Search Results - "Petrykowska, Hanna M."

Identification of human silencers by correlating cross-tissue epigenetic profiles and gene expression by Huang, Di, Petrykowska, Hanna M, Miller, Brendan F, Elnitski, Laura, Ovcharenko, Ivan

“…Compared to enhancers, silencers are notably difficult to identify and validate experimentally. In search for human silencers, we utilized H3K27me3-DNase I…”
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Assessing ZNF154 methylation in patient plasma as a multicancer marker in liquid biopsies from colon, liver, ovarian and pancreatic cancer patients by Miller, Brendan F., Petrykowska, Hanna M., Elnitski, Laura

“…One epigenetic hallmark of many cancer types is differential DNA methylation occurring at multiple loci compared to normal tissue. Detection and assessment of…”
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Differential gene expression identifies a transcriptional regulatory network involving ER-alpha and PITX1 in invasive epithelial ovarian cancer by Li, Yichao, Jaiswal, Sushil K, Kaur, Rupleen, Alsaadi, Dana, Liang, Xiaoyu, Drews, Frank, DeLoia, Julie A, Krivak, Thomas, Petrykowska, Hanna M, Gotea, Valer, Welch, Lonnie, Elnitski, Laura

“…Abstract Background The heterogeneous subtypes and stages of epithelial ovarian cancer (EOC) differ in their biological features, invasiveness, and response to…”
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Bidirectional promoters as important drivers for the emergence of species-specific transcripts by Gotea, Valer, Petrykowska, Hanna M, Elnitski, Laura

“…The diversification of gene functions has been largely attributed to the process of gene duplication. Novel examples of genes originating from previously…”
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MethylToSNP: identifying SNPs in Illumina DNA methylation array data by LaBarre, Brenna A, Goncearenco, Alexander, Petrykowska, Hanna M, Jaratlerdsiri, Weerachai, Bornman, M S Riana, Hayes, Vanessa M, Elnitski, Laura

“…Current array-based methods for the measurement of DNA methylation rely on the process of sodium bisulfite conversion to differentiate between methylated and…”
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DNA methylation profiles unique to Kalahari KhoeSan individuals by Goncearenco, Alexander, LaBarre, Brenna A., Petrykowska, Hanna M., Jaratlerdsiri, Weerachai, Bornman, M. S. Riana, Turner, Stephen D., Hayes, Vanessa M., Elnitski, Laura

“…Genomes of KhoeSan individuals of the Kalahari Desert provide the greatest understanding of single nucleotide diversity in the human genome. Compared with…”
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Differential analysis of ovarian and endometrial cancers identifies a methylator phenotype by Kolbe, Diana L, DeLoia, Julie A, Porter-Gill, Patricia, Strange, Mary, Petrykowska, Hanna M, Guirguis, Alfred, Krivak, Thomas C, Brody, Lawrence C, Elnitski, Laura

“…Despite improved outcomes in the past 30 years, less than half of all women diagnosed with epithelial ovarian cancer live five years beyond their diagnosis…”
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Robust Detection of DNA Hypermethylation of ZNF154 as a Pan-Cancer Locus with in Silico Modeling for Blood-Based Diagnostic Development by Margolin, Gennady, Petrykowska, Hanna M, Jameel, Nader, Bell, Daphne W, Young, Alice C, Elnitski, Laura

“…Sites that display recurrent, aberrant DNA methylation in cancer represent potential biomarkers for screening and diagnostics. Previously, we identified…”
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Evaluating Stacked Methylation Markers for Blood-Based Multicancer Detection by Funderburk, Karen, Bang-Christensen, Sara R, Miller, Brendan F, Tan, Hua, Margolin, Gennady, Petrykowska, Hanna M, Baugher, Catherine, Farney, S Katie, Grimm, Sara A, Jameel, Nader, Holland, David O, Altman, Naomi S, Elnitski, Laura

“…The ability to detect several types of cancer using a non-invasive, blood-based test holds the potential to revolutionize oncology screening. We mined tumor…”
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Recurrent patterns of DNA methylation in the ZNF154, CASP8, and VHL promoters across a wide spectrum of human solid epithelial tumors and cancer cell lines by Sánchez-Vega, Francisco, Gotea, Valer, Petrykowska, Hanna M, Margolin, Gennady, Krivak, Thomas C, DeLoia, Julie A, Bell, Daphne W, Elnitski, Laura

“…The study of aberrant DNA methylation in cancer holds the key to the discovery of novel biological markers for diagnostics and can help to delineate important…”
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Detection and characterization of silencers and enhancer-blockers in the greater CFTR locus by Petrykowska, Hanna M, Vockley, Christopher M, Elnitski, Laura

“…Silencers and enhancer-blockers (EBs) are cis-acting, negative regulatory elements (NREs) that control interactions between promoters and enhancers. Although…”
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Leveraging locus-specific epigenetic heterogeneity to improve the performance of blood-based DNA methylation biomarkers by Miller, Brendan F, Pisanic Ii, Thomas R, Margolin, Gennady, Petrykowska, Hanna M, Athamanolap, Pornpat, Goncearenco, Alexander, Osei-Tutu, Akosua, Annunziata, Christina M, Wang, Tza-Huei, Elnitski, Laura

“…Variation in intercellular methylation patterns can complicate the use of methylation biomarkers for clinical diagnostic applications such as blood-based…”
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Functional analysis of synonymous substitutions predicted to affect splicing of the CFTR gene by Scott, Alexandra, Petrykowska, Hanna M, Hefferon, Timothy, Gotea, Valer, Elnitski, Laura

“…Abstract Background Cystic fibrosis is caused by mutations in the cystic fibrosis transmembrane conductance regulator ( CFTR ) gene. Over 1800 CFTR mutations…”
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Genome-wide detection of a TFIID localization element from an initial human disease mutation by Yang, Mary Q, Laflamme, Karina, Gotea, Valer, Joiner, Clinton H, Seidel, Nancy E, Wong, Clara, Petrykowska, Hanna M, Lichtenberg, Jens, Lee, Stephen, Welch, Lonnie, Gallagher, Patrick G, Bodine, David M, Elnitski, Laura

“…Eukaryotic core promoters are often characterized by the presence of consensus motifs such as the TATA box or initiator elements, which attract and direct the…”
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Abstract 2137: Differential gene expression identifies a transcriptional regulatory network involving ESR1and PITX1 in invasive epithelial ovarian cancer by Li, Yichao, Jaiswal, Sushil Kumar, Kaur, Rupleen, Alsaadi, Dana, Liang, Xiaoyu, Drews, Frank, DeLoia, Julie A., Krivak, Thomas, Petrykowska, Hanna M., Gotea, Valer, Welch, Lonnie, Laura, Elnitski

“…Abstract The heterogeneous subtypes and stages of epithelial ovarian cancer (EOC) differ in invasive processes, but the molecular factors that drive aggressive…”
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