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The Role of TP53 in Cervical Carcinogenesis
The Role of TP53 in Cervical Carcinogenesis

Epigenetics in mood disorders
Epigenetics in mood disorders

... 2p24-21, 2q31-q32, 14q32, and 16q21-q23 [48]. Transmission disequilibrium tests in trio samples also revealed the association of several genes when the gender of the transmitting parent was taken into consideration [49, 50]. None of these linkages or findings in association studies suggestive of imp ...
Applications of Genome Rearrangements
Applications of Genome Rearrangements

... How do we measure their similarity and/or distance with respect to gene order and gene content? Sub-problem: How do we know that two genes or blocks are the "same" in two different species? ...
Tools for Comparing Bacterial Genomes
Tools for Comparing Bacterial Genomes

... As can be seen in > Fig. 2, the genes in this chromosome are strongly favoring one strand: the positive strand for the first (right) half and the negative strand for the second (left) half of the chromosome. These happen to be the leading strand during replication. Replication starts at the origin, ...
On intrapersonal reciprocity
On intrapersonal reciprocity

... Silverman, 2001; Haig, 2002)? The simple answer is little: genes of both parental origins would favor withholding the benefit from Maddy if B < 2C and both sets of genes would favor conferring the benefit if this directly benefited Bob (C < 0). Specific prediction of outcomes within the zone of conf ...
Role for CCG-trinucleotide repeats in the pathogenesis of chronic
Role for CCG-trinucleotide repeats in the pathogenesis of chronic

... Figure 1. Localization of the minimal region of deletion and patients’ breakpoints on the 40-Mb 11q contig. The locations of the trinucleotide repeats and the FRA11B fragile site are indicated by bold type. The various genes and D11S markers in the region are also indicated at the top of the figure, ...
The Role of Mutation Rate Variation and Genetic Diversity in the
The Role of Mutation Rate Variation and Genetic Diversity in the

... have much higher rates of mutation. We used these intron divergences to infer the rate of non-synonymous mutation in human exons, by calculating the number of CpG and non-CpG sites in each exon which when mutated would give a nonsynonymous change; in this calculation we assumed that all mutations at ...
Cancer Prone Disease Section Fanconi anaemia Atlas of Genetics and Cytogenetics
Cancer Prone Disease Section Fanconi anaemia Atlas of Genetics and Cytogenetics

... Mean age at death: 16 years; most patients die from marrow aplasia (haemorrhage, sepsis), and others from malignancies; MDS and ANLL in FA bear a very poor prognosis (median survival of about 6 mths); survival is also poor in the case of a squamous cell carcinoma. It has recently been shown that sig ...
module 1: introduction to the genome browser: what is a gene?
module 1: introduction to the genome browser: what is a gene?

... to right relative to the orientation of contig1. This also means that the start of the protein is located toward the left of the end of the gene. However, recall that DNA is doublestranded, and that the two strands run in opposite directions to each other (i.e. they are antiparallel). It turns out t ...
Yeast and Genetic Studies
Yeast and Genetic Studies

... The information required to make an enzyme is encoded as a gene in the DNA of the organism. In general, one gene corresponds to one polypeptide (a gene can also correspond to an RNA, but this is not relevant to the discussion at hand). This correspondence and advances in DNA technology allow researc ...
Gene expression analysis to evaluate the effect of p38 specific
Gene expression analysis to evaluate the effect of p38 specific

... SEB-induced apoptosis related pathways By: Lisa Hesse, Advisor—Dr. Chanaka Mendis Abstract Staphylococcal enterotoxin B (SEB) is a bacterial toxin that has been thoroughly investigated. However, little is known about the cascades of signaling events that explain its patho-mechanism. This research in ...
Frequent Loss of Heterozygosity at the TEL Gene Locus
Frequent Loss of Heterozygosity at the TEL Gene Locus

... have shown that LOH at the TEL gene locus on 12pI3 occurs in approximately 15% of childhood ALL, thus ranking it among the most common genetic abnormalities identified in childhood cancer. It is not surprising that the frequency of LOH detected by PCR is considerably higher than the 5% incidence of ...
Micro Array Explorer MAExplorer
Micro Array Explorer MAExplorer

... • The 2-class division allows using sets of replicates for computing better gene expression estimates and allows using t-Tests etc. to determine statistical significance • The ordered N-list of samples is used to represent an ordered timeseries, development stages, drug-dose response, etc. • [In MAE ...
Xeroderma Pigmentosum
Xeroderma Pigmentosum

... believed that the damage is caused by ultraviolet light which is why skin cancer is such a threat to those affected by xeroderma pigmentosum. Damage is not just to a couple of nucleotides but affects the helix as well. The damage is largely a matter of helix-distoring lesions, and a large number of ...
Comparison of Genomes using High-Performance - FACOM
Comparison of Genomes using High-Performance - FACOM

... DNA or amino acids is important because through similarity we may infer homology. This is because closely related organisms often present similar sequences. Homology in turn is important because often homology determines function. Thus we have the chain similarity  homology  function. The comparis ...
Slides
Slides

... imBrutlag Batzoglou © Doug ...
Slide 1
Slide 1

... Selection of diseases and training genes for the cross-validation: • For the cross-validation experiment, diseases in OMIM, to which at least 8 causative genes were assigned, were included. Automated HUGO-to-Ensembl mapping reduced the number of genes for a few diseases. The smallest gene set (ALS) ...
- Wiley Online Library
- Wiley Online Library

... It is possible that an oligogenic combination of missing/ duplicated genes in our patient underlies his periventricular nodular heterotopia. Finally, it is possible that our patient’s disease is caused by other unknown mutations, unrelated to his chromosomal abnormalities, which we have not seen bec ...
Biochemical and genetic characterization of the
Biochemical and genetic characterization of the

... Bacterial and yeast strains The temperature-sensitive, ligase-defective E.coli strain AK76 lig ts7 was provided by Francis Barany (Cornell University Medical College). The congenic S.cerevisiae strains, M1-2B and L94-4D (Table 1), were supplied by Lee Johnston (National Institute of Medical Research ...
Enhanced Detection of Longer Insertions and Deletions in Clinical
Enhanced Detection of Longer Insertions and Deletions in Clinical

... Two types of DNA sequence alterations are reported following diagnostic exome sequencing (DES) – single nucleotide variants (SNVs) and insertions, deletions or indels (co-localized insertions and deletions; collectively referred to as indels for the purpose of simplicity). SNVs are the most common t ...
Genetic Testing for Cystic Fibrosis
Genetic Testing for Cystic Fibrosis

... Use LabCorp offers an expanded mutation panel of 70 mutations for cystic fibrosis for prenatal testing, diagnostic testing, and for testing in those persons whose family history or ethnicity require testing for less common mutations. Limitations This assay detects as many as 91% of all the mutations ...
HIV/AIDS Medicine Run Amok
HIV/AIDS Medicine Run Amok

... mitochondria (cytochrome c-oxidase in complex IV and succinate dehydrogenase in complex II of mitochondria as well as an increase in glycolytic lactate synthesis). The researchers concluded that AZT, ddI and ddC exercise a cytotoxic effect on human muscle cells and cause functional changes through ...
Multiple Comparisons with Gene Expression Arrays Using a Data
Multiple Comparisons with Gene Expression Arrays Using a Data

... • Discussion: non-statistical assessment – unadjusted statistical assessment – false discovery rate – familywise error rate • familywise error rate is rather high claim, growing with dimension of array (in contrast to false discovery rate) • if possible, however, then highest degree of security for ...
molecularevolution.rnaseq
molecularevolution.rnaseq

... Overview of the session We’ll cover the 3 main computational challenges of sequence analysis for counting applications: • Read mapping: Placing short reads in the genome • Reconstruction: Finding the regions that originated the reads ...
Immunome database for marsupials and monotremes Open Access
Immunome database for marsupials and monotremes Open Access

... built from a variety of sources, including EST projects and expert-curated gene predictions generated through a variety of methods including chained-BLAST and sensitive HMMER searches. To facilitate systems-based research we have grouped sequences based on broad Gene Ontology categories as well as b ...
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Oncogenomics



Oncogenomics is a relatively new sub-field of genomics that applies high throughput technologies to characterize genes associated with cancer. Oncogenomics is synonymous with ""cancer genomics"". Cancer is a genetic disease caused by accumulation of mutations to DNA leading to unrestrained cell proliferation and neoplasm formation. The goal of oncogenomics is to identify new oncogenes or tumor suppressor genes that may provide new insights into cancer diagnosis, predicting clinical outcome of cancers, and new targets for cancer therapies. The success of targeted cancer therapies such as Gleevec, Herceptin, and Avastin raised the hope for oncogenomics to elucidate new targets for cancer treatment.Besides understanding the underlying genetic mechanisms that initiates or drives cancer progression, one of the main goals of oncogenomics is to allow for the development of personalized cancer treatment. Cancer develops due to an accumulation of mutations in DNA. These mutations accumulate randomly, and thus, different DNA mutations and mutation combinations exist between different individuals with the same type of cancer. Thus, identifying and targeting specific mutations which have occurred in an individual patient may lead to increased efficacy of cancer therapy.The completion of the Human Genome Project has greatly facilitated the field of oncogenomics and has increased the abilities of researchers to find cancer causing genes. In addition, the sequencing technologies now available for sequence generation and data analysis have been applied to the study of oncogenomics. With the amount of research conducted on cancer genomes and the accumulation of databases documenting the mutational changes, it has been predicted that the most important cancer-causing mutations, rearrangements, and altered expression levels will be cataloged and well characterized within the next decade.Cancer research may look either on the genomic level at DNA mutations, the epigenetic level at methylation or histone modification changes, the transcription level at altered levels of gene expression, or the protein level at altered levels of protein abundance and function in cancer cells. Oncogenomics focuses on the genomic, epigenomic, and transcript level alterations in cancer.
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