322 research outputs found
An Interpretable Deep Hierarchical Semantic Convolutional Neural Network for Lung Nodule Malignancy Classification
While deep learning methods are increasingly being applied to tasks such as
computer-aided diagnosis, these models are difficult to interpret, do not
incorporate prior domain knowledge, and are often considered as a "black-box."
The lack of model interpretability hinders them from being fully understood by
target users such as radiologists. In this paper, we present a novel
interpretable deep hierarchical semantic convolutional neural network (HSCNN)
to predict whether a given pulmonary nodule observed on a computed tomography
(CT) scan is malignant. Our network provides two levels of output: 1) low-level
radiologist semantic features, and 2) a high-level malignancy prediction score.
The low-level semantic outputs quantify the diagnostic features used by
radiologists and serve to explain how the model interprets the images in an
expert-driven manner. The information from these low-level tasks, along with
the representations learned by the convolutional layers, are then combined and
used to infer the high-level task of predicting nodule malignancy. This unified
architecture is trained by optimizing a global loss function including both
low- and high-level tasks, thereby learning all the parameters within a joint
framework. Our experimental results using the Lung Image Database Consortium
(LIDC) show that the proposed method not only produces interpretable lung
cancer predictions but also achieves significantly better results compared to
common 3D CNN approaches
ARCHANGEL: Tamper-proofing Video Archives using Temporal Content Hashes on the Blockchain
We present ARCHANGEL; a novel distributed ledger based system for assuring
the long-term integrity of digital video archives. First, we describe a novel
deep network architecture for computing compact temporal content hashes (TCHs)
from audio-visual streams with durations of minutes or hours. Our TCHs are
sensitive to accidental or malicious content modification (tampering) but
invariant to the codec used to encode the video. This is necessary due to the
curatorial requirement for archives to format shift video over time to ensure
future accessibility. Second, we describe how the TCHs (and the models used to
derive them) are secured via a proof-of-authority blockchain distributed across
multiple independent archives. We report on the efficacy of ARCHANGEL within
the context of a trial deployment in which the national government archives of
the United Kingdom, Estonia and Norway participated.Comment: Accepted to CVPR Blockchain Workshop 201
ARCHANGEL: Trusted Archives of Digital Public Documents
We present ARCHANGEL; a de-centralised platform for ensuring the long-term
integrity of digital documents stored within public archives. Document
integrity is fundamental to public trust in archives. Yet currently that trust
is built upon institutional reputation --- trust at face value in a centralised
authority, like a national government archive or University. ARCHANGEL proposes
a shift to a technological underscoring of that trust, using distributed ledger
technology (DLT) to cryptographically guarantee the provenance, immutability
and so the integrity of archived documents. We describe the ARCHANGEL
architecture, and report on a prototype of that architecture build over the
Ethereum infrastructure. We report early evaluation and feedback of ARCHANGEL
from stakeholders in the research data archives space.Comment: Submitted to ACM Document Engineering 201
Identification of an iron–hepcidin complex
Following its identification as a liver-expressed antimicrobial peptide, the hepcidin peptide was later shown to be a key player in iron homoeostasis. It is now proposed to be the 'iron hormone' which, by interacting with the iron transporter ferroportin, prevents further iron import into the circulatory system. This conclusion was reached using the corresponding synthetic peptide, emphasizing the functional importance of the mature 25-mer peptide, but omitting the possible functionality of its maturation. From urine-purified native hepcidin, we recently demonstrated that a proportion of the purified hepcidin had formed iron-hepcidin complexes. This interaction was investigated further by computer modelling and, based on the sequence similarity of hepcidin with metallothionein, a three-dimensional model of hepcidin, containing one atom of iron, was constructed. To characterize these complexes further, the interaction with iron was analysed using different spectroscopic methods. Monoferric hepcidin was identified by MS, as were possibly other complexes containing two and three atoms of iron respectively, although these were present only in minor amounts. UV/visible absorbance and CD studies identified the iron-binding events which were facilitated at a physiological pH. EPR spectroscopy identified the ferric state of the bound metal, and indicated that the iron-hepcidin complex shares some similarities with the rubredoxin iron-sulfur complex, suggesting the presence of Fe(3+) in a tetrahedral sulfur co-ordination. The potential roles of iron binding for hepcidin are discussed, and we propose either a regulatory function in the maturation of pro-hepcidin into active hepcidin or as the necessary link in the interaction between hepcidin and ferroportin
Association of Intensive Blood Pressure Control and Living Arrangement on Cardiovascular Outcomes by Race
Importance: Living alone, a key proxy of social isolation, is a risk factor for cardiovascular disease. In addition, Black race is associated with less optimal blood pressure (BP) control than in other racial or ethnic groups. However, it is not clear whether living arrangement status modifies the beneficial effects of intensive BP control on reduction in cardiovascular events among Black individuals. Objective: To examine whether the association of intensive BP control with cardiovascular events differs by living arrangement among Black individuals and non-Black individuals (eg, individuals who identified as Alaskan Native, American Indian, Asian, Native Hawaiian, Pacific Islander, White, or other) in the Systolic Blood Pressure Intervention Trial (SPRINT). Design, Setting, and Participants: This secondary analysis incorporated data from SPRINT, a multicenter study of individuals with increased risk for cardiovascular disease and free of diabetes, enrolled at 102 clinical sites in the United States between November 2010 and March 2013. Race and living arrangement (ie, living alone or living with others) were self-reported. Data were collected between November 2010 and March 2013 and analyzed from January 2021 to October 2021. Exposures: The SPRINT participants were randomized to a systolic BP target of either less than 120 mm Hg (intensive treatment group) or less than 140 mm Hg (standard treatment group). Antihypertensive medications were adjusted to achieve the targets in each group. Main Outcomes and Measures: Cox proportional hazards model was used to investigate the association of intensive treatment with the incident composite cardiovascular outcome (by August 20, 2015) according to living arrangement among Black individuals and other individuals. Transportability formula was applied to generalize the SPRINT findings to hypothetical external populations by varying the proportion of Black race and living arrangement status. Results: Among the 9342 total participants, the mean (SD) age was 67.9 (9.4) years; 2793 participants [30%] were Black, 2714 [29%] lived alone, and 3320 participants (35.5%) were female. Over a median (IQR) follow-up of 3.22 (2.74-3.76) years, the primary composite cardiovascular outcome was observed in 67 of 1001 Black individuals living alone (6.7%), 76 of 1792 Black individuals living with others (4.2%), 108 of 1713 non-Black individuals living alone (6.3%), and 311 of 4836 non-Black individuals living with others (6.4%). The intensive treatment group showed a significantly lower rate of the composite cardiovascular outcome than the standard treatment group among Black individuals living with others (hazard ratio [HR], 0.53 [95% CI, 0.33-0.85]) but not among those living alone (HR, 1.07 [95% CI, 0.66-1.73]; P for interaction = .04). The association was observed among individuals who were not Black regardless of living arrangement status. Using transportability, we found a smaller or null association between intensive control and cardiovascular outcomes among hypothetical populations of 60% Black individuals or more and 60% or more of individuals living alone. Conclusions and Relevance: Intensive BP control was associated with a lower rate of cardiovascular events among Black individuals living with others and individuals who were not Black but not among Black individuals living alone. Trial Registration: ClinicalTrials.gov Identifier: NCT01206062
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Cancer Informatics for Cancer Centers (CI4CC): Building a Community Focused on Sharing Ideas and Best Practices to Improve Cancer Care and Patient Outcomes.
Cancer Informatics for Cancer Centers (CI4CC) is a grassroots, nonprofit 501c3 organization intended to provide a focused national forum for engagement of senior cancer informatics leaders, primarily aimed at academic cancer centers anywhere in the world but with a special emphasis on the 70 National Cancer Institute-funded cancer centers. Although each of the participating cancer centers is structured differently, and leaders' titles vary, we know firsthand there are similarities in both the issues we face and the solutions we achieve. As a consortium, we have initiated a dedicated listserv, an open-initiatives program, and targeted biannual face-to-face meetings. These meetings are a place to review our priorities and initiatives, providing a forum for discussion of the strategic and pragmatic issues we, as informatics leaders, individually face at our respective institutions and cancer centers. Here we provide a brief history of the CI4CC organization and meeting highlights from the latest CI4CC meeting that took place in Napa, California from October 14-16, 2019. The focus of this meeting was "intersections between informatics, data science, and population science." We conclude with a discussion on "hot topics" on the horizon for cancer informatics
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