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KNIME GmbH openms/knime workflow
Openms/Knime Workflow, supplied by KNIME GmbH, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/openms+workflows/workflow/pmc08591527-463-2-1
Average 90 stars, based on 1 article reviews
openms/knime workflow - by Bioz Stars, 2026-10
90/100 stars

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Article Title: Computational exploration in search for novel natural product-derived EZH2 inhibitors for advancing anti-cancer therapy.
Article Snippet: Epigenetic regulation intricately governs cellular mechanisms, including proliferation, death, differentiation, and cell cycle orchestration.. One such target, Enhancer of zeste homolog 2 (EZH2), is essential for epigenetic regulation.. EZH2 trimethylates histone H3 lys27 (H3K27me3), inhibiting target gene transcription and promoting chromatin condensation, thereby initiating tumorigenesis, thus a potentially plausible target to disrupt cancer progression.

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Article Snippet: node name node ID description (short) notes MarvinSketch (ChemAxon) Node 9011 Node 9021 Node 9031 Chemical editor for drawing structures, queries and reactions.

Article Title: PLK1 inhibition delays mitotic entry revealing changes to the phosphoproteome of mammalian cells early in division.
Article Snippet: All mathematical operations applied on the data and data alignment and organization were conducted using Excel (Microsoft), plots and statistical tests were produced using GraphPad Prism (GraphPad Software) or the R statistical programming language.

Article Title: Computational Modeling and Biological Evaluation of Benzophenone Derivatives as Antileishmanial Agents
Article Snippet: The workflows used for these predictions, alongside with the datasets and supplementary files are available in the Zenodo repository.29 Researchers can download the data and trained predictive models, as well as replicate the workflows designed in the KNIME platform.34

Article Title: KNIME Workflows for Chemoinformatic Characterization of Chemical Databases.
Article Snippet: In chemoinformatics, chemical databases have great importance since their main objective is to store and organize the chemical structures of molecules and their properties, from basic information such as chemical structure to more complex like molecular fingerprints or other types of calculated or experimental descriptors and biological activity.. However, this data can only be utilized in projects to identify novel therapeutic molecules or other fields through their correct characterization and analysis.. In this Application Note, we compiled five workflows within the open-source data analytics and visualization platform KNIME that can be implemented for the chemoinformatic characterization of databases.

Software:

Article Title: A computational workflow for end-to-end simulation of percutaneous absorption.
Article Snippet: Purpose Presented is the development of a workflow for end-to-end (e2e) in silico modelling of percutaneous absorption under a range of test conditions, integrating multiple calculation and analysis steps for insilico simulation of dermal absorption.. The aim is to achieve a digital twin that can be used by nonmodelling experts to simulate transdermal permeation.. Methods A KNIME-based toolbox is used to create the workflow for the E2E in-silico model.

In Silico:

Article Title: A computational workflow for end-to-end simulation of percutaneous absorption.
Article Snippet: Purpose Presented is the development of a workflow for end-to-end (e2e) in silico modelling of percutaneous absorption under a range of test conditions, integrating multiple calculation and analysis steps for insilico simulation of dermal absorption.. The aim is to achieve a digital twin that can be used by nonmodelling experts to simulate transdermal permeation.. Methods A KNIME-based toolbox is used to create the workflow for the E2E in-silico model.

Formulation:

Article Title: A computational workflow for end-to-end simulation of percutaneous absorption.
Article Snippet: Purpose Presented is the development of a workflow for end-to-end (e2e) in silico modelling of percutaneous absorption under a range of test conditions, integrating multiple calculation and analysis steps for insilico simulation of dermal absorption.. The aim is to achieve a digital twin that can be used by nonmodelling experts to simulate transdermal permeation.. Methods A KNIME-based toolbox is used to create the workflow for the E2E in-silico model.



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Integration of automated glycopeptide identification by Byonic and GlycopeptideGraphMS (aided by OpenMS) and subsequent analyte quality control and quantification by LaCyTools.

Journal: Beilstein Journal of Organic Chemistry

Article Title: Semiautomated glycoproteomics data analysis workflow for maximized glycopeptide identification and reliable quantification

doi: 10.3762/bjoc.16.253

Figure Lengend Snippet: Integration of automated glycopeptide identification by Byonic and GlycopeptideGraphMS (aided by OpenMS) and subsequent analyte quality control and quantification by LaCyTools.

Article Snippet: The data preprocessing included the deconvolution of all MS1 signals using an OpenMS workflow (KNIME_OPENMS_GraphMS_Preprocessing_120318) in KNIME [ , – ].

Techniques: Glycoproteomics, Control