Comprehensive Investigation on Controlling for CT Imaging Variabilities in Radiomics Studies.

Abstract:

:Radiomics has shown promise in improving models for predicting patient outcomes. However, to maximize the information gain of the radiomics features, especially in larger patient cohorts, the variability in radiomics features owing to differences between scanners and scanning protocols must be accounted for. To this aim, the imaging variability of radiomics feature values was evaluated on 100 computed tomography scanners at 35 clinics by imaging a radiomics phantom using a controlled protocol and the commonly used chest and head protocols of the local clinic. We used a linear mixed-effects model to determine the degree to which the manufacturer and individual scanners contribute to the overall variability. Using a controlled protocol reduced the overall variability by 57% and 52% compared to the local chest and head protocols respectively. The controlled protocol also reduced the relative contribution of the manufacturer to the total variability. For almost all variabilities (manufacturer, scanner, and residual with different preprocesssing), the controlled protocol scans had a significantly smaller variability than the local protocol scans did. For most radiomics features, the imaging variability was small relative to the inter-patient feature variability in non-small cell lung cancer and head and neck squamous cell carcinoma patient cohorts. From this study, we conclude that using controlled scans can reduce the variability in radiomics features, and our results demonstrate the importance of using controlled protocols in prospective radiomics studies.

journal_name

Sci Rep

journal_title

Scientific reports

authors

Ger RB,Zhou S,Chi PM,Lee HJ,Layman RR,Jones AK,Goff DL,Fuller CD,Howell RM,Li H,Stafford RJ,Court LE,Mackin DS

doi

10.1038/s41598-018-31509-z

subject

Has Abstract

pub_date

2018-08-29 00:00:00

pages

13047

issue

1

issn

2045-2322

pii

10.1038/s41598-018-31509-z

journal_volume

8

pub_type

杂志文章,多中心研究
  • West Nile virus transmission and human infection risk in Veneto (Italy): a modelling analysis.

    abstract::An intensified and continuous West Nile virus (WNV) spread across northern Italy has been observed since 2008, which caused more than one hundred reported human infections until 2016. Veneto is one of the Italian regions where WNV is considered endemic, and the greatest intensity of circulation was observed during 201...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-32401-6

    authors: Marini G,Rosà R,Pugliese A,Rizzoli A,Rizzo C,Russo F,Montarsi F,Capelli G

    更新日期:2018-09-18 00:00:00

  • New method for visualizing the dose rate distribution around the Fukushima Daiichi Nuclear Power Plant using artificial neural networks.

    abstract::This study proposes a new method of visualizing the ambient dose rate distribution using artificial neural networks (ANNs) from airborne radiation monitoring results. The method was applied to the results of the airborne radiation monitoring which was conducted around the Fukushima Daiichi Nuclear Power Plant by an un...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-021-81546-4

    authors: Sasaki M,Sanada Y,Katengeza EW,Yamamoto A

    更新日期:2021-01-20 00:00:00

  • Ras suppressor-1 (RSU-1) promotes cell invasion in aggressive glioma cells and inhibits it in non-aggressive cells through STAT6 phospho-regulation.

    abstract::Most gliomas are invasive tumors formed from glial cells and associated with high mortality rates. In this study, we characterized four glioma cell lines of varying degree of aggressiveness (H4, SW1088, A172 and U87-MG) in terms of morphology, cytoskeleton organization and stiffness, and evaluated their invasive poten...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-44200-8

    authors: Louca M,Stylianou A,Minia A,Pliaka V,Alexopoulos LG,Gkretsi V,Stylianopoulos T

    更新日期:2019-05-23 00:00:00

  • Active site competition is the mechanism for the inhibition of lipoprotein-associated phospholipase A2 by detergent micelles or lipoproteins and for the efficacy reduction of darapladib.

    abstract::Lipoprotein associated phospholipase A2 (Lp-PLA2) has been characterized for its interfacial activation as well as inhibition by detergent micelles and lipoprotein particles. The enzyme has been shown to bind on the surfaces of hydrophobic aggregates, such as detergent micelles, lipoprotein particles and even polystyr...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-74236-0

    authors: Zhuo S,Yuan C

    更新日期:2020-10-14 00:00:00

  • MLH1 single-nucleotide variant in circulating tumor DNA predicts overall survival of patients with hepatocellular carcinoma.

    abstract::Liquid biopsy can provide a strong basis for precision medicine. We aimed to identify novel single-nucleotide variants (SNVs) in circulating tumor DNA (ctDNA) in patients with hepatocellular carcinoma (HCC). Deep sequencing of plasma-derived ctDNA from 59 patients with HCC was performed using a panel of 2924 SNVs in 6...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-74494-y

    authors: Kim SS,Eun JW,Choi JH,Woo HG,Cho HJ,Ahn HR,Suh CW,Baek GO,Cho SW,Cheong JY

    更新日期:2020-10-20 00:00:00

  • Chronic unpredictable stress induces anxiety-like behaviors in young zebrafish.

    abstract::Exposure to stress during early life affects subsequent behaviors and increases the vulnerability to adult pathologies, a phenomenon that has been well documented in humans and rodents. In this study, we introduce a chronic unpredictable stress protocol adapted to young zebrafish, which is an increasingly popular vert...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-67182-4

    authors: Golla A,Østby H,Kermen F

    更新日期:2020-06-25 00:00:00

  • Innovative methods for random field establishment and statistical parameter inversion exemplified with 6082-T6 aluminum alloy.

    abstract::This paper aims to eliminate the disharmony between simulation and experiment, and takes the mechanical properties of 6082-T6 Al alloy as an example. In order to obtain the equivalent distribution of material properties after considering the randomicity of materials, a new inversion method combining with stochastic fi...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-54046-9

    authors: Zheng K,Yang K,Shi J,Yuan J,Zhou G

    更新日期:2019-11-28 00:00:00

  • Hinge-deleted IgG4 blocker therapy for acetylcholine receptor myasthenia gravis in rhesus monkeys.

    abstract::Autoantibodies against ion channels are the cause of numerous neurologic autoimmune disorders. Frequently, such pathogenic autoantibodies have a restricted epitope-specificity. In such cases, competing antibody formats devoid of pathogenic effector functions (blocker antibodies) have the potential to treat disease by ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-01019-5

    authors: Losen M,Labrijn AF,van Kranen-Mastenbroek VH,Janmaat ML,Haanstra KG,Beurskens FJ,Vink T,Jonker M,'t Hart BA,Mané-Damas M,Molenaar PC,Martinez-Martinez P,van der Esch E,Schuurman J,de Baets MH,Parren PWHI

    更新日期:2017-04-20 00:00:00

  • Controlled electron injection facilitated by nanoparticles for laser wakefield acceleration.

    abstract::We propose a novel injection scheme for laser-driven wakefield acceleration in which controllable localized electron injection is obtained by inserting nanoparticles into a plasma medium. The nanoparticles provide a very confined electric field that triggers localized electron injection where nonlinear plasma waves ar...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-34998-0

    authors: Cho MH,Pathak VB,Kim HT,Nam CH

    更新日期:2018-11-16 00:00:00

  • Egg parasitoid exploitation of plant volatiles induced by single or concurrent attack of a zoophytophagous predator and an invasive phytophagous pest.

    abstract::Zoophytophagous insect predators can induce physiological responses in plants by activating defence signalling pathways, but whether plants can respond to facultative phytophagy by recruiting natural enemies remains to be investigated. In Y-tube olfactometer bioassays, using a system including a Vicia faba plant, the ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-55396-0

    authors: Martorana L,Brodeur J,Foti MC,Agrò A,Colazza S,Peri E

    更新日期:2019-12-12 00:00:00

  • Genetic architecture and mechanism of seed number per pod in rapeseed: elucidated through linkage and near-isogenic line analysis.

    abstract::Seed number per pod (SNPP) is one of the major yield components and breeding targets in rapeseed that shows great variation and is invaluable for genetic improvement. To elucidate the genetic architecture and uncover the mechanism of SNPP, we identified five quantitative trait loci (QTLs) using the BnaZNRIL population...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep24124

    authors: Yang Y,Shi J,Wang X,Liu G,Wang H

    更新日期:2016-04-12 00:00:00

  • Corrigendum: Global effects of local food-production crises: a virtual water perspective.

    abstract::This corrects the article DOI: 10.1038/srep18803. ...

    journal_title:Scientific reports

    pub_type: 已发布勘误

    doi:10.1038/srep46987

    authors: Tamea S,Laio F,Ridolfi L

    更新日期:2018-05-22 00:00:00

  • A persistent memory advantage is specific to grapheme-colour synaesthesia.

    abstract::For people with synaesthesia ordinary stimuli such as digits or letters induce concurrent experiences such as colours. Synaesthesia is associated with a memory advantage and the aim of this study was to investigate whether this advantage persists across time. We tested recognition memory of four different types of syn...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-60388-6

    authors: Lunke K,Meier B

    更新日期:2020-02-26 00:00:00

  • Design, transform and control of optical field in discrete optical system: an example.

    abstract::A discrete optical system can broaden the spatial distribution of the input light through optical coupling in array waveguides, just like diffraction in continuous media. Here, we theoretically demonstrate several kinds of control methods of optical field propagation in a discrete optical system, which is composed of ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-05414-w

    authors: Deng H,Yuan Y,Yuan L

    更新日期:2017-07-12 00:00:00

  • Acoustic detection of DNA conformation in genetic assays combined with PCR.

    abstract::Application of PCR to multiplexing assays is not trivial; it requires multiple fluorescent labels for amplicon detection and sophisticated software for data interpretation. Alternative PCR-free methods exploiting new concepts in nanotechnology exhibit high sensitivities but require multiple labeling and/or amplificati...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep02033

    authors: Papadakis G,Tsortos A,Kordas A,Tiniakou I,Morou E,Vontas J,Kardassis D,Gizeli E

    更新日期:2013-01-01 00:00:00

  • Between-group competition elicits within-group cooperation in children.

    abstract::Aggressive interactions between groups are frequent in human societies and can bear significant fitness costs and benefits (e.g. death or access to resources). During between-group competitive interactions, more cohesive groups (i.e. groups formed by individuals who cooperate in group defence) should out-perform less ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep43277

    authors: Majolo B,Maréchal L

    更新日期:2017-02-24 00:00:00

  • Cortical Classification with Rhythm Entropy for Error Processing in Cocktail Party Environment Based on Scalp EEG Recording.

    abstract::Using single-trial cortical signals calculated by weighted minimum norm solution estimation (WMNE), the present study explored a feature extraction method based on rhythm entropy to classify the scalp electroencephalography (EEG) signals of error response from that of correct response during performing auditory-track ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-24535-4

    authors: Tian Y,Xu W,Yang L

    更新日期:2018-04-17 00:00:00

  • Multiple crossovers between positive and negative magnetoresistance versus field due to fragile spin structure in metallic GdPd3.

    abstract::Studies on the phenomenon of magnetoresistance (MR) have produced intriguing and application-oriented outcomes for decades-colossal MR, giant MR and recently discovered extremely large MR of millions of percents in semimetals can be taken as examples. We report here the discovery of novel multiple sign changes versus ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep42789

    authors: Pandey A,Mazumdar C,Ranganathan R,Johnston DC

    更新日期:2017-02-17 00:00:00

  • A missing color area extraction approach from high-resolution statue images for cultural heritage documentation.

    abstract::Ancient statues are usually fragile and have a tendency to deteriorate over time, developing cracks, corrosion, and losing color. Before any intervention on the object of art, a conservator must map degradation and take measurements. Deterioration mapping is an extremely long process, as the conservator or restorer mu...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-78254-w

    authors: Nasri A,Huang X

    更新日期:2020-12-14 00:00:00

  • Optically Transparent Ferromagnetic Nanogranular Films with Tunable Transmittance.

    abstract::Developing optically transparent magnets at room temperature is an important challenge. They would bring many innovations to various industries, not only for electronic and magnetic devices but also for optical applications. Here we introduce FeCo-(Al-fluoride) nanogranular films exhibiting ferromagnetic properties wi...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep34227

    authors: Kobayashi N,Masumoto H,Takahashi S,Maekawa S

    更新日期:2016-09-28 00:00:00

  • An effective treatment of experimental osteomyelitis using the antimicrobial titanium/silver-containing nHP66 (nano-hydroxyapatite/polyamide-66) nanoscaffold biomaterials.

    abstract::Effective treatment of osteomyelitis remains a formidable clinical challenge. The rapid emergence of multidrug-resistant bacteria has renewed interest in developing antimicrobial biomaterials using antiseptic silver ions to treat osteomyelitis. However, inadequate local retention and severe cytotoxic effects have limi...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep39174

    authors: Lu M,Liao J,Dong J,Wu J,Qiu H,Zhou X,Li J,Jiang D,He TC,Quan Z

    更新日期:2016-12-16 00:00:00

  • Relationship between Kellgren-Lawrence score and 3D kinematic gait analysis of patients with medial knee osteoarthritis using a new gait system.

    abstract::Knee osteoarthritis (KOA) is reported to have characteristic kinematics during walking. However, the relationship between Kellgren-Lawrence (K/L) score and the 3D kinematic gait of patients with medial KOA remains unclear. Here, ninety-seven patients with medial KOA and thirty-eight asymptomatic participants were invo...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-04390-5

    authors: Zeng X,Ma L,Lin Z,Huang W,Huang Z,Zhang Y,Mao C

    更新日期:2017-06-22 00:00:00

  • Revealing links between gut microbiome and its fungal community in Type 2 Diabetes Mellitus among Emirati subjects: A pilot study.

    abstract::Type 2 diabetes mellitus (T2DM) drastically affects the population of Middle East countries with an ever-increasing number of overweight and obese individuals. The precise links between T2DM and gut microbiome composition remain elusive in these populations. Here, we performed 16 S rRNA and ITS2- gene based microbial ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-66598-2

    authors: Al Bataineh MT,Dash NR,Lassen PB,Banimfreg BH,Nada AM,Belda E,Clément K

    更新日期:2020-06-15 00:00:00

  • Tumor-derived exosomes regulate expression of immune function-related genes in human T cell subsets.

    abstract::Tumor cell-derived exosomes (TEX) suppress functions of immune cells. Here, changes in the gene profiles of primary human T lymphocytes exposed in vitro to exosomes were evaluated. CD4(+) Tconv, CD8(+) T or CD4(+) CD39(+) Treg were isolated from normal donors' peripheral blood and co-incubated with TEX or exosomes iso...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep20254

    authors: Muller L,Mitsuhashi M,Simms P,Gooding WE,Whiteside TL

    更新日期:2016-02-04 00:00:00

  • Deterioration risk of dryland earthen heritage sites facing future climatic uncertainty.

    abstract::Uncertainties over future climatic conditions pose significant challenges when selecting appropriate conservation strategies for heritage sites. Choosing effective strategies is especially important for earthen heritage sites located in dryland regions, as many are experiencing rapid environmentally-driven deteriorati...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-73456-8

    authors: Richards J,Bailey R,Mayaud J,Viles H,Guo Q,Wang X

    更新日期:2020-10-02 00:00:00

  • Tuning electronic properties of transition-metal dichalcogenides via defect charge.

    abstract::Defect engineering is a promising route for controlling the electronic properties of monolayer transition-metal dichalcogenide (TMD) materials. Here, we demonstrate that the electronic structure of MoS2 depends sensitively on the defect charge, both its sign and magnitude. In particular, we study shallow bound states ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-31941-1

    authors: Aghajanian M,Mostofi AA,Lischner J

    更新日期:2018-09-11 00:00:00

  • Genome-wide Phenotypic Profiling Identifies and Categorizes Genes Required for Mycobacterial Low Iron Fitness.

    abstract::Iron is vital for nearly all living organisms, but during infection, not readily available to pathogens. Infectious bacteria therefore depend on specialized mechanisms to survive when iron is limited. These mechanisms make attractive targets for new drugs. Here, by genome-wide phenotypic profiling, we identify and cat...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-47905-y

    authors: Dragset MS,Ioerger TR,Zhang YJ,Mærk M,Ginbot Z,Sacchettini JC,Flo TH,Rubin EJ,Steigedal M

    更新日期:2019-08-06 00:00:00

  • Natural selection supports escape from concerted evolution of a recently duplicated CEACAM1 paralog in the ruminant CEA gene family.

    abstract::Concerted evolution is often observed in multigene families such as the CEA gene family. As a result, sequence similarity of paralogous genes is significantly higher than expected from their evolutionary distance. Gene conversion, a "copy paste" DNA repair mechanism that transfers sequences from one gene to another an...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-60425-4

    authors: Hänske J,Hammacher T,Grenkowitz F,Mansfeld M,Dau TH,Maksimov P,Friedrich C,Zimmermann W,Kammerer R

    更新日期:2020-02-25 00:00:00

  • Selective suppression of rapid eye movement sleep increases next-day negative affect and amygdala responses to social exclusion.

    abstract::Healthy sleep, positive general affect, and the ability to regulate emotional experiences are fundamental for well-being. In contrast, various mental disorders are associated with altered rapid eye movement (REM) sleep, negative affect, and diminished emotion regulation abilities. However, the neural processes mediati...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-74169-8

    authors: Glosemeyer RW,Diekelmann S,Cassel W,Kesper K,Koehler U,Westermann S,Steffen A,Borgwardt S,Wilhelm I,Müller-Pinzler L,Paulus FM,Krach S,Stolz DS

    更新日期:2020-10-14 00:00:00

  • Contactless transient carrier spectroscopy and imaging technique using lock-in free carrier emission and absorption.

    abstract::In this paper we present a contactless transient carrier spectroscopy and imaging technique for traps in silicon. At each pixel, we fit the transient decay of the trap emission which allows us to obtain both the trap time constant and trap concentration. Here we show that this technique allows for high-resolution imag...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-49804-8

    authors: Rougieux FE,Kwapil W,Heinz F,Siriwardhana M,Schubert MC

    更新日期:2019-10-03 00:00:00