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| Open AccessCharacterization of clinical data for patient stratification in moderate osteoarthritis with support vector machines, regulatory network models, and verification against osteoarthritis Initiative data
- Maria Segarra-Queralt
- , Mar Galofré
- & Jérôme Noailly
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| Open AccessDynamic hydrogen peroxide levels reveal a rate-dependent sensitivity in B-cell lymphoma signaling
- Melde Witmond
- , Emma Keizer
- & Jessie A. G. L. van Buggenum
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| Open AccessDifferential gene expression patterns in ST-elevation Myocardial Infarction and Non-ST-elevation Myocardial Infarction
- Mohammad Elahimanesh
- , Nafiseh Shokri
- & Mohammad Najafi
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| Open AccessIntegrating glycolysis, citric acid cycle, pentose phosphate pathway, and fatty acid beta-oxidation into a single computational model
- Sylwester M. Kloska
- , Krzysztof Pałczyński
- & Tadeusz A. Wysocki
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| Open AccessParameter inference for enzyme and temperature constrained genome-scale models
- Jakob Peder Pettersen
- & Eivind Almaas
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| Open AccessA nested bistable module within a negative feedback loop ensures different types of oscillations in signaling systems
- Juan Ignacio Marrone
- , Jacques-Alexandre Sepulchre
- & Alejandra C. Ventura
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| Open AccessDrug transporters OAT1 and OAT3 have specific effects on multiple organs and gut microbiome as revealed by contextualized metabolic network reconstructions
- Neema Jamshidi
- & Sanjay K. Nigam
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| Open AccessAHR is a master regulator of diverse pathways in endogenous metabolism
- Jeffry C. Granados
- , Kian Falah
- & Sanjay K. Nigam
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| Open AccessStructural measures of similarity and complementarity in complex networks
- Szymon Talaga
- & Andrzej Nowak
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| Open AccessComputational simulation of liver fibrosis dynamics
- Misa Yoshizawa
- , Masahiro Sugimoto
- & Masaki Nishikawa
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| Open AccessA novel approach GRNTSTE to reconstruct gene regulatory interactions applied to a case study for rat pineal rhythm gene
- Zhenyu Liu
- , Jing Gao
- & Junjie Chen
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| Open AccessAn integrated systems-level model of ochratoxin A toxicity in the zebrafish (Danio rerio) embryo based on NMR metabolic profiling
- Muhamed N. H. Eeza
- , Narmin Bashirova
- & A. Alia
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| Open AccessQueueing theory model of pentose phosphate pathway
- Sylwester M. Kloska
- , Krzysztof Pałczyński
- & Tadeusz A. Wysocki
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| Open AccessA novel variant of the Calvin–Benson cycle bypassing fructose bisphosphate
- Jun Ohta
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| Open AccessMetabolic adjustments of blood-stage Plasmodium falciparum in response to sublethal pyrazoleamide exposure
- Shivendra G. Tewari
- , Bobby Kwan
- & Anders Wallqvist
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| Open AccessComputational quantification of global effects induced by mutations and drugs in signaling networks of colorectal cancer cells
- Sara Sommariva
- , Giacomo Caviglia
- & Michele Piana
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| Open AccessNovel interferon-sensitive genes unveiled by correlation-driven gene selection and systems biology
- Cristina Cheroni
- , Lara Manganaro
- & Raffaele De Francesco
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| Open AccessApplication of multiple omics and network projection analyses to drug repositioning for pathogenic mosquito-borne viruses
- Takayuki Amemiya
- , Katsuhisa Horimoto
- & Kazuhiko Fukui
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| Open AccessTranscriptome integrated metabolic modeling of carbon assimilation underlying storage root development in cassava
- Ratchaprapa Kamsen
- , Saowalak Kalapanulak
- & Treenut Saithong
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| Open AccessScarcity of scale-free topology is universal across biochemical networks
- Harrison B. Smith
- , Hyunju Kim
- & Sara I. Walker
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| Open AccessInternetwork connectivity of molecular networks across species of life
- Tarun Mahajan
- & Roy D. Dar
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| Open Access1H-NMR metabolomics reveals a multitarget action of Crithmum maritimum ethyl acetate extract in inhibiting hepatocellular carcinoma cell growth
- Davide Gnocchi
- , Laura Del Coco
- & Antonio Mazzocca
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| Open AccessEvolution of ribosomal protein network architectures
- Youri Timsit
- , Grégoire Sergeant-Perthuis
- & Daniel Bennequin
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| Open AccessA new insight into role of phosphoketolase pathway in Synechocystis sp. PCC 6803
- Anushree Bachhar
- & Jiri Jablonsky
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| Open AccessSingle-step genome-wide association study for social genetic effects and direct genetic effects on growth in Landrace pigs
- Joon-Ki Hong
- , Jae-Bong Lee
- & Hee-Bok Park
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| Open AccessMembrane disruption, but not metabolic rewiring, is the key mechanism of anticancer-action of FASN-inhibitors: a multi-omics analysis in ovarian cancer
- Thomas W. Grunt
- , Astrid Slany
- & Gerald Stübiger
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| Open AccessAlpha-ketoglutarate utilization in Saccharomyces cerevisiae: transport, compartmentation and catabolism
- Jinrui Zhang
- , Bas Mees van den Herik
- & Sebastian Aljoscha Wahl
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| Open AccessIntegrated bioinformatics analysis to decipher molecular mechanism of compound Kushen injection for esophageal cancer by combining WGCNA with network pharmacology
- Wei Zhou
- , Jiarui Wu
- & Miaomiao Wang
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| Open AccessIncreased levels of conjugated bile acids are associated with human bile reflux gastritis
- Aihua Zhao
- , Shouli Wang
- & Wei Jia
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| Open AccessA bioinformatics investigation into molecular mechanism of Yinzhihuang granules for treating hepatitis B by network pharmacology and molecular docking verification
- Jingyuan Zhang
- , Xinkui Liu
- & Miaomiao Wang
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| Open AccessEffects of repetitive Iodine thyroid blocking on the foetal brain and thyroid in rats: a systems biology approach
- David P. A. Cohen
- , Mohamed Amine Benadjaoud
- & Maâmar Souidi
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| Open AccessThe use of click beetle pheromone traps to optimize the risk assessment of wireworm (Coleoptera: Elateridae) maize damage
- Lorenzo Furlan
- , Barbara Contiero
- & Miklós Tóth
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| Open AccessACBM: An Integrated Agent and Constraint Based Modeling Framework for Simulation of Microbial Communities
- Emadoddin Karimian
- & Ehsan Motamedian
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| Open AccessNetwork-based metabolic characterization of renal cell carcinoma
- Nishtha Pandey
- , Vinay Lanke
- & P. K. Vinod
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| Open AccessExtending the minimal model of metabolic oscillations in Bacillus subtilis biofilms
- Ravindra Garde
- , Bashar Ibrahim
- & Stefan Schuster
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| Open AccessBridging substrate intake kinetics and bacterial growth phenotypes with flux balance analysis incorporating proteome allocation
- Hong Zeng
- & Aidong Yang
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| Open AccessThe dynamic response of the Arabidopsis root metabolome to auxin and ethylene is not predicted by changes in the transcriptome
- Sherry B. Hildreth
- , Evan E. Foley
- & Brenda S. J. Winkel
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| Open AccessCorruption of the Pearson correlation coefficient by measurement error and its estimation, bias, and correction under different error models
- Edoardo Saccenti
- , Margriet H. W. B. Hendriks
- & Age K. Smilde
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| Open AccessFinnish Parkinson’s disease study integrating protein-protein interaction network data with exome sequencing analysis
- Ari Siitonen
- , Laura Kytövuori
- & Kari Majamaa
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| Open AccessDeciphering the metabolic capabilities of Bifidobacteria using genome-scale metabolic models
- N. T. Devika
- & Karthik Raman
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| Open AccessCaesarean section, but not induction of labour, is associated with major changes in cord blood metabolome
- Linda Marchioro
- , Engy Shokry
- & Fionnuala M. McAuliffe
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| Open AccessModeling the Interplay between Photosynthesis, CO2 Fixation, and the Quinone Pool in a Purple Non-Sulfur Bacterium
- Adil Alsiyabi
- , Cheryl M. Immethun
- & Rajib Saha
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| Open AccessUncovering mechanisms of global ocean change effects on the Dungeness crab (Cancer magister) through metabolomics analysis
- Shelly A. Wanamaker
- , Paul McElhany
- & Krista M. Nichols
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| Open AccessGenome-scale metabolic model of the rat liver predicts effects of diet restriction
- Priyanka Baloni
- , Vineet Sangar
- & Nathan D. Price
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| Open AccessDetection of novel biomarkers for early detection of Non-Muscle-Invasive Bladder Cancer using Competing Endogenous RNA network analysis
- Morteza Kouhsar
- , Sadegh Azimzadeh Jamalkandi
- & Ali Masoudi-Nejad
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| Open AccessMapping the spectrum of 3D communities in human chromosome conformation capture data
- Sang Hoon Lee
- , Yeonghoon Kim
- & Ludvig Lizana
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| Open AccessNetwork Pharmacology-Based identification of pharmacological mechanism of SQFZ injection in combination with Docetaxel on lung cancer
- Tan Li
- , Zhu Baochen
- & Du Shouying
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Article
| Open AccessUnderstanding carbon utilization routes between high and low starch-producing cultivars of cassava through Flux Balance Analysis
- Porntip Chiewchankaset
- , Wanatsanan Siriwat
- & Treenut Saithong
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Article
| Open AccessThe relationship between oxidant levels and gut physiology in a litter-feeding termite
- Gessica Sousa
- , Ana Caroline P. Gandara
- & Ednildo A. Machado