![Chapter 21: Molecular Basis of Cancer](http://s1.studyres.com/store/data/000656705_1-9bd3102f48644f9722c093a8eab1ab08-300x300.png)
Chapter 21: Molecular Basis of Cancer
... •MIP genotyping uses circularizable probes with 5′ and 3′ ends that anneal upstream and downstream of the ...
... •MIP genotyping uses circularizable probes with 5′ and 3′ ends that anneal upstream and downstream of the ...
1420-1440 Butcher NZIF Conference ppt 888 KB
... Increasingly used in plant breeding:horticulture, crops, pasture Now being introduced to forest trees:eucalypts, poplar, spruce, pines Genomic Selection is not a speculative technology ...
... Increasingly used in plant breeding:horticulture, crops, pasture Now being introduced to forest trees:eucalypts, poplar, spruce, pines Genomic Selection is not a speculative technology ...
GENETIC ANALYSIS LINKS
... of Map/Reduce. Since the GATK’s traversal engine encapsulates the complexity of efficiently accessing the next-generation sequencing data, researchers and developers are free to focus on their specific analysis algorithms. This not only vastly improves the productivity of developers, who can quickly ...
... of Map/Reduce. Since the GATK’s traversal engine encapsulates the complexity of efficiently accessing the next-generation sequencing data, researchers and developers are free to focus on their specific analysis algorithms. This not only vastly improves the productivity of developers, who can quickly ...
Raw copy number (CN) data
... • Goal:To partition the clones into sets with the same copy number and to characterize the genomic segments. Noise reduction Detection of Loss, Normal, Gain, Amplification Breakpoint analysis • Biological model: genomic rearrangements lead to gains or losses of sizable contiguous parts of the ...
... • Goal:To partition the clones into sets with the same copy number and to characterize the genomic segments. Noise reduction Detection of Loss, Normal, Gain, Amplification Breakpoint analysis • Biological model: genomic rearrangements lead to gains or losses of sizable contiguous parts of the ...
Text S1.
... per minute in a three-minute interval for each animal as described [12]. For UNC-15 Paramyosin staining of L4/adult worms, we used a modified version of the FinneyRuvkun whole-mount staining protocol [13]. For observation of H2B::GFP localization in live animals, synchronized larvae were anaesthetiz ...
... per minute in a three-minute interval for each animal as described [12]. For UNC-15 Paramyosin staining of L4/adult worms, we used a modified version of the FinneyRuvkun whole-mount staining protocol [13]. For observation of H2B::GFP localization in live animals, synchronized larvae were anaesthetiz ...
Construction of a Fibrobacter succinogenes Genomic Map and
... sequence has even been proposed as a typing and identification tool [8]. The ribosomal RNA genes of F. succinogenes have the operon structure, and there are at least three such operons on the chromosome. The five genes, encoding the hydrolytic enzymes, were located on the biggest A1.1 and A1.2 fragm ...
... sequence has even been proposed as a typing and identification tool [8]. The ribosomal RNA genes of F. succinogenes have the operon structure, and there are at least three such operons on the chromosome. The five genes, encoding the hydrolytic enzymes, were located on the biggest A1.1 and A1.2 fragm ...
Translocation Breakpoints Are Clustered on Both Chromosome 8
... cDNA sequence, clones were isolated from a human genomic library spanning most of the intron centromeric to the fifth reported AMLl exon.7 This is the region where chromosome 21 breakpoints were suggested to cluster in the t(8;21). As the intron contains a single BamHI site, rearrangements within it ...
... cDNA sequence, clones were isolated from a human genomic library spanning most of the intron centromeric to the fifth reported AMLl exon.7 This is the region where chromosome 21 breakpoints were suggested to cluster in the t(8;21). As the intron contains a single BamHI site, rearrangements within it ...
Principle of TAIL-PCR
... Many product bands from the primary TAIL-PCR reaction disappeared after the secondary TAIL-PCR, indicating that these were non-specific type II products Specific products were not always seen in the primary reactions due to their low concentration. However, these specific products becomes visible af ...
... Many product bands from the primary TAIL-PCR reaction disappeared after the secondary TAIL-PCR, indicating that these were non-specific type II products Specific products were not always seen in the primary reactions due to their low concentration. However, these specific products becomes visible af ...
Lecture 15
... with different immunologically labeled adducts and a single hybridization reaction is performed. The two probes are then detected using fluorochromes which emit at different wavelengths when excited by uv light such as rhodamine (red fluorescence) and fluorescein (green fluorescence). This technique ...
... with different immunologically labeled adducts and a single hybridization reaction is performed. The two probes are then detected using fluorochromes which emit at different wavelengths when excited by uv light such as rhodamine (red fluorescence) and fluorescein (green fluorescence). This technique ...
PowerPoint ****
... JELLINEK D,GREEN LS,BELL C,et al. Inhibition of receptor-binding by high-affinity RNA ligands to vascular endothelial growth-factor[J]. Biochemistry,1994,33 ( 34 ) : 10450 - 10456 . RUCKMAN J,GREEN LS,BEESON J,et al. 2'-fluoropyrimi- dine RNA-based aptamers to the 165-amino acid form of vascular end ...
... JELLINEK D,GREEN LS,BELL C,et al. Inhibition of receptor-binding by high-affinity RNA ligands to vascular endothelial growth-factor[J]. Biochemistry,1994,33 ( 34 ) : 10450 - 10456 . RUCKMAN J,GREEN LS,BEESON J,et al. 2'-fluoropyrimi- dine RNA-based aptamers to the 165-amino acid form of vascular end ...
Supplementary Material and Methods
... performed in parallel with a control reaction without addition of reverse transcriptase (-RT control) using a Roche 1st strand cDNA synthesis kit (Roche, Mannheim, Germany). cDNA was diluted to single molecule level and a PCR with the SNP-specific primers was performed. –RT control reactions were u ...
... performed in parallel with a control reaction without addition of reverse transcriptase (-RT control) using a Roche 1st strand cDNA synthesis kit (Roche, Mannheim, Germany). cDNA was diluted to single molecule level and a PCR with the SNP-specific primers was performed. –RT control reactions were u ...
DNA chips: a new tool for genetic analysis and diagnostics
... Summary – DNA chips are miniaturized microsystems based on the ability of DNA to spontaneously find and bind its complementary sequence in a highly specific and reversible manner, known as hybridization. Labeled DNA molecules in a sample are analyzed by DNA probes tethered at distinct sites on a sol ...
... Summary – DNA chips are miniaturized microsystems based on the ability of DNA to spontaneously find and bind its complementary sequence in a highly specific and reversible manner, known as hybridization. Labeled DNA molecules in a sample are analyzed by DNA probes tethered at distinct sites on a sol ...
2015-04
... patients carrying similar rearrangements, we confirmed that 16p13.3 microduplications of the RubinsteineTaybi region result in a recognizable clinical condition that likely represents a single gene disorder. In addition, our case allowed us to define with more precision the smallest region of overla ...
... patients carrying similar rearrangements, we confirmed that 16p13.3 microduplications of the RubinsteineTaybi region result in a recognizable clinical condition that likely represents a single gene disorder. In addition, our case allowed us to define with more precision the smallest region of overla ...
Yeaman Commentary on Parchman et al 2013
... divergent selection (Strasburg et al. 2012). However, manakins do not appear to have high rates of migration into the hybrid zone, as linkage disequilibrium within admixed populations is not higher than in parental populations (table 2 from Strasburg et al. 2012). These results therefore present a c ...
... divergent selection (Strasburg et al. 2012). However, manakins do not appear to have high rates of migration into the hybrid zone, as linkage disequilibrium within admixed populations is not higher than in parental populations (table 2 from Strasburg et al. 2012). These results therefore present a c ...
statgen10a
... Fluorescent labeling of cDNA's In order to detect cDNA's bound to the microarray, we must label them with a reporter molecule that identifies their presence. The reporters currently used in comparative hybridization to microarrays are fluorescent dyes (fluors). A differently-colored fluor is us ...
... Fluorescent labeling of cDNA's In order to detect cDNA's bound to the microarray, we must label them with a reporter molecule that identifies their presence. The reporters currently used in comparative hybridization to microarrays are fluorescent dyes (fluors). A differently-colored fluor is us ...
AIPL Update - John B. Cole`s Website
... Paul VanRaden has developed a method of imputing all SNP in the genome from a subset. The combination of SNP genotypes and sequence data may permit imputation of important genetic variants that are not on existing SNP chips. ...
... Paul VanRaden has developed a method of imputing all SNP in the genome from a subset. The combination of SNP genotypes and sequence data may permit imputation of important genetic variants that are not on existing SNP chips. ...
Digital PCR Multiplexing Assay for Gene Copy Number
... number levels. Copy Number Variation The DNA copy number of a genomic locus is the number of copies of the DNA in that region relative to either a single control sample or a pooled reference population. Copy number variations (CNVs) include loci gains or losses, and have been associated with familia ...
... number levels. Copy Number Variation The DNA copy number of a genomic locus is the number of copies of the DNA in that region relative to either a single control sample or a pooled reference population. Copy number variations (CNVs) include loci gains or losses, and have been associated with familia ...
References - Proceedings of the Royal Society B
... CYTB gene Cytb424-449 (5’ – GGWTAYGTWYTWCCWTGRGGWCARAT – 3’ and Cytb876-847 (5’ – GCRTAWGCRAAWARRAARTAYCAYTCWGG – 3’) [2]. COXI and CYTB are located approximately opposite one another in the circular mitochondrial genome, and primers from these two genes can be used to amplify the entire genome in t ...
... CYTB gene Cytb424-449 (5’ – GGWTAYGTWYTWCCWTGRGGWCARAT – 3’ and Cytb876-847 (5’ – GCRTAWGCRAAWARRAARTAYCAYTCWGG – 3’) [2]. COXI and CYTB are located approximately opposite one another in the circular mitochondrial genome, and primers from these two genes can be used to amplify the entire genome in t ...
Measuring Gene Expression
... Quantitative PCR Methods for Measuring Gene Expression Because each cycle of PCR requires the denaturization step the number of PCR cycles is under experimental control. Hence, the quantity of PCR product at the end of some number of cycles can be used to estimate the initial quantity. The estimate ...
... Quantitative PCR Methods for Measuring Gene Expression Because each cycle of PCR requires the denaturization step the number of PCR cycles is under experimental control. Hence, the quantity of PCR product at the end of some number of cycles can be used to estimate the initial quantity. The estimate ...
Deletion of GLI3 supports the homology of the human Greig
... sequence. Thus, mutations of GLI3 resulting in a reduced gene dosage are probably responsible for the deVelopment of GCPS. To characterize the GLI3 gene in Xt mutant mice, we isolated different GLI3 cDNA clones from an 8.5day fetal mouse cDNA library (Fahrner et al. 1987), using segments of the huma ...
... sequence. Thus, mutations of GLI3 resulting in a reduced gene dosage are probably responsible for the deVelopment of GCPS. To characterize the GLI3 gene in Xt mutant mice, we isolated different GLI3 cDNA clones from an 8.5day fetal mouse cDNA library (Fahrner et al. 1987), using segments of the huma ...
Generation and Analysis of AFLP Data
... – Comparison of closely related individuals requires rapidly evolving markers (e.g., microsatellites or non-coding DNA sequences) ...
... – Comparison of closely related individuals requires rapidly evolving markers (e.g., microsatellites or non-coding DNA sequences) ...
Update on the NSA SNP project - National Sunflower Association
... • Will happen for RHA 464 rust gene and Plarg gene as part of Lili’s mapping • Other traits, like other rust, vert resistance will need to be started new or translated from existing populations with prior SSR data ...
... • Will happen for RHA 464 rust gene and Plarg gene as part of Lili’s mapping • Other traits, like other rust, vert resistance will need to be started new or translated from existing populations with prior SSR data ...
HighThroughput
... Whichever technology is used, an intensity value is obtained for every probe from every sample. Generally values are comparative - i.e. does this probe express more highly in melanoma than in a normal skin cell. The data are very noisy. A lot of effort has gone into data-cleaning methods which are g ...
... Whichever technology is used, an intensity value is obtained for every probe from every sample. Generally values are comparative - i.e. does this probe express more highly in melanoma than in a normal skin cell. The data are very noisy. A lot of effort has gone into data-cleaning methods which are g ...
Table S1: Description of the cohort used for the novel - HAL
... domain, one PDZ (PSD95/DLG/ZO1) domain and one SAM (Sterile Alpha Motif) domain. For each SHANK gene, short and long isoforms exist due to the presence of alternative promoters and exons [58,59]. SHANK1 is located at 19q13.33 and spans 55.1 kb. The gene contains 23 exons and alternative promoters le ...
... domain, one PDZ (PSD95/DLG/ZO1) domain and one SAM (Sterile Alpha Motif) domain. For each SHANK gene, short and long isoforms exist due to the presence of alternative promoters and exons [58,59]. SHANK1 is located at 19q13.33 and spans 55.1 kb. The gene contains 23 exons and alternative promoters le ...
Molecular Inversion Probe
![](https://en.wikipedia.org/wiki/Special:FilePath/MIP_probe_details_timothy_final.png?width=300)
Molecular Inversion Probe (MIP) belongs to the class of Capture by Circularization molecular techniques for performing genomic partitioning, a process through which one captures and enriches specific regions of the genome. Probes used in this technique are single stranded DNA molecules and, similar to other genomic partitioning techniques, contain sequences that are complementary to the target in the genome; these probes hybridize to and capture the genomic target. MIP stands unique from other genomic partitioning strategies in that MIP probes share the common design of two genomic target complementary segments separated by a linker region. With this design, when the probe hybridizes to the target, it undergoes an inversion in configuration (as suggested by the name of the technique) and circularizes. Specifically, the two target complementary regions at the 5’ and 3’ ends of the probe become adjacent to one another while the internal linker region forms a free hanging loop. The technology has been used extensively in the HapMap project for large-scale SNP genotyping as well as for studying gene copy alterationsand characteristics of specific genomic loci to identify biomarkers for different diseases such as cancer. Key strengths of the MIP technology include its high specificity to the target and its scalability for high-throughput, multiplexed analyses where tens of thousands of genomic loci are assayed simultaneously.