Abstract：
BACKGROUND:Identifying subtypes of complex diseases such as cancer is the very first step toward developing highly customized therapeutics on such diseases, as their origins significantly vary even with similar physiological characteristics. There have been many studies to recognize subtypes of various cancer based on genomic signatures, and most of them rely on approaches based on the signatures or features developed from individual genes. However, the idea of network-driven activities of biological functions has gained a lot of interests, as more evidence is found that biological systems can show highly diverse activity patterns because genes can interact differentially across specific molecular contexts. METHODS:In this study, we proposed an in-silico method to quantify pathway activities with a resolution of genetic interactions for individual samples, and developed a method to compute the discrepancy between samples based on the quantified pathway activities. RESULTS:By using the proposed discrepancy measure between sample pathway activities in clustering melanoma gene expression data, we identified two potential subtypes of melanoma with distinguished pathway activities, where the two groups of patients showed significantly different survival patterns. We also investigated selected pathways with distinguished activity patterns between the two groups, and the result suggests hypotheses on the mechanisms driving the two potential subtypes. CONCLUSIONS:By using the proposed approach of modeling pathway activities with a resolution of genetic interactions, potential novel subtypes of disease were proposed with accompanying hypotheses on subtype-specific genetic interaction information.
journal_name
BMC Med Inform Decis Makjournal_title
BMC medical informatics and decision makingauthors
Jung Sdoi
10.1186/s12911-016-0295-2subject
Has Abstractpub_date
2016-07-18 00:00:00pages
55issn
1472-6947pii
10.1186/s12911-016-0295-2journal_volume
16 Suppl 1pub_type
杂志文章abstract：BACKGROUND:Collaboration among investigators has become critical to scientific research. This includes ad hoc collaboration established through personal contacts as well as formal consortia established by funding agencies. Continued growth in online resources for scientific research and communication has promoted the d...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-7-17
更新日期：2007-06-20 00:00:00
abstract：BACKGROUND:Digital health interventions can fill gaps in mental healthcare provision. However, autonomous e-mental health (AEMH) systems also present challenges for effective risk management. To balance autonomy and safety, AEMH systems need to detect risk situations and act on these appropriately. One option is sendin...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-019-0796-x
更新日期：2019-03-18 00:00:00
abstract：BACKGROUND:In order to better help doctors make decision in the clinical setting, research is necessary to connect electronic health record (EHR) with the biomedical literature. Pseudo Relevance Feedback (PRF) is a kind of classical query modification technique that has shown to be effective in many retrieval models an...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-019-0986-6
更新日期：2019-12-12 00:00:00
abstract：BACKGROUND:New Specific Application Domain (SAD) heuristics or design principles are being developed to guide the design and evaluation of mobile applications in a bid to improve on the usability of these applications. This is because the existing heuristics are rather generic and are often unable to reveal a large num...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-018-0718-3
更新日期：2019-01-09 00:00:00
abstract：BACKGROUND:This paper presents a conditional random fields (CRF) method that enables the capture of specific high-order label transition factors to improve clinical named entity recognition performance. Consecutive clinical entities in a sentence are usually separated from each other, and the textual descriptions in cl...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-019-0865-1
更新日期：2019-07-15 00:00:00
abstract：BACKGROUND:The purpose of this study was to assess the impact of accessing primary care records on unscheduled care. Unscheduled care is typically delivered in hospital Emergency Departments. Studies published to December 2014 reporting on primary care record access during unscheduled care were retrieved. RESULTS:Twen...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章,评审
doi：10.1186/s12911-017-0523-4
更新日期：2017-09-22 00:00:00
abstract：BACKGROUND:National authorities have to follow the evolution of diabetes to implement public health policies. An algorithm was developed to identify patients with treated type 2 diabetes and estimate its annual prevalence in Luxembourg using health insurance claims when no diagnosis code is available. METHODS:The DIAB...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-11-23
更新日期：2011-04-14 00:00:00
abstract：BACKGROUND:Evaluation is a challenging but necessary part of the development cycle of clinical information systems like the electronic medical records (EMR) system. It is believed that such evaluations should include multiple perspectives, be comparative and employ both qualitative and quantitative methods. Self-admini...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-4-1
更新日期：2004-02-09 00:00:00
abstract：BACKGROUND:Recently, claim-data-based comorbidity-adjusted methods such as the Charlson index and the Elixhauser comorbidity measures have been widely used among researchers. At the same time, there have been an increasing number of attempts to improve the predictability of comorbidity-adjusted models. We tried to impr...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-13-128
更新日期：2013-11-20 00:00:00
abstract：BACKGROUND:Although fecal hemoglobin concentration (f-Hb) was highly associated with the risk of colorectal neoplasms, current studies on this subject are hampered by skewedness of the data and the ordinal property of f-Hb has not been well studied yet. Our aim was to develop a quantile-based method to estimate adjuste...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-019-0812-1
更新日期：2019-05-02 00:00:00
abstract：BACKGROUND:Cardiovascular disease (CVD) is the leading cause of death in the United States (US). Better cardiovascular health (CVH) is associated with CVD prevention. Predicting future CVH levels may help providers better manage patients' CVH. We hypothesized that CVH measures can be predicted based on previous measure...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-020-01345-1
更新日期：2021-01-06 00:00:00
abstract：BACKGROUND:Clinical vignettes are often used to elicit information about health conditions in research studies. This review summarizes the components of clinical vignettes describing Alzheimer's disease (AD) or other dementias. The purpose is to provide recommendations for the development of standardized vignettes that...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章,评审
doi：10.1186/s12911-015-0179-x
更新日期：2015-07-15 00:00:00
abstract：BACKGROUND:Real-world data on the benefit/risk profile of medicines is needed, particularly in patients who are ineligible for randomised controlled trials conducted for registration purposes. This paper describes the methodology and source data verification which enables the conduct of pre-licensing clinical trials of...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-015-0132-z
更新日期：2015-02-07 00:00:00
abstract：BACKGROUND:Automated reporting of estimated glomerular filtration rate (eGFR) is a recent advance in laboratory information technology (IT) that generates a measure of kidney function with chemistry laboratory results to aid early detection of chronic kidney disease (CKD). Because accurate diagnosis of CKD is critical ...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-12-69
更新日期：2012-07-12 00:00:00
abstract：BACKGROUND:Emergency room reports pose specific challenges to natural language processing techniques. In this setting, violence episodes on women, elderly and children are often under-reported. Categorizing textual descriptions as containing violence-related injuries (V) vs. non-violence-related injuries (NV) is thus a...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-020-01237-4
更新日期：2020-10-15 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-4-18
更新日期：2004-10-16 00:00:00
abstract：BACKGROUND:Simulation applications on operations management in hospitals are frequently published and claim to support decision-making on operations management subjects. However, the reported implementation rates of recommendations are low and the actual impact of the changes recommended by the modeler has hardly been ...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章,评审
doi：10.1186/1472-6947-12-18
更新日期：2012-03-14 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-8-28
更新日期：2008-06-25 00:00:00
abstract：BACKGROUND:Applying evidence is one of the most challenging steps of evidence-based clinical practice. Healthcare professionals have difficulty interpreting evidence and translating it to patients. Decision boxes are summaries of the most important benefits and harms of diagnostic, therapeutic, and preventive health in...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-11-17
更新日期：2011-03-09 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-12-32
更新日期：2012-04-13 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-14-9
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-019-0781-4
更新日期：2019-04-04 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-020-01334-4
更新日期：2020-12-30 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-015-0227-6
更新日期：2015-12-23 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/s12911-018-0646-2
更新日期：2018-07-16 00:00:00
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journal_title：BMC medical informatics and decision making
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doi：10.1186/s12911-018-0711-x
更新日期：2018-12-04 00:00:00
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-11-13
更新日期：2011-02-17 00:00:00
abstract：BACKGROUND:Circular RNAs (circRNAs) are those RNA molecules that lack the poly (A) tails, which present the closed-loop structure. Recent studies emphasized that some circRNAs imply different functions from canonical transcripts, and further associated with complex diseases. Several computational methods have been deve...
journal_title：BMC medical informatics and decision making
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doi：10.1186/s12911-020-1117-0
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journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-7-5
更新日期：2007-02-21 00:00:00
abstract：BACKGROUND:Although regulatory compliance in academic research is enforced by law to ensure high quality and safety to participants, its implementation is frequently hindered by cost and logistical barriers. In order to decrease these barriers, we have developed a Web-based application, Duke Surgery Research Central (D...
journal_title：BMC medical informatics and decision making
pub_type： 杂志文章
doi：10.1186/1472-6947-6-32
更新日期：2006-07-27 00:00:00
