia. Single-chain antibody fragment (scFv)/TM) fusion proteins, previously protective against end-organ injury in murine models of inflammation, are attractive candidates to treat inflammatory thrombosis. However, animal models have inherent differences in TM and coagulation biology, are limited in their ability to resolve and control endothelial biology, and do not allow in-depth testing of "humanized" scFv/TM fusion proteins, which are necessary for translation to the clinical domain...
August 8, 2017: Blood Advances
https://www.readbyqxmd.com/read/29286210/n-annulated-perylene-based-hole-transporters-for-perovskite-solar-cells-the-significant-impacts-of-lateral-substituents
#7
Peng Wang, Yang Li, Rui Zhu, Junting Wang, Ze-Sheng Li, Niansheng Xu, Jidong Zhang
Perylene derivatives are a family of well-known organic electron-transporting materials with excellent photochemical and thermal stabilities, and have been widely used in various optoelectronic devices. In this work, two diphenylamine functionalized N-annulated perylenes are reported for the first time as a new class of hole-transporting materials (HTMs) for perovskite solar cells. With the aid of joint theoretical and experimental studies, we uncover that the HTM employing the methoxyphenyl lateral substituent features a closer stacking distance and a better aggregate connectivity in the solid film than the counterpart with the bulky 2-hexyldecyl lateral substituent, contributing to a higher hole mobility and a remarkably enhanced device performance of perovskite solar cells...
December 29, 2017: ChemSusChem
https://www.readbyqxmd.com/read/29281006/pine-sparky-2-for-automated-nmr-based-protein-structure-research
#8
Woonghee Lee, John L Markley
Summary: NMR (nuclear magnetic resonance) spectroscopy, along with X-ray crystallography and Cryo-EM, is one of the three major tools that enable the determination of atomic-level structural models of biological macromolecules. Of these, NMR has the unique ability to follow important processes in solution, including conformational changes, internal dynamics and protein-ligand interactions. As a means for facilitating the handling and analysis of spectra involved in these types of NMR studies, we have developed PINE-SPARKY...
December 21, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29280996/crnet-an-efficient-sampling-approach-to-infer-functional-regulatory-networks-by-integrating-large-scale-chip-seq-and-time-course-rna-seq-data
#9
Xi Chen, Jinghua Gu, Xiao Wang, Jin-Gyoung Jung, Tian-Li Wang, Leena Hilakivi-Clarke, Robert Clarke, Jianhua Xuan
Motivation: NGS techniques have been widely applied in genetic and epigenetic studies. Multiple ChIP-seq and RNA-seq profiles can now be jointly used to infer functional regulatory networks (FRNs). However, existing methods suffer from either oversimplified assumption on transcription factor (TF) regulation or slow convergence of sampling for FRN inference from large-scale ChIP-seq and time-course RNA-seq data. Results: We developed an efficient Bayesian integration method (CRNET) for FRN inference using a two-stage Gibbs sampler to estimate iteratively hidden TF activities and the posterior probabilities of binding events...
December 21, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29243830/proceedings-of-the-food-and-drug-administration-s-public-workshop-on-new-red-blood-cell-product-regulatory-science-2016
#10
Jaroslav G Vostal, Paul W Buehler, Monique P Gelderman, Abdu I Alayash, Alan Doctor, James C Zimring, Simone A Glynn, John R Hess, Harvey Klein, Jason P Acker, Philip C Spinella, Angelo D'Alessandro, Bernhard Palsson, Thomas J Raife, Michael P Busch, Timothy J McMahon, Marcos Intaglietta, Harold M Swartz, Michael A Dubick, Sylvain Cardin, Rakesh P Patel, Charles Natanson, John W Weisel, Jennifer A Muszynski, Philip J Norris, Paul M Ness
The US Food and Drug Administration (FDA) held a workshop on red blood cell (RBC) product regulatory science on October 6 and 7, 2016, at the Natcher Conference Center on the National Institutes of Health (NIH) Campus in Bethesda, Maryland. The workshop was supported by the National Heart, Lung, and Blood Institute, NIH; the Department of Defense; the Office of the Assistant Secretary for Health, Department of Health and Human Services; and the Center for Biologics Evaluation and Research, FDA. The workshop reviewed the status and scientific basis of the current regulatory framework and the available scientific tools to expand it to evaluate innovative and future RBC transfusion products...
December 15, 2017: Transfusion
https://www.readbyqxmd.com/read/29238299/the-htm-spatial-pooler-a-neocortical-algorithm-for-online-sparse-distributed-coding
#11
Yuwei Cui, Subutai Ahmad, Jeff Hawkins
Hierarchical temporal memory (HTM) provides a theoretical framework that models several key computational principles of the neocortex. In this paper, we analyze an important component of HTM, the HTM spatial pooler (SP). The SP models how neurons learn feedforward connections and form efficient representations of the input. It converts arbitrary binary input patterns into sparse distributed representations (SDRs) using a combination of competitive Hebbian learning rules and homeostatic excitability control...
2017: Frontiers in Computational Neuroscience
https://www.readbyqxmd.com/read/29224409/intellectual-property-considerations-for-molecular-diagnostic-development-with-emphasis-on-companion-diagnostics
#12
Harry Glorikian, Richard Jeremy Warburg, Kelly Moore, Jennifer Malinowski
The development of molecular diagnostics is a complex endeavor, with multiple regulatory pathways to consider and numerous approaches to development and commercialization. Companion diagnostics, devices which are "essential for the safe and effective use of a corresponding drug or diagnostic product" (see U.S. Food & Drug Administration, In Vitro Diagnostics - Companion Diagnostics, U.S. Dept. of Health & Human Services(2016), available at https://www.fda.gov/medicaldevices/productsandmedicalprocedures/invitrodiagnostics/ucm407297...
December 9, 2017: Expert Opinion on Therapeutic Patents
https://www.readbyqxmd.com/read/29214564/undiagnosed-diseases-italy-us-collaboration-and-international-efforts-to-tackle-rare-and-common-diseases-lacking-a-diagnosis
#13
Domenica Taruscio, Giovanna Floridia, Marco Salvatore, Stephen C Groft, William A Gahl
Rare diseases (RD), according to European Union criteria, affect 5 per 10,000 persons, or 30 million people, in the EU; in the USA, RD are defined as conditions that affect fewer than 200,000 individuals in the population (320 million). Most known rare disorders are severe and chronic, with many being degenerative and life threatening. There are roughly 5000-8000 rare diseases (European Commission, DG Health and Food Safety, Public Health, Rare Diseases, Policy.http://ec.europa.eu/health/rare_diseases/policy/index_en...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/29211833/a-prospective-phase-ii-study-of-combined-androgen-blockade-in-patients-with-androgen-receptor-positive-metastatic-or-locally-advanced-unresectable-salivary-gland-carcinoma
#14
C Fushimi, Y Tada, H Takahashi, T Nagao, H Ojiri, T Masubuchi, T Matsuki, K Miura, D Kawakita, H Hirai, E Hoshino, S Kamata, T Saotome
Background: There is no standard first-line chemotherapy for recurrent/metastatic or unresectable locally advanced salivary gland carcinoma (SGC). Patients and methods: We conducted a single institution, open-label, single arm, phase II trial of combined androgen blockade (CAB) for androgen receptor (AR)-positive SGC. Leuprorelin acetate was administered subcutaneously at a dose of 3.75 mg every 4 weeks. Bicalutamide was administered orally at a daily dose of 80 mg...
December 1, 2017: Annals of Oncology: Official Journal of the European Society for Medical Oncology
https://www.readbyqxmd.com/read/29186328/meta-analytic-principal-component-analysis-in-integrative-omics-application
#15
SungHwan Kim, Dongwan Kang, Zhiguang Huo, Yongseok Park, George C Tseng
Motivation: With the prevalent usage of microarray and massively parallel sequencing, numerous high-throughput omics datasets have become available in the public domain. Integrating abundant information among omics datasets is critical to elucidate biological mechanisms. Due to the high-dimensional nature of the data, methods such as principal component analysis (PCA) have been widely applied, aiming at effective dimension reduction and exploratory visualization. Results: In this paper, we combine multiple omics datasets of identical or similar biological hypothesis and introduce two variations of meta-analytic framework of PCA, namely MetaPCA...
November 23, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29185697/donor-acceptor-type-s-n-heteroacene-based-hole-transporting-materials-for-efficient-perovskite-solar-cells
#16
Neha Arora, Christoph Wetzel, M Ibrahim Dar, Amaresh Mishra, Pankaj Yadav, Christopher Steck, Shaik M Zakeeruddin, Peter Bäuerle, Michael Grätzel
Two new donor-acceptor (D-A)-substituted S,N-heteroacene-based molecules were developed and investigated as hole transporting material (HTM) for perovskite solar cells (PSC). Optical and electrochemical characterization brought out that the energy levels of both HTMs are suitable for their use in PSCs. Consequently, an impressive power-conversion efficiency of 17.7% and 16.1% was achieved from PSCs involving the HTM-1 and HTM-2, respectively. The optoelectronic properties in terms of series resistance, conductivity, and charge carrier recombination were further examined to unfold the potential of these new HTMs...
November 29, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29182301/electropolymerization-porous-aromatic-framework-film-as-hole-transport-layer-for-inverted-perovskite-solar-cells-with-superior-stability
#17
Yudi Wang, Shuhao Zhang, Jionghua Wu, Kuan Liu, Dongmei Li, Qingbo Meng, Guangshan Zhu
PAF-86 film is electropolymerization (EP) by targeted monomer M1 tethered bifunctional carbozolyl moieties which not only serve electron-donation but also provides effective electro-chemical (EC) active sites. The resulting PAF-86 film possess fairly compact surface, remarkable stability, efficient hole extraction capacity and hole transporting materials (HTM) for inverted heterojunction perovskite solar cells (PSCs). Likewise, our investigation shows that, PAF-86 film based perovskite solar cells (PSCs) retained about 80% power conversion efficiency (PCE) without encapsulation in air than poly(3,4-ethylenedio-xythiophene): poly(styrenesulfonate) (PEDOT:PSS) based PSCs devices reduces 4% under the same conditions...
November 28, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29182245/a-molecular-flower-as-the-high-mobility-hole-transport-material-for-perovskite-solar-cells
#18
Chun Kou, Shiyu Feng, Hongshi Li, Wenhua Li, Dongmei Li, Qingbo Meng, Zhishan Bo
To develop novel hole transport materials (HTMs) with less synthetic steps is still of great challenge. Here, a small molecule hexakis[4-(N,N-di-p-methoxyphenylamino)phenyl]benzene (F-1) was successfully synthetized by a relatively simple scenario. F-1 exhibits a deep highest occupied molecular orbital (HOMO) energy level of -5.31 eV. Notably, F-1 also features a two times higher hole mobility of 4.98Χ10-4 cm2v-1s-1 than that of the mostly used Spiro-OMeTAD. Consequently, F-1-based perovskite solar cells (PSC) show markedly improved performance compared with Spiro-OMeTAD based ones...
November 28, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29179799/additives-hole-transporting-materials-and-spectroscopic-methods-to-characterize-the-properties-of-perovskite-films
#19
Amita Ummadisingu, Ji-Youn Seo, Marko Stojanovic, Shaik M Zakeeruddin, Michael Grätzel, Anders Hagfeldt, Nick Vlachopoulos, Michael Saliba
The achievement of high efficiency and high stability in perovskite solar cells (PSCs) requires optimal selection and evaluation of the various components. After a brief introduction to the perovskite materials and their historical evolution, the first part is devoted to the hole transporting material (HTM), between photoelectrode and dark counter electrode. The basic requirements for an efficient HTM are stated. Subsequently, the most used HTM, spiro-OMeTAD, is compared to alternative HTMs, both small-molecule size species and electronically conducting polymers...
November 29, 2017: Chimia
https://www.readbyqxmd.com/read/29179033/validation-of-the-arm-profile-score-in-assessing-upper-limb-functional-impairments-in-people-with-multiple-sclerosis
#20
Federica Corona, Elisa Gervasoni, Giancarlo Coghe, Eleonora Cocco, Maurizio Ferrarin, Massimiliano Pau, Davide Cattaneo
BACKGROUND: Although upper limb (UL) impairments are widespread in people with Multiple Sclerosis (pwMS), there is limited quantitative evidence concerning their specific features. The aim of this study is to validate a synthetic measure based on kinematic data to define the degree of deviation from a physiologic pattern during the "hand to mouth" (HTM) task. METHODS: Twenty pwMS (mean age 51.2 SD 11.1) years, Expanded Disability Status Scale (EDSS) score in the range 2-6...
November 22, 2017: Clinical Biomechanics
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