DNA copy number alterations
DNA copy number alterations and PPARG amplification in a patient with multifocal bladder urothelial carcinoma
... detect copy number variations (CNVs) that may be involved with tumor recurrence and ...The copy number level of these genes would seem inversely mutually correlated and highly dependent on ...
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Array-based comparative genomic hybridization for genomic-wide screening of DNA copy number alterations in aggressive bone tumors
... 4. Pinkel D, Segraves R, Sudar D, Clark S, Poole I, Kowel D, Collins C, Kuo W-L, Chen C, Zhai Y, Dairkee SH, Ljung B, Gray JW, Albertson DG: High resolution analysis of DNA copy number variation ...
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High-resolution analysis of copy number alterations and associated expression changes in ovarian tumors
... somatic DNA copy number alterations (CNAs) can indicate the presence of genes involved in tumorigen- esis, studies of DNA instability in ovarian cancers could potentially lead to ...
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Pan-Cancer Analysis Reveals Differential Susceptibility of Bidirectional Gene Promoters to DNA Methylation, Somatic Mutations, and Copy Number Alterations
... CpG islands. The size of the points indicates the relative sample size and 95% confidence intervals are shown.. intersecting regions of copy number alteration are lower for the 657 C/C b[r] ...
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A method to reduce ancestry related germline false positives in tumor only somatic variant calling
... constitutional DNA sample from the same individual is sequenced in parallel, so that somatic variants can be identified by comparing the tumour to the constitutional ...content, copy number ...
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Chromosomal instability and copy number alterations in Barrett’s esophagus and esophageal adenocarcinoma
... of DNA required for analysis by BAC array, which precluded the use of some ...genetic alterations using SNP arrays in a study published previously 33 ; however, the current study was designed ...
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Chromosomal copy number alterations for associations of ductal carcinoma in situ with invasive breast cancer
... A number of studies have previously examined the risk of DCIS recurrence using protein expression markers [16]; however, DNA copy number changes are common in early genomic lesions and may ...
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Two classes of intrahepatic cholangiocarcinoma defined by relative abundance of mutations and copy number alterations
... direct DNA sequencing (ABI 3100 PRISM DNA Sequencer, Applied Biosystems, Foster City, CA, ...Essential DNA Green Master (Roche) by LightCycler ...
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Landscape of somatic allelic imbalances and copy number alterations in HER2 amplified breast cancer
... of DNA ploidy, subclonal CN events, fractions of LOH, CNAs and CNN-AI across HER2-amplified and HER2-negative tumors appear consistent with the overall prognosis for the ...Allele-Specific Copy ...
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Whole-exome and transcriptome sequencing of refractory diffuse large B-cell lymphoma
... genetic alterations in these patients are not well ...the DNA-binding domain of ...by copy number ...and copy number gain. Recurrent copy gains of POU2AF1, SLC1A4, REL11, ...
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Importance of rare gene copy number alterations for personalized tumor characterization and survival analysis
... CNA copy number alteration, DR DNA replication, GBM glioblastoma multiforme, GL glycolysis, KC known cancer genes, KP kinases and phosphatases, LUAD lung adenocarcinoma, MP metabolic pathways, OP ...
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Copy number gain of chromosome 3q is a recurrent event in patients with intraductal papillary mucinous neoplasm (IPMN) associated with disease progression
... and copy number aberrations (deletions and duplications) were ...positive alterations we have performed a downstream screening using as filtering parameter the percentage of overlapping with ...
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Appraising the relevance of DNA copy number loss and gain in prostate cancer using whole genome DNA sequence data
... somatic copy num- ber alteration (SCNA) in human ...Genome DNA Sequence (WGS) data from tumor samples (n = 103) to comprehensively assess the role of the Knud- son two hit genetic model in SCNA generation ...
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DiNAMIC - a method for assessing the statistical signficance of DNA copy number aberrations
... heritable copy number variation, CNAs are the result of genomic instability in somatic tumor tissue (Albertson et ...a number of tumor types ...Genetic Alterations in Cancer (GAC) database ...
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High resolution genomic and expression analyses of copy number alterations in HER2 amplified breast cancer
... [24]. DNA from fresh frozen and FFPE tumor tissue was extracted as described (Additional file ...tumors. Copy number estimates (log 2 ratios) for each array were normalized [26] and replicated ...
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A genomic case study of desmoplastic small round cell tumor: comprehensive analysis reveals insights into potential therapeutic targets and development of a monitoring tool for a rare and aggressive disease
... protein alterations including 12 somatic and 14 germline events (11 germline compound heterozygous mutations and 3 rare homozygous polymorphisms) affecting genes predominantly involved in mesenchymal cell ...
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Assessment of copy number variations in the brain genome of schizophrenia patients
... dosage alterations in brain DNA of schizophrenia patients and compared those with the copy number variations (CNVs) identified in schizophrenia patients as well as with those in Asian ...
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Integrative analysis of DNA copy number, DNA methylation and gene expression in multiple myeloma reveals alterations related to relapse
... common DNA imbalances when it comes to searching for an associated specific expression ...of DNA involved in chromosomal imbalances, could influence gene expression ...of DNA affected by CNAs at ...
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Review Article Copy number alterations in colorectal cancer
... short DNA strands from randomly frag- mented copies of a genome, whose typical run could generate millions to billions of reads, which includes Whole Genome Sequencing (WGS) and Whole Exome Sequencing (WES), and ...
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Whole exome sequencing analysis of urine trans-renal tumour DNA in metastatic colorectal cancer patients
... in DNA isolated from tissue, plasma and ...sufficient DNA to allow WES analyses in urine and ...tumour alterations primarily reside in low molecular weight fragments (less than 112 ...derived ...
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