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https://www.readbyqxmd.com/read/29728226/radiomics-in-radiooncology-challenging-the-medical-physicist
#1
REVIEW
Jan C Peeken, Michael Bernhofer, Benedikt Wiestler, Tatyana Goldberg, Daniel Cremers, Burkhard Rost, Jan J Wilkens, Stephanie E Combs, Fridtjof Nüsslin
PURPOSE: Noticing the fast growing translation of artificial intelligence (AI) technologies to medical image analysis this paper emphasizes the future role of the medical physicist in this evolving field. Specific challenges are addressed when implementing big data concepts with high-throughput image data processing like radiomics and machine learning in a radiooncology environment to support clinical decisions. METHODS: Based on the experience of our interdisciplinary radiomics working group, techniques for processing minable data, extracting radiomics features and associating this information with clinical, physical and biological data for the development of prediction models are described...
April 2018: Physica Medica: PM
https://www.readbyqxmd.com/read/29700074/emerging-role-of-precision-medicine-in-cardiovascular-disease
#2
REVIEW
Jane A Leopold, Joseph Loscalzo
Precision medicine is an integrative approach to cardiovascular disease prevention and treatment that considers an individual's genetics, lifestyle, and exposures as determinants of their cardiovascular health and disease phenotypes. This focus overcomes the limitations of reductionism in medicine, which presumes that all patients with the same signs of disease share a common pathophenotype and, therefore, should be treated similarly. Precision medicine incorporates standard clinical and health record data with advanced panomics (ie, transcriptomics, epigenomics, proteomics, metabolomics, and microbiomics) for deep phenotyping...
April 27, 2018: Circulation Research
https://www.readbyqxmd.com/read/29568436/a-structural-examination-and-collision-cross-section-database-for-over-500-metabolites-and-xenobiotics-using-drift-tube-ion-mobility-spectrometry
#3
Xueyun Zheng, Noor A Aly, Yuxuan Zhou, Kevin T Dupuis, Aivett Bilbao, Vanessa L Paurus, Daniel J Orton, Ryan Wilson, Samuel H Payne, Richard D Smith, Erin S Baker
The confident identification of metabolites and xenobiotics in biological and environmental studies is an analytical challenge due to their immense dynamic range, vast chemical space and structural diversity. Ion mobility spectrometry (IMS) is widely used for small molecule analyses since it can separate isomeric species and be easily coupled with front end separations and mass spectrometry for multidimensional characterizations. However, to date IMS metabolomic and exposomic studies have been limited by an inadequate number of accurate collision cross section (CCS) values for small molecules, causing features to be detected but not confidently identified...
November 1, 2017: Chemical Science
https://www.readbyqxmd.com/read/29217119/panomics-for-precision-medicine
#4
REVIEW
Charanjit Sandhu, Alia Qureshi, Andrew Emili
Medicine is poised to undergo a digital transformation. High-throughput platforms are creating terabytes of genomic, transcriptomic, proteomic, and metabolomic data. The challenge is to interpret these data in a meaningful manner - to uncover relationships that are not readily apparent between molecular profiles and states of health or disease. This will require the development of novel data pipelines and computational tools. The combined analysis of multi-dimensional data is referred to as 'panomics'. The ultimate hope of integrative panomics is that it will lead to the discovery and application of novel markers and targeted therapeutics that drive forward a new era of 'precision medicine' where inter-individual variation is accounted for in the treatment of patients...
January 2018: Trends in Molecular Medicine
https://www.readbyqxmd.com/read/29207682/over-forty-years-of-bladder-cancer-glycobiology-where-do-glycans-stand-facing-precision-oncology
#5
REVIEW
Rita Azevedo, Andreia Peixoto, Cristiana Gaiteiro, Elisabete Fernandes, Manuel Neves, Luís Lima, Lúcio Lara Santos, José Alexandre Ferreira
The high molecular heterogeneity of bladder tumours is responsible for significant variations in disease course, as well as elevated recurrence and progression rates, thereby hampering the introduction of more effective targeted therapeutics. The implementation of precision oncology settings supported by robust molecular models for individualization of patient management is warranted. This effort requires a comprehensive integration of large sets of panomics data that is yet to be fully achieved. Contributing to this goal, over 40 years of bladder cancer glycobiology have disclosed a plethora of cancer-specific glycans and glycoconjugates (glycoproteins, glycolipids, proteoglycans) accompanying disease progressions and dissemination...
October 31, 2017: Oncotarget
https://www.readbyqxmd.com/read/28767404/over-forty-years-of-bladder-cancer-glycobiology-where-do-glycans-stand-facing-precision-oncology
#6
REVIEW
Rita Azevedo, Andreia Peixoto, Cristiana Gaiteiro, Elisabete Fernandes, Manuel Neves, Luís Lima, Lúcio Lara Santos, José Alexandre Ferreira
The high molecular heterogeneity of bladder tumours is responsible for significant variations in disease course, as well as elevated recurrence and progression rates, thereby hampering the introduction of more effective targeted therapeutics. The implementation of precision oncology settings supported by robust molecular models for individualization of patient management is warranted. This effort requires a comprehensive integration of large sets of panomics data that is yet to be fully achieved. Contributing to this goal, over 40 years of bladder cancer glycobiology have disclosed a plethora of cancer-specific glycans and glycoconjugates (glycoproteins, glycolipids, proteoglycans) accompanying disease progressions and dissemination...
July 21, 2017: Oncotarget
https://www.readbyqxmd.com/read/28685677/the-panomics-approach-in-neurodegenerative-disorders
#7
Balazs Szatmari, Peter Balicza, Gyorgy Nemeth, Judit Mária Molnár
The molecular genetic technologies revolutionized the diagnostics of many disorders. Thanks to the new molecular techniques and the rapid improvement of the information technologies the number of mendelien inherited disorders have increased rapidly in the last five years. The omics era brought radical changes in the understanding of complex disorders and the underlying pathomechanisms. However, in most complex disorders the genome wide association studies could not clarify the genetic background even for disorders where a very strong heritability had been observed...
July 5, 2017: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/28626249/knowledge-of-free-delivery-policy-among-women-who-delivered-at-health-facilities-in-oudomxay-province-lao-pdr
#8
Tengbriacheu Chankham, Eiko Yamamoto, Joshua A Reyer, Rahman Arafat, Innoukham Khonemany, Sayamoungkhoun Panome, Dalavong Hongkham, Phommalaysith Bounfeng, Xeuthvongsa Anonh, Nobuyuki Hamajima
To promote the utilization of maternal health services and reduce financial barriers, the Laos government introduced its "Free Maternal Health Services Policy" in 2012. This policy provides free maternal health services for pregnant women, which includes costs related to treatment, transportation, food fees, referral and an incentive for four antenatal care appointments. This study aims to ascertain the knowledge level regarding this policy among Lao women and determine their level of satisfaction with the maternal service provision...
February 2017: Nagoya Journal of Medical Science
https://www.readbyqxmd.com/read/27756391/household-clustering-of-asymptomatic-malaria-infections-in-xepon-district-savannakhet-province-lao-pdr
#9
Tiengkham Pongvongsa, Daisuke Nonaka, Moritoshi Iwagami, Masami Nakatsu, Panom Phongmany, Futoshi Nishimoto, Jun Kobayashi, Bouasy Hongvanthon, Paul T Brey, Kazuhiko Moji, Toshihiro Mita, Shigeyuki Kano
BACKGROUND: In the Lao PDR, malaria morbidity and mortality have remarkably decreased over the past decade. However, asymptomatic infections in rural villages contribute to the on-going local transmission. The primary objective of this study was to explore the characteristics of infections in a malaria-endemic district of the Lao PDR. The specific objectives were to investigate the prevalence and species of malaria parasites using molecular methods and to assess individual and household parasite levels and the characteristics associated with malaria infection...
October 18, 2016: Malaria Journal
https://www.readbyqxmd.com/read/27590516/on-metabolic-reprogramming-and-tumor-biology-a-comprehensive-survey-of-metabolism-in-breast-cancer
#10
REVIEW
Judith Penkert, Tim Ripperger, Maximilian Schieck, Brigitte Schlegelberger, Doris Steinemann, Thomas Illig
Altered metabolism in tumor cells has been a focus of cancer research for as long as a century but has remained controversial and vague due to an inhomogeneous overall picture. Accumulating genomic, metabolomic, and lastly panomic data as well as bioenergetics studies of the past few years enable a more comprehensive, systems-biologic approach promoting deeper insight into tumor biology and challenging hitherto existing models of cancer bioenergetics. Presenting a compendium on breast cancer-specific metabolome analyses performed thus far, we review and compile currently known aspects of breast cancer biology into a comprehensive network, elucidating previously dissonant issues of cancer metabolism...
October 11, 2016: Oncotarget
https://www.readbyqxmd.com/read/27296652/individualized-network-based-drug-repositioning-infrastructure-for-precision-oncology-in-the-panomics-era
#11
REVIEW
Feixiong Cheng, Huixiao Hong, Shengyong Yang, Yuquan Wei
Advances in next-generation sequencing technologies have generated the data supporting a large volume of somatic alterations in several national and international cancer genome projects, such as The Cancer Genome Atlas and the International Cancer Genome Consortium. These cancer genomics data have facilitated the revolution of a novel oncology drug discovery paradigm from candidate target or gene studies toward targeting clinically relevant driver mutations or molecular features for precision cancer therapy...
July 1, 2017: Briefings in Bioinformatics
https://www.readbyqxmd.com/read/27234446/asymptomatic-plasmodium-infections-in-18-villages-of-southern-savannakhet-province-lao-pdr-laos
#12
Koukeo Phommasone, Bipin Adhikari, Gisela Henriques, Tiengkham Pongvongsa, Panom Phongmany, Lorenz von Seidlein, Nicholas J White, Nicholas P J Day, Arjen M Dondorp, Paul N Newton, Mallika Imwong, Mayfong Mayxay
BACKGROUND: A large fraction of Plasmodium infections do not cause clinical signs and symptoms of disease and persist at densities in blood that are not detectable by microscopy or rapid diagnostic tests. These infections may be critical as a transmission reservoir in areas of low malaria endemicity. Understanding the epidemiology of these infections would be helpful for malaria elimination. METHODS: A cross-sectional survey was conducted in Thapangthong and Nong Districts of Savannakhet Province, Lao PDR, to determine the prevalence of parasitaemia...
May 27, 2016: Malaria Journal
https://www.readbyqxmd.com/read/26828132/protein-glycosylation-in-gastric-and-colorectal-cancers-toward-cancer-detection-and-targeted-therapeutics
#13
REVIEW
José Alexandre Ferreira, Ana Magalhães, Joana Gomes, Andreia Peixoto, Cristiana Gaiteiro, Elisabete Fernandes, Lúcio Lara Santos, Celso A Reis
Glycosylation is the most frequent and structurally complex posttranslational modification in cell-surface and secreted proteins. Glycans are major orchestrators of biological processes, namely, by controlling protein folding and key biological functions such as cell adhesion, migration, signaling and immune recognition. Altered glycosylation is considered a hallmark of malignant transformations that decisively contributes to disease outcome. This review comprehensively summarizes the main findings related with gastrointestinal cancers and the decisive impact of aberrant glycosylation on tumor biology toward more aggressive phenotypes...
February 28, 2017: Cancer Letters
https://www.readbyqxmd.com/read/26712461/a-next-generation-multiscale-view-of-inborn-errors-of-metabolism
#14
REVIEW
Carmen A Argmann, Sander M Houten, Jun Zhu, Eric E Schadt
Inborn errors of metabolism (IEM) are not unlike common diseases. They often present as a spectrum of disease phenotypes that correlates poorly with the severity of the disease-causing mutations. This greatly impacts patient care and reveals fundamental gaps in our knowledge of disease modifying biology. Systems biology approaches that integrate multi-omics data into molecular networks have significantly improved our understanding of complex diseases. Similar approaches to study IEM are rare despite their complex nature...
January 12, 2016: Cell Metabolism
https://www.readbyqxmd.com/read/26447778/genetic-response-of-rat-supraspinatus-tendon-and-muscle-to-exercise
#15
Sarah Ilkhanipour Rooney, John W Tobias, Pankti R Bhatt, Andrew F Kuntz, Louis J Soslowsky
Inflammation is a complex, biologic event that aims to protect and repair tissue. Previous studies suggest that inflammation is critical to induce a healing response following acute injury; however, whether similar inflammatory responses occur as a result of beneficial, non-injurious loading is unknown. The objective of this study was to screen for alterations in a subset of inflammatory and extracellular matrix genes to identify the responses of rat supraspinatus tendon and muscle to a known, non-injurious loading condition...
2015: PloS One
https://www.readbyqxmd.com/read/26115035/snakebites-in-two-rural-districts-in-lao-pdr-community-based-surveys-disclose-high-incidence-of-an-invisible-public-health-problem
#16
Inthanomchanh Vongphoumy, Panom Phongmany, Sengdao Sydala, Nouda Prasith, Ralf Reintjes, Joerg Blessmann
BACKGROUND: The Lao PDR (Laos) is one of the least developed countries in Asia with an estimated 25% of the population living in poverty. It is the habitat of some highly venomous snakes and the majority of the population earns their living from agricultural activities. Under these circumstances the incidence of snakebites is expected to be high. METHODS: Two cross-sectional, community-based surveys were performed in Champone and Phin district, Savannakhet province, Lao PDR to estimate snakebite incidence...
2015: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/26060422/households-with-insufficient-bednets-in-a-village-with-sufficient-bednets-evaluation-of-household-bednet-coverage-using-bednet-distribution-index-in-xepon-district-lao-pdr
#17
Daisuke Nonaka, Tiengkham Pongvongsa, Futoshi Nishimoto, Phetsomphon Nansounthavong, Yu Sato, Hongwei Jiang, Rie Takeuchi, Kazuhiko Moji, Panom Phongmany, Jun Kobayashi
In Lao PDR, the National Malaria Control Program (NMCP) evaluates bednet coverage, often at the village level, using a coverage target of one net per 2.5 (or fewer) persons in a given population. However, in villages that meet the target, not all households necessarily meet the target or utilize all available bednets. This study explored households that fell short of the target and household utilization of bednets in villages that met the target of bednet coverage set by the NMCP. The person per net ratio (PPNR), which is defined as the population divided by the number of available bednets in a household/village, was used to determine whether a household/village met the NMCP target...
June 2015: Tropical Medicine and Health
https://www.readbyqxmd.com/read/25990271/deoxycholic-acid-inhibited-proliferation-and-induced-apoptosis-and-necrosis-by-regulating-the-activity-of-transcription-factors-in-rat-pancreatic-acinar-cell-line-ar42j
#18
Guixin Zhang, Jingwen Zhang, Dong Shang, Bing Qi, Hailong Chen
The objective of this study is to investigate the effect of deoxycholic acid (DCA) on rat pancreatic acinar cell line AR42J and the functional mechanisms of DCA on AR42J cells. AR42J cells were treated with various concentrations of DCA for 24 h and also treated with 0.4 mmol/L DCA for multiple times, and then, 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay was performed to detect the AR42J cell survival rate. Flow cytometric was used to detect the cell apoptosis and necrosis in AR42J cells treated with 0...
September 2015: In Vitro Cellular & Developmental Biology. Animal
https://www.readbyqxmd.com/read/25887273/integromics-network-meta-analysis-on-cardiac-aging-offers-robust-multi-layer-modular-signatures-and-reveals-micronome-synergism
#19
Konstantina Dimitrakopoulou, Aristidis G Vrahatis, Anastasios Bezerianos
BACKGROUND: The avalanche of integromics and panomics approaches shifted the deciphering of aging mechanisms from single molecular entities to communities of them. In this orientation, we explore the cardiac aging mechanisms - risk factor for multiple cardiovascular diseases - by capturing the micronome synergism and detecting longevity signatures in the form of communities (modules). For this, we developed a meta-analysis scheme that integrates transcriptome expression data from multiple cardiac-specific independent studies in mouse and human along with proteome and micronome interaction data in the form of multiple independent weighted networks...
2015: BMC Genomics
https://www.readbyqxmd.com/read/25776663/integromics-network-meta-analysis-on-cardiac-aging-offers-robust-multi-layer-modular-signatures-and-reveals-micronome-synergism
#20
Konstantina Dimitrakopoulou, Aristidis G Vrahatis, Anastasios Bezerianos
BACKGROUND: The avalanche of integromics and panomics approaches shifted the deciphering of aging mechanisms from single molecular entities to communities of them. In this orientation, we explore the cardiac aging mechanisms - risk factor for multiple cardiovascular diseases - by capturing the micronome synergism and detecting longevity signatures in the form of communities (modules). For this, we developed a meta-analysis scheme that integrates transcriptome expression data from multiple cardiac-specific independent studies in mouse and human along with proteome and micronome interaction data in the form of multiple independent weighted networks...
2015: BMC Genomics
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