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Related Concept Videos

Conserved Binding Sites01:49

Conserved Binding Sites

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Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
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Conservation of Protein Domains Over Different Proteins02:26

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Protein domains are small structurally independent units that are part of a single amino acid chain.  Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
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Cis-regulatory Sequences02:02

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Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
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Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key...
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Updated: Dec 10, 2025

Identification of Functional Protein Regions Through Chimeric Protein Construction
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frDriver: A Functional Region Driver Identification for Protein Sequence.

Xinguo Lu, Xinyu Wang, Li Ding

    IEEE/ACM Transactions on Computational Biology and Bioinformatics
    |September 2, 2020
    PubMed
    Summary
    This summary is machine-generated.

    This study introduces frDriver, a new method to identify cancer driver regions by analyzing protein sequences. frDriver accurately predicts gene expression changes and outperforms existing methods in cancer driver discovery.

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    Area of Science:

    • Genomics
    • Bioinformatics
    • Computational Biology

    Background:

    • Identifying cancer drivers is essential for understanding cancer development.
    • Current methods often overlook medium-sized functional elements in protein sequences.
    • Mutations in different protein regions can have varying impacts on cancer progression.

    Purpose of the Study:

    • To develop a novel method, frDriver, for identifying functional regions that act as cancer drivers.
    • To pinpoint protein regions capable of regulating gene expression and possessing high functional impact.
    • To improve the accuracy of cancer driver identification by considering functional regions.

    Main Methods:

    • Developed frDriver, a method utilizing Bayesian probability and multiple linear regression.
    • Integrated gene expression and somatic mutation data.
    • Incorporated functional impact scores (SIFT, PROVEAN) as prior knowledge.

    Main Results:

    • frDriver accurately identified cancer driver regions predictive of gene expression levels.
    • Evaluated on BRCA and GBM datasets from TCGA, frDriver outperformed eDriver, ActiveDriver, and OncodriveCLUST.
    • Identified known cancer drivers and demonstrated superior performance.

    Conclusions:

    • frDriver is an effective method for identifying functional regions as cancer drivers.
    • Enrichment analysis revealed frDriver-predicted drivers are involved in cancer formation and gene regulation.
    • The findings contribute to a deeper understanding of cancer mechanisms and driver identification.