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  1. Article

    Open Access

    Control of false discoveries in grouped hypothesis testing for eQTL data

    Expression quantitative trait locus (eQTL) analysis aims to detect the genetic variants that influence the expression of one or more genes. Gene-level eQTL testing forms a natural grouped-hypothesis testing st...

    Pratyaydipta Rudra, Yi-Hui Zhou, Andrew Nobel, Fred A. Wright in BMC Bioinformatics (2024)

  2. Article

    Open Access

    Insight into genetic regulation of miRNA in mouse brain

    micro RNA (miRNA) are important regulators of gene expression and may influence phenotypes and disease traits. The connection between genetics and miRNA expression can be determined through expression quantita...

    Gordon Kordas, Pratyaydipta Rudra, Audrey Hendricks, Laura Saba in BMC Genomics (2019)

  3. Article

    Open Access

    Author Correction: Eya3 partners with PP2A to induce c-Myc stabilization and tumor progression

    In the original version of this Article, the title of the legend to Fig. 7 incorrectly read ‘Knockdown of B55α increases breast cancer metastasis’ instead of ‘Knockdown of B55α decreases breast cancer metastas...

    Lingdi Zhang, Hengbo Zhou, Xueni Li, Rebecca L. Vartuli in Nature Communications (2018)

  4. Article

    Open Access

    Predictive modeling of miRNA-mediated predisposition to alcohol-related phenotypes in mouse

    MicroRNAs (miRNAs) are small non-coding RNAs that bind messenger RNAs and promote their degradation or repress their translation. There is increasing evidence of miRNAs playing an important role in alcohol rel...

    Pratyaydipta Rudra, Wen J. Shi, Pamela Russell, Brian Vestal in BMC Genomics (2018)

  5. Article

    Open Access

    Eya3 partners with PP2A to induce c-Myc stabilization and tumor progression

    Eya genes encode a unique family of multifunctional proteins that serve as transcriptional co-activators and as haloacid dehalogenase-family Tyr phosphatases. Intriguingly, the N-terminal domain of Eyas, which...

    Lingdi Zhang, Hengbo Zhou, Xueni Li, Rebecca L Vartuli in Nature Communications (2018)

  6. Article

    Open Access

    Model based heritability scores for high-throughput sequencing data

    Heritability of a phenotypic or molecular trait measures the proportion of variance that is attributable to genotypic variance. It is an important concept in breeding and genetics. Few methods are available fo...

    Pratyaydipta Rudra, W. Jenny Shi, Brian Vestal, Pamela H. Russell in BMC Bioinformatics (2017)