ArticlePLoS biology2020
Knowledge-guided analysis of "omics" data using the KnowEnG cloud platform.
Article in PLoS biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
20 citing papers in PubMed, 49 citations in OpenAlex.
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- Anticancer Monotherapy and Polytherapy Drug Response Prediction Using Deep Learning: Guidelines and Best Practices.Methods in molecular biology (Clifton, N.J.) · 2025Article
- AutoFocus: a hierarchical framework to explore multi-omic disease associations spanning multiple scales of biomolecular interaction.Communications biology · 2024Article
- Web-based multi-omics integration using the Analyst software suite.Nature protocols · 2024Review
- DDK-Linker: a network-based strategy identifies disease signals by linking high-throughput omics datasets to disease knowledge.Briefings in bioinformatics · 2024Article
- BEDwARS: a robust Bayesian approach to bulk gene expression deconvolution with noisy reference signatures.Genome biology · 2023Article
- Preclinical-to-clinical Anti-cancer Drug Response Prediction and Biomarker Identification Using TINDL.Genomics, proteomics & bioinformatics · 2023Article
- Application of Deep Learning on Single-cell RNA Sequencing Data Analysis: A Review.Genomics, proteomics & bioinformatics · 2022Review
- Treatment of Cancer Gene Changes in Chronic Myeloid Leukemia by Big Data Analysis Platform-Based Dasatinib.Applied bionics and biomechanics · 2022Article
- Identification of transcriptional regulatory network associated with response of host epithelial cells to SARS-CoV-2.Scientific reports · 2021Article
- GPCRs Are Optimal Regulators of Complex Biological Systems and Orchestrate the Interface between Health and Disease.International journal of molecular sciences · 2021Review
- Knowledge Representation and Management: Interest in New Solutions for Ontology Curation.Yearbook of medical informatics · 2021Review
- A network-informed analysis of SARS-CoV-2 and hemophagocytic lymphohistiocytosis genes' interactions points to Neutrophil extracellular traps as mediators of thrombosis in COVID-19.PLoS computational biology · 2021Article
- Inference of phenotype-relevant transcriptional regulatory networks elucidates cancer type-specific regulatory mechanisms in a pan-cancer study.NPJ systems biology and applications · 2021Article
- An integrated multi-omics approach to identify regulatory mechanisms in cancer metastatic processes.Genome biology · 2021Article
- An Improved Memetic Algorithm for Detecting Protein Complexes in Protein Interaction Networks.Frontiers in genetics · 2021Article
- Article
- Superior breast cancer metastasis risk stratification using an epithelial-mesenchymal-amoeboid transition gene signature.Breast cancer research : BCR · 2020Article
- Tissue-guided LASSO for prediction of clinical drug response using preclinical samples.PLoS computational biology · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
28 authors at 4 institutions in 2 countries.
Funding
Abstract
We present Knowledge Engine for Genomics (KnowEnG), a free-to-use computational system for analysis of genomics data sets, designed to accelerate biomedical discovery. It includes tools for popular bioinformatics tasks such as gene prioritization, sample clustering, gene set analysis, and expression signature analysis. The system specializes in "knowledge-guided" data mining and machine learning algorithms, in which user-provided data are analyzed in light of prior information about genes, aggregated from numerous knowledge bases and encoded in a massive "Knowledge Network." KnowEnG adheres to "FAIR" principles (findable, accessible, interoperable, and reuseable): its tools are easily portable to diverse computing environments, run on the cloud for scalable and cost-effective execution, and are interoperable with other computing platforms. The analysis tools are made available through multiple access modes, including a web portal with specialized visualization modules. We demonstrate the KnowEnG system's potential value in democratization of advanced tools for the modern genomics era through several case studies that use its tools to recreate and expand upon the published analysis of cancer data sets.
Indexed as
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.