OncoboxPD: human 51 672 molecular pathways database with tools for activity calculating and visualization

OncoboxPD: human 51 672 molecular pathways database with tools for activity calculating and visualization

OncoboxPD (Oncobox pathway databank) available at https://open.oncobox.com is the collection of 51 672 uniformly processed human molecular pathways. Superposition of all pathways formed interactome graph of protein–protein interactions and metabolic reactions containing 361 654 interactions and 64 0...

Full description

Bibliographic Details
Main Authors:	Marianna A. Zolotovskaia, Victor S. Tkachev, Anastasia A. Guryanova, Alexander M. Simonov, Mikhail M. Raevskiy, Victor V. Efimov, Ye Wang, Marina I. Sekacheva, Andrew V. Garazha, Nicolas M. Borisov, Denis V. Kuzmin, Maxim I. Sorokin, Anton A. Buzdin
Format:	Article
Language:	English
Published:	Elsevier 2022-01-01
Series:	Computational and Structural Biotechnology Journal
Subjects:	Molecular pathway database Interactomics Protein–protein interactions Metabolomics Pathway activation level Pathway visualization
Online Access:	http://www.sciencedirect.com/science/article/pii/S2001037022001635

Similar Items

Algorithmically Reconstructed Molecular Pathways as the New Generation of Prognostic Molecular Biomarkers in Human Solid Cancers
by: Marianna Zolotovskaia, et al.
Published: (2023-08-01)

Enzymes in the Cholesterol Synthesis Pathway: Interactomics in the Cancer Context
by: Pavel Ershov, et al.
Published: (2021-07-01)

Two-Dimensional-PAGE Coupled with nLC-MS/MS-Based Identification of Differentially Expressed Proteins and Tumorigenic Pathways in MCF7 Breast Cancer Cells Transfected for JTB Protein Silencing
by: Madhuri Jayathirtha, et al.
Published: (2023-11-01)

Distinct Traits of Structural and Regulatory Evolutional Conservation of Human Genes with Specific Focus on Major Cancer Molecular Pathways
by: Galina Zakharova, et al.
Published: (2023-05-01)

Number of human protein interactions correlates with structural, but not regulatory conservation of the respective genes
by: Rijalda Mekic, et al.
Published: (2024-10-01)

Ingenuity pathway analysis of α-synuclein predicts potential signaling pathways, network molecules, biological functions, and its role in neurological diseases
by: Sharad Kumar Suthar, et al.
Published: (2022-11-01)

Highlighting Human Enzymes Active in Different Metabolic Pathways and Diseases: The Case Study of EC 1.2.3.1 and EC 2.3.1.9
by: Giulia Babbi, et al.
Published: (2020-07-01)

CANDI: a web server for predicting molecular targets and pathways of cannabis-based therapeutics
by: Srinivasan Ekambaram, et al.
Published: (2025-02-01)

Differences and Similarities between the Lung Transcriptomic Profiles of COVID-19, COPD, and IPF Patients: A Meta-Analysis Study of Pathophysiological Signaling Pathways
by: Daniel Aguilar, et al.
Published: (2022-06-01)

Towards the prediction of protein interaction partners using physical docking
by: Mark Nicholas Wass, et al.
Published: (2011-02-01)

Heterogeneous network approaches to protein pathway prediction
by: Gowri Nayar, et al.
Published: (2024-12-01)

Design and thermodynamic analysis of a pathway enabling anaerobic production of poly-3-hydroxybutyrate in Escherichia coli
by: Karel Olavarria, et al.
Published: (2023-12-01)

Pan-cancer experimental characteristic of human transcriptional patterns connected with telomerase reverse transcriptase (TERT) gene expression status
by: Aleksey Drobyshev, et al.
Published: (2024-05-01)

Structure-based prediction of protein-protein interaction network in rice
by: Fangnan Sun, et al.
Published: (2024-02-01)

Atlas of interactions between SARS-CoV-2 macromolecules and host proteins
by: Guangnan Li, et al.
Published: (2023-02-01)

Leveraging Hot Spots of TEAD–Coregulator Interactions in the Design of Direct Small Molecule Protein-Protein Interaction Disruptors Targeting Hippo Pathway Signaling
by: Bin Zhao, et al.
Published: (2023-04-01)

Identification and Characterization of High-Molecular-Weight Proteins Secreted by <i>Plasmodiophora brassicae</i> That Suppress Plant Immunity
by: Yanqun Feng, et al.
Published: (2024-06-01)

The auditory brain /
by: Rees, Adrian, et al.
Published: (2010)

Retroelement—Linked Transcription Factor Binding Patterns Point to Quickly Developing Molecular Pathways in Human Evolution
by: Daniil Nikitin, et al.
Published: (2019-02-01)

Advanced protein adsorption properties of a novel silicate-based bioceramic: A proteomic analysis
by: Fanyan Deng, et al.
Published: (2021-01-01)

Research progress on the role of transmembrane proteins in malignant tumors
by: WANG Zihao, XIA Xiaochao, LI Shun
Published: (2024-03-01)

Research progress of nucleostemin signaling pathway in tumorigenesis and development
by: HE Zhen-hua, SHEN Fu-hui, ZENG Fan-gang, LIU Qian-lin, YUAN Jing-min
Published: (2020-04-01)

Golgi-to-endosome Protein Pathway, Monkeypox and Malaria: Correspondence
by: Rujittika Mungmunpuntipantip, et al.
Published: (2022-12-01)

Affinity proteomics to study endogenous protein complexes: Pointers, pitfalls, preferences and perspectives
by: John LaCava, et al.
Published: (2015-03-01)

Benchmark Evaluation of Protein–Protein Interaction Prediction Algorithms
by: Brandan Dunham, et al.
Published: (2021-12-01)

Insights into functional connectivity in mammalian signal transduction pathways by pairwise comparison of protein interaction partners of critical signaling hubs
by: Ramana Chilakamarti V.
Published: (2022-09-01)

Protein-Protein Interaction Disruptors of the YAP/TAZ-TEAD Transcriptional Complex
by: Ajaybabu V. Pobbati, et al.
Published: (2020-12-01)

The Spectrum of Molecular Pathways in Gliomas—An Up-to-Date Review
by: Reinhold Nafe, et al.
Published: (2023-08-01)

Gene expression study of signaling pathway in response to high salinity stress in rice (Oryza sativa L.) seedlings
by: Mojdeh Akbarzadeh Lelekami, et al.
Published: (2023-09-01)

Differential expression of plasma proteins and pathway enrichments in pediatric diabetic ketoacidosis
by: Paolo Spagnolo, et al.
Published: (2025-01-01)

Study on the role of activation of TGF-β pathway by ASPN in the occurrence and development of keloid and the underlying mechanisms
by: XU Xueyan, et al.
Published: (2025-01-01)

Identification of key differential genes in intimal hyperplasia induced by left carotid artery ligation
by: Lina Zhang, et al.
Published: (2022-05-01)

In silico predictions of protein interactions between Zika virus and human host
by: João Luiz de Lemos Padilha Pitta, et al.
Published: (2021-08-01)

Identifying driver pathways based on a parameter-free model and a partheno-genetic algorithm
by: Jingli Wu, et al.
Published: (2023-05-01)

Genomic Signatures of Domestication in European Seabass (Dicentrarchus labrax L.) Reveal a Potential Role for Epigenetic Regulation in Adaptation to Captivity
by: Aristotelis Moulistanos, et al.
Published: (2024-12-01)

Viral RNA Interactome: The Ultimate Researcher’s Guide to RNA–Protein Interactions
by: Wesley A. Hanson, et al.
Published: (2024-10-01)

ZNF224 Protein: Multifaceted Functions Based on Its Molecular Partners
by: Elena Cesaro, et al.
Published: (2021-10-01)

The V protein in oncolytic Newcastle disease virus promotes HepG2 hepatoma cell proliferation at the single-cell level
by: Zhili Chu, et al.
Published: (2023-04-01)

Valproic Acid Promotes Early Neural Differentiation in Adult Mesenchymal Stem Cells Through Protein Signalling Pathways
by: Jerran Santos, et al.
Published: (2020-03-01)

Exploring Protein Conformational Changes Using a Large‐Scale Biophysical Sampling Augmented Deep Learning Strategy
by: Yao Hu, et al.
Published: (2024-11-01)