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| Open AccessTrehalose metabolism coordinates transcriptional regulatory control and metabolic requirements to trigger the onset of cassava storage root initiation
- Nattavat Sukko
- , Saowalak Kalapanulak
- & Treenut Saithong
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| Open AccessCrosstalk enables mutual activation of coupled quorum sensing pathways through “jump-start” and “push-start” mechanisms
- Joseph George Sanders
- , Hoda Akl
- & BingKan Xue
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| Open AccesseRNA co-expression network uncovers TF dependency and convergent cooperativity
- Seungha Alisa Lee
- , Katla Kristjánsdóttir
- & Hojoong Kwak
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| Open AccessBifurcation analysis of a tuberculosis progression model for drug target identification
- Eliezer Flores-Garza
- , Rogelio Hernández-Pando
- & Elisa Domínguez-Hüttinger
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| Open AccessNicotinamide mononucleotide (NMN) alleviates the poly(I:C)-induced inflammatory response in human primary cell cultures
- Hitomi Sano
- , Anton Kratz
- & Ayako Yachie
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| Open AccessEarly radial positional information in the cochlea is optimized by a precise linear BMP gradient and enhanced by SOX2
- Matthew J. Thompson
- , Caryl A. Young
- & David M. Umulis
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| Open AccessStatistical control of structural networks with limited interventions to minimize cellular phenotypic diversity represented by point attractors
- Jongwan Kim
- , Corbin Hopper
- & Kwang-Hyun Cho
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| Open AccessIntercorrelated variability in blood and hemodynamic biomarkers reveals physiological network in hemodialysis patients
- Yuichi Nakazato
- , Masahiro Shimoyama
- & Hiromi Shimoyama
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| Open AccessInvestigating the effects of chronic low-dose radiation exposure in the liver of a hypothermic zebrafish model
- Thomas Cahill
- , Willian Abraham da Silveira
- & Gary Hardiman
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| Open AccessNetwork analysis reveals that the tumor suppressor lncRNA GAS5 acts as a double-edged sword in response to DNA damage in gastric cancer
- Shantanu Gupta
- , Pritam Kumar Panda
- & Rajeev Ahuja
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| Open AccessRelative importance of composition structures and biologically meaningful logics in bipartite Boolean models of gene regulation
- Yasharth Yadav
- , Ajay Subbaroyan
- & Areejit Samal
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| Open AccessIntegrated network-based multiple computational analyses for identification of co-expressed candidate genes associated with neurological manifestations of COVID-19
- Suvojit Hazra
- , Alok Ghosh Chaudhuri
- & Nilkanta Chakrabarti
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| Open AccessKnowledge of the perturbation design is essential for accurate gene regulatory network inference
- Deniz Seçilmiş
- , Thomas Hillerton
- & Erik L. L. Sonnhammer
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| Open AccessIdentification of candidate enhancers controlling the transcriptome during the formation of interphalangeal joints
- Karol Nowosad
- , Rutger W. W. Brouwer
- & Przemko Tylzanowski
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| Open AccessSIN-3 functions through multi-protein interaction to regulate apoptosis, autophagy, and longevity in Caenorhabditis elegans
- Chandrika Konwar
- , Jayant Maini
- & Daman Saluja
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| Open AccessMALAT1 as master regulator of biomarkers predictive of pan-cancer multi-drug resistance in the context of recalcitrant NRAS signaling pathway identified using systems-oriented approach
- Santosh Kumar
- & Seema Mishra
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| Open AccessThe macroscopic limit to synchronization of cellular clocks in single cells of Neurospora crassa
- Jia Hwei Cheong
- , Xiao Qiu
- & Jonathan Arnold
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| Open AccessCuration, inference, and assessment of a globally reconstructed gene regulatory network for Streptomyces coelicolor
- Andrea Zorro-Aranda
- , Juan Miguel Escorcia-Rodríguez
- & Julio Augusto Freyre-González
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| Open AccessTwo-level modeling approach to identify the regulatory dynamics capturing drug response heterogeneity in single-cells
- Madalena Chaves
- , Luis C. Gomes-Pereira
- & Jérémie Roux
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| Open AccessSex-dependent gene co-expression in the human body
- Robin J. G. Hartman
- , Michal Mokry
- & Hester M. den Ruijter
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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 AccessA stochastic oscillator model simulates the entrainment of vertebrate cellular clocks by light
- Vojtěch Kumpošt
- , Daniela Vallone
- & Lennart Hilbert
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| Open AccessIdentifying molecular targets for reverse aging using integrated network analysis of transcriptomic and epigenomic changes during aging
- Hwang-Yeol Lee
- , Yeonsu Jeon
- & Kwang-Hyun Cho
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| Open AccessTopological clustering of regulatory genes confers pathogenic tolerance to cassava brown streak virus (CBSV) in cassava
- Thanakorn Jaemthaworn
- , Saowalak Kalapanulak
- & Treenut Saithong
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| Open AccessAn order independent algorithm for inferring gene regulatory network using quantile value for conditional independence tests
- Sayyed Hadi Mahmoodi
- , Rosa Aghdam
- & Changiz Eslahchi
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| Open AccessCOVID-19 engages clinical markers for the management of cancer and cancer-relevant regulators of cell proliferation, death, migration, and immune response
- Serhiy Souchelnytskyi
- , Andriy Nera
- & Nazariy Souchelnytskyi
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| Open AccessUsing linkage logic theory to control dynamics of a gene regulatory network of a chordate embryo
- Kenji Kobayashi
- , Kazuki Maeda
- & Yutaka Satou
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| Open AccessWeighted gene co-expression network analysis of the salt-responsive transcriptomes reveals novel hub genes in green halophytic microalgae Dunaliella salina
- Bahman Panahi
- & Mohammad Amin Hejazi
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| Open AccessInternetwork connectivity of molecular networks across species of life
- Tarun Mahajan
- & Roy D. Dar
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| Open AccessCo-feeding glucose with either gluconate or galacturonate during clostridial fermentations provides metabolic fine-tuning capabilities
- Theresah N. K. Zu
- , Sanchao Liu
- & Christian J. Sund
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| Open AccessTheoretical study of the impact of adaptation on cell-fate heterogeneity and fractional killing
- Julien Hurbain
- , Darka Labavić
- & Benjamin Pfeuty
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| Open AccessIdentifying a stochastic clock network with light entrainment for single cells of Neurospora crassa
- C. Caranica
- , A. Al-Omari
- & J. Arnold
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| Open AccessPerturbation-based gene regulatory network inference to unravel oncogenic mechanisms
- Daniel Morgan
- , Matthew Studham
- & Erik L. L. Sonnhammer
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| Open AccessTranscriptomic analysis delineates potential signature genes and miRNAs associated with the pathogenesis of asthma
- Prithvi Singh
- , Archana Sharma
- & Mansoor Ali Syed
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| Open AccessImpact of vaccine type on HIV-1 vaccine elicited antibody durability and B cell gene signature
- Rohith Palli
- , Kelly E. Seaton
- & Juilee Thakar
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| Open AccessEstimation of homeostatic dysregulation and frailty using biomarker variability: a principal component analysis of hemodialysis patients
- Yuichi Nakazato
- , Tomoko Sugiyama
- & Hiromi Shimoyama
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| Open AccessOverall survival prediction of non-small cell lung cancer by integrating microarray and clinical data with deep learning
- Yu-Heng Lai
- , Wei-Ning Chen
- & Semon Wu
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| Open AccessControllability analysis of molecular pathways points to proteins that control the entire interaction network
- Prajwal Devkota
- & Stefan Wuchty
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| Open AccessIntracellular Energy Variability Modulates Cellular Decision-Making Capacity
- Ryan Kerr
- , Sara Jabbari
- & Iain G. Johnston
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| Open AccessThe landscape of tiered regulation of breast cancer cell metabolism
- Rotem Katzir
- , Ibrahim H. Polat
- & Eytan Ruppin
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| Open AccessIdentification of key regulators in prostate cancer from gene expression datasets of patients
- Irengbam Rocky Mangangcha
- , Md. Zubbair Malik
- & R. K. Brojen Singh
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| Open AccessA feedback loop of conditionally stable circuits drives the cell cycle from checkpoint to checkpoint
- Dávid Deritei
- , Jordan Rozum
- & Réka Albert
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| Open AccessComputational Analysis of Insulin-Glucagon Signalling Network: Implications of Bistability to Metabolic Homeostasis and Disease states
- Pramod R. Somvanshi
- , Manu Tomar
- & Venkatesh Kareenhalli
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| Open AccessImproved gene co-expression network quality through expression dataset down-sampling and network aggregation
- Franziska Liesecke
- , Johan-Owen De Craene
- & Thomas Dugé de Bernonville
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| Open AccessGene Regulatory Networks in Peripheral Mononuclear Cells Reveals Critical Regulatory Modules and Regulators of Multiple Sclerosis
- Perumal Gnanakkumaar
- , Ram Murugesan
- & Shiek S. S. J. Ahmed
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| Open AccessA subset of topologically associating domains fold into mesoscale core-periphery networks
- Harvey Huang
- , Sunnia T. Chen
- & Jennifer E. Phillips-Cremins
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| Open AccessCD271 is a molecular switch with divergent roles in melanoma and melanocyte development
- Fabian V. Filipp
- , Chen Li
- & Alexander D. Boiko
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| Open AccessA universal transcriptomic signature of age reveals the temporal scaling of Caenorhabditis elegans aging trajectories
- Andrei E. Tarkhov
- , Ramani Alla
- & Peter O. Fedichev
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| Open AccessLiver proteomics unravel the metabolic pathways related to Feed Efficiency in beef cattle
- Leydiana D. Fonseca
- , Joanir P. Eler
- & Heidge Fukumasu