A, Epigenetic validation results of CBFA2T3 and GABBR2, which were first screened by MSCC sequencing and further confirmed by a Sequenom EpiTYPER assay.

Slides:

Advertisements

Similar presentations

The Center for Medical Genomics facilitates cutting-edge research with state-of-the-art genomic technologies for studying gene expression and genetics,

Advertisements

Date of download: 5/28/2016 Copyright © 2016 American Medical Association. All rights reserved. From: Increased BDNF Promoter Methylation in the Wernicke.

How do eucaryotic gene activator proteins increase the rate of transcription initiation? 1.By activating directly on the transcription machinery. 2.By.

Distribution of CpG dinucleotide in the human genome and differences in methylation patterns between normal and tumor cells. In the majority of the mammalian.

Recurrent inversion breaking intron 1 of the factor VIII gene is a frequent cause of severe hemophilia A by Richard D. Bagnall, Naushin Waseem, Peter M.

CYB561 mutations. CYB561 mutations. The upper part shows the structure of the CYB561 gene, with the positions of the identified mutations indicated. Gray.

Rearrangements of Gene A and Gene B

BCR–ABL1 B-ALLs feature DNA methylation and expression signatures centered aroundIL2RA(CD25). BCR–ABL1 B-ALLs feature DNA methylation and expression signatures.

Genome-Wide DNA Methylation Analysis in Melanoma Reveals the Importance of CpG Methylation in MITF Regulation Martin Lauss, Rizwan Haq, Helena Cirenajwis,

Genome-Wide Identification and Validation of a Novel Methylation Biomarker, SDC2, for Blood-Based Detection of Colorectal Cancer TaeJeong Oh, Nayoung.

Genomic evidence of partial domestication in ancient Tehuacán maize.

Figure 3 The Beckwith–Wiedemann syndrome locus at chromosome 11p15.5

Addition of H19 ‘Loss of Methylation Testing’ for Beckwith-Wiedemann Syndrome (BWS) Increases the Diagnostic Yield Jochen K. Lennerz, Robert J. Timmerman,

High-throughput analysis of informative CpG sites for the four studied tumor suppressor genes (A-D). High-throughput analysis of informative CpG sites.

Intravenous delivery of reovirus to primary and secondary brain tumors

SgRNAs targeting the 5′ coding region of β-catenin are ineffective due to an alternative translation initiation site in exon 3. sgRNAs targeting the 5′

Diverse abnormalities manifest in RNA

Supplemental Figure 3 A B C T-DNA 1 2 RGLG1 2329bp 3 T-DNA 1 2 RGLG2

Volume 6, Issue 1, Pages (January 2016)

ZIKV infection induces global DNA methylation changes in multicellular human cerebral organoids. ZIKV infection induces global DNA methylation changes.

Volume 23, Issue 1, Pages 9-22 (January 2013)

A Dominantly Inherited 5′ UTR Variant Causing Methylation-Associated Silencing of BRCA1 as a Cause of Breast and Ovarian Cancer D.Gareth R. Evans, Elke.

Histology and genomic copy number alterations in TRAMP tumors.

Disease ontology of genes associated with ZIKV-induced changes.

Alterations related to androgen signaling.

Junjie Zhang et al. JACEP 2017;3:

Validation of ChIP-seq reads.

Genome-wide binding sites of OsMADS1 and the distribution of binding sites in different regions of annotated genes. Genome-wide binding sites of OsMADS1.

DNA methylation patterns of four DMR-associated genes.

Volume 1, Issue 1, Pages (June 2013)

RND efflux operons in P. aeruginosa.

Identification and characterization of a novel KRAS rearrangement in metastatic prostate cancer. Identification and characterization of a novel KRAS rearrangement.

Enrichment analysis of differentially methylated CpGs.

The human GPR109A promoter is methylated and GPR109A expression is silenced in human colon carcinoma cells. The human GPR109A promoter is methylated and.

Identification of the CD74–NRG1 fusion gene.

DNMT3A1 signatures are not recapitulated in AML.

Pleiotropic Effects of Trait-Associated Genetic Variation on DNA Methylation: Utility for Refining GWAS Loci Eilis Hannon, Mike Weedon, Nicholas Bray,

Relative expression levels of three PTPN22 transcripts.

Visual display of the proportions of hyper- and hypomethylated differentially methylated targets (DMT) relative to reference muscularis tissue in SDH-

The TSDR of ATL cells exhibits Treg-like hypomethylated status or CD4+ conventional T cell–like methylated status. The TSDR of ATL cells exhibits Treg-like.

Rahul Karnik, Alexander Meissner Cell Stem Cell

The 3D Genome in Transcriptional Regulation and Pluripotency

Histone modifications mark dynamically regulated genes.

Methylation status of IGFBPL1 in human breast cancer.

Epigenetic regulation of p16INK4a in human gastric cancer.

A, Top inhibitors of Ba/F3 transformed with CD74–ROS1, color coded by clinical development status: FDA-approved (green), phase III (yellow), phase II (blue),

Representative examples of estrogen receptor α and β immunohistochemical expression (top figures) and EGFR mutations (bottom figures) in lung adenocarcinomas.

X-tile analysis of survival data from the SEER registry reveals a continuous distribution based on tumor size and node number, and a U-shaped distribution.

Regional plot and genome browser view of 14q13.

JAK2V617F leads to increased 5-hmC and genome-wide loss of cytosine methylation in primary patient samples. JAK2V617F leads to increased 5-hmC and genome-wide.

Differential methylation between AA and EA cases among breast cancer subtypes. Differential methylation between AA and EA cases among breast cancer subtypes.

Pre- and post-vorinostat values of ER-related gene expression using the Oncotype DX 21-gene assay. Pre- and post-vorinostat values of ER-related gene expression.

Fig. 1 Exon 44–deleted DMD patient iPSC-derived cardiomyocytes express dystrophin after CRISPR-Cas9–mediated genome editing. Exon 44–deleted DMD patient.

Transcripts enriched and depleted in NB TICs compared with SKPs and other tumor tissues. Transcripts enriched and depleted in NB TICs compared with SKPs.

Duration of treatment and intervals of radiographic and ctDNA response

Methylation of cytosine and consequences of deamination of methyl-C

A and B, two blocks from the original specimen used for TMA demonstrated areas with varying patterns of ALK rearrangement and KRAS mutation status. A and.

A, pretreatment CT scan of pelvic lymphadenopathy (identified by white arrow) in 1 patient with documented response to 1α-OH-D2. A, pretreatment CT scan.

Global mutational landscape of the 170 lung adenocarcinoma patients (discovery cohort). Global mutational landscape of the 170 lung adenocarcinoma patients.

Concordance between the genomic landscape identified by whole-exome sequencing of plasma cfDNA and tumor; DNA and recurrence of KDR/VEGFR2 oncogenic mutations.

Methylation targets of TET1 in vitro.

siRNA screen validation.

A, Schematic diagram of identified splice variants of PD-L1.

Representative images for different populations of detected cells in prostate cancer patients and five rounds of FISH in a CTC. A, Immunofluorescence image.

Driver pathways and key genes in OSCC

Integrated analysis of gene expression and copy number alterations.

Mutant TERT promoter displays active histone marks and distinct long-range interactions: A, cell lines that were used in the study with their origin and.

Genomic instability is a core feature of ovarian cancer that frequently involves DNA-damage repair genes. Genomic instability is a core feature of ovarian.

Genome-wide DNA hypomethylation associated with DNMT3A mutation in murine and human FLT3ITD AML. Human: A–C, volcano plot (A) representation of mean methylation.

Presentation transcript:

A, Epigenetic validation results of CBFA2T3 and GABBR2, which were first screened by MSCC sequencing and further confirmed by a Sequenom EpiTYPER assay with hypermethylation in red and hypomethylation in yellow, demonstrating that the adjacent CG sites had ... A, Epigenetic validation results of CBFA2T3 and GABBR2, which were first screened by MSCC sequencing and further confirmed by a Sequenom EpiTYPER assay with hypermethylation in red and hypomethylation in yellow, demonstrating that the adjacent CG sites had increased methylation levels, which was consistent with the MSCC screening results. B, Genomic locations of the 60 genes screened with aberrant methylation levels in both patients indicated that the methylation changes were at the whole-genome level. The methylation changes of each gene in the two patients were represented by different shades of color, which can be referred to the scales on the right side, with the blue color at the top of histograms with −100% methylation change showing hypomethylation, and the red color at the bottom of histograms with 100% methylation change showing hypermethylation. The validated genes, GABBR2 and CBFA2T3, were marked by arrows. C, The DMR in the GABBR2 gene was located exactly in the same region between exon 2 and exon 3 in both patients. The DMRs of CBFA2T3 were located in the transcription starting site (TSS) region for one and intron 1 for the other patient. Note: The arrow in C indicated the start of transcription. Xiaomin Niu et al. Clin Cancer Res 2017;23:5003-5014 ©2017 by American Association for Cancer Research