- Department of Molecular Biology and Genetics, Faculty
... • Data transformation; microarray data is most often given as fold expression changes, that are best represented in Log2 space • Background correction; a method to determine the quality of the hybridisation either across a single microarray or between microarrays, that take this into account when me ...
... • Data transformation; microarray data is most often given as fold expression changes, that are best represented in Log2 space • Background correction; a method to determine the quality of the hybridisation either across a single microarray or between microarrays, that take this into account when me ...
The Ames Test
... typhimurium exhibit variation in CFU concentration, typically containing 2x108–2x109 CFU‟s/mL. The human eye obviously cannot distinguish such a large number of individual colonies, so we will determine the number of CFU‟s in a given culture by spreading serial dilutions of the overnight cultures on ...
... typhimurium exhibit variation in CFU concentration, typically containing 2x108–2x109 CFU‟s/mL. The human eye obviously cannot distinguish such a large number of individual colonies, so we will determine the number of CFU‟s in a given culture by spreading serial dilutions of the overnight cultures on ...
A prophage-encoded actin-like protein required for efficient viral
... performed in CGXII minimal medium containing 4% glucose as carbon source. From each preculture two main cultures were inoculated to an OD600 of 1 in CGXII minimal medium. At an OD600 of 3 mitomycin C (final concentration of 0.6 M) was added to one culture to induce the SOS response; the second, unt ...
... performed in CGXII minimal medium containing 4% glucose as carbon source. From each preculture two main cultures were inoculated to an OD600 of 1 in CGXII minimal medium. At an OD600 of 3 mitomycin C (final concentration of 0.6 M) was added to one culture to induce the SOS response; the second, unt ...
Real time PCR based determination of gene copy numbers in
... previously for other host systems such as animal and plant cells but no such method ...
... previously for other host systems such as animal and plant cells but no such method ...
Genes can be switched on and off by the protein CTCF
... protein with similar functions was examined, called BORIS. The fragments of DNA where CTCF was bound were identified using a method called PCR (polymerase chain reaction). The results showed that CTCF and BORIS could bind to the same target, and suggested they did so at different stages of developme ...
... protein with similar functions was examined, called BORIS. The fragments of DNA where CTCF was bound were identified using a method called PCR (polymerase chain reaction). The results showed that CTCF and BORIS could bind to the same target, and suggested they did so at different stages of developme ...
Agarose Gel Electrophoresis
... DNA fragments should be considered. Between 5 and 200 ng of a single DNA fragment can be loaded into a 0.5-cm-wide × 0.2-cmdeep sample well; 5 ng approaches the minimal amount of an individual DNA fragment that can be detected by ethidium bromide staining, and 200 ng approximates the most that can b ...
... DNA fragments should be considered. Between 5 and 200 ng of a single DNA fragment can be loaded into a 0.5-cm-wide × 0.2-cmdeep sample well; 5 ng approaches the minimal amount of an individual DNA fragment that can be detected by ethidium bromide staining, and 200 ng approximates the most that can b ...
Analysis of 16S ribosomal RNA gene segments for the diagnosis of
... most or the entire gene can be sequenced. However, DNA sequencing is impractical in medical diagnostics where speed is often of the essence. Species-specific sequences can be identified very rapidly in assays that combine nucleic acid amplification and a sequencespecific probe of the amplified produ ...
... most or the entire gene can be sequenced. However, DNA sequencing is impractical in medical diagnostics where speed is often of the essence. Species-specific sequences can be identified very rapidly in assays that combine nucleic acid amplification and a sequencespecific probe of the amplified produ ...
CNS.Biomarker.template - College of American Pathologists
... of specific gene transcripts or proteins. Molecular diagnostics is quickly transitioning from testing for one biomarker at a time to a panel-based approach and whole genome analysis. Frequently employed methods for genetic testing are gene sequencing, fluorescence in situ hybridization (FISH), and c ...
... of specific gene transcripts or proteins. Molecular diagnostics is quickly transitioning from testing for one biomarker at a time to a panel-based approach and whole genome analysis. Frequently employed methods for genetic testing are gene sequencing, fluorescence in situ hybridization (FISH), and c ...
Southern molecular hybridization experiments with parallel
... locus of D. melanogaster [14] were used as the model for studying the hybridization of Southern filters with the parallel complementary probe (probe A). The same blot was hybridized in 2x SSC solution at 320C with the parallel probe and then at 54°C with the antiparallel one. Fig. 2 shows the result ...
... locus of D. melanogaster [14] were used as the model for studying the hybridization of Southern filters with the parallel complementary probe (probe A). The same blot was hybridized in 2x SSC solution at 320C with the parallel probe and then at 54°C with the antiparallel one. Fig. 2 shows the result ...
nCounter® Data Analysis Guidelines for Copy Number
... The Custom CNV Assay Kit comes with a set of four DNA controls that, when added to your genomic DNA sample prior to fragmentation, will monitor the efficiency of enzymatic digestion and heat denaturation. The DNA targets for probes labeled RESTRICTIONSITE+A and RESTRICTIONSITE+B contain an AluI rest ...
... The Custom CNV Assay Kit comes with a set of four DNA controls that, when added to your genomic DNA sample prior to fragmentation, will monitor the efficiency of enzymatic digestion and heat denaturation. The DNA targets for probes labeled RESTRICTIONSITE+A and RESTRICTIONSITE+B contain an AluI rest ...
RNAi in Plants: An Argonaute-Centered View
... loading rule. However, regardless of the identities of their 59 nucleotides, DCL3-dependent lmiRNAs are recruited by AGO4 clade proteins. The specificity of sRNA sorting between AGO1 and AGO4 clade proteins is unlikely to be determined by the length of the sRNAs, as both AGO1 and AGO4 clade proteins ...
... loading rule. However, regardless of the identities of their 59 nucleotides, DCL3-dependent lmiRNAs are recruited by AGO4 clade proteins. The specificity of sRNA sorting between AGO1 and AGO4 clade proteins is unlikely to be determined by the length of the sRNAs, as both AGO1 and AGO4 clade proteins ...
Finding Eukaryotic Open reading frames.
... Note in this ATG is shown in a red box (note it is 12 nucleotides into the first exon) {this will not impact on ORF but will mean an incorrect gene annotation: why) Only the first exon and intron is shown full; the rest shows partial sequences of introns are shown. The fully sequences can be found i ...
... Note in this ATG is shown in a red box (note it is 12 nucleotides into the first exon) {this will not impact on ORF but will mean an incorrect gene annotation: why) Only the first exon and intron is shown full; the rest shows partial sequences of introns are shown. The fully sequences can be found i ...
MB206_fhs_lnt_001.1_AT_May09
... DNA is a double-stranded helix; two strands are antiparallel. Double helix is stabilized by H bonds between purine & pyrimidine bases on the opposite strands. A pairs T by 2 H bonds; G pairs C by 3 H bonds. Two strands in DNA helix are complementary, ie. dsDNA contains equimolar amounts of pu ...
... DNA is a double-stranded helix; two strands are antiparallel. Double helix is stabilized by H bonds between purine & pyrimidine bases on the opposite strands. A pairs T by 2 H bonds; G pairs C by 3 H bonds. Two strands in DNA helix are complementary, ie. dsDNA contains equimolar amounts of pu ...
Chapter 12 Recombinant DNA Technology Key Concepts
... autonomously replicating DNA molecules such as bacterial plasmids. These small circular molecules act as carriers, or vectors, for the DNA fragments. The vector molecules with their inserts are called recombinant DNA because they consist of novel combinations of DNA from the donor genome (which can ...
... autonomously replicating DNA molecules such as bacterial plasmids. These small circular molecules act as carriers, or vectors, for the DNA fragments. The vector molecules with their inserts are called recombinant DNA because they consist of novel combinations of DNA from the donor genome (which can ...
2 - cellbiochem.ca
... • Antibiotic resistance gene: allow for selection for bacterial cells that have taken up the vector ...
... • Antibiotic resistance gene: allow for selection for bacterial cells that have taken up the vector ...
Molecular Classification of Infectious Laryngotracheitis Virus from
... Molecular techniques have been useful tools for diagnostic detection and differentiation of many pathogens. These techniques promote sensitivity and specificity compared to cellular techniques (Chansiripornchai et al., 2001). DNA sequencing is the gold standard of genetic identification. However, th ...
... Molecular techniques have been useful tools for diagnostic detection and differentiation of many pathogens. These techniques promote sensitivity and specificity compared to cellular techniques (Chansiripornchai et al., 2001). DNA sequencing is the gold standard of genetic identification. However, th ...
Epigenetic mechanisms regulate placental c-myc
... has been implicated in the pathophysiology of pre-eclampsia (PE). C-myc encodes a transcription factor containing the bHLH/LZ (basic Helix-Loop-Helix Leucine Zipper) domain and can bind to Enhancer Box sequences (E-boxes) via its bHLH domain recruiting histone acetyltransferases and further, dimeriz ...
... has been implicated in the pathophysiology of pre-eclampsia (PE). C-myc encodes a transcription factor containing the bHLH/LZ (basic Helix-Loop-Helix Leucine Zipper) domain and can bind to Enhancer Box sequences (E-boxes) via its bHLH domain recruiting histone acetyltransferases and further, dimeriz ...
Nucleotides
... conversion of different species of ribonucleotides to deoxyribonucleotides as they are required for DNA synthesis. E.g., deoxythymidine triphosphate (dTTP) binding at the specificity sites causes a conformational change that allows reduction of GDP to dGDP at the catalytic site. ...
... conversion of different species of ribonucleotides to deoxyribonucleotides as they are required for DNA synthesis. E.g., deoxythymidine triphosphate (dTTP) binding at the specificity sites causes a conformational change that allows reduction of GDP to dGDP at the catalytic site. ...
Creating conditional dual fluorescence labelled transgenic animals
... critical to the field. We developed a fast and straightforward method to determine ncRNAtransgene copy number, orientation, and insertion site in the genome. Furthermore, upon tissuespecific expression of ncRNA, a Cre-loxP mediated dual-fluorescence expression system facilitates fluorescence signal ...
... critical to the field. We developed a fast and straightforward method to determine ncRNAtransgene copy number, orientation, and insertion site in the genome. Furthermore, upon tissuespecific expression of ncRNA, a Cre-loxP mediated dual-fluorescence expression system facilitates fluorescence signal ...
Comparison of DNA Sequences with Protein Sequences
... they can be more easily joined, and (b) to allow small overlaps (10 residues) between joined regions. Step 4 is changed to produce a band-limited DNA–protein local alignment score (Zhang et al., 1997) as outlined above. FASTX and FASTY use a full Smith–Waterman local DNA–protein alignment in linear ...
... they can be more easily joined, and (b) to allow small overlaps (10 residues) between joined regions. Step 4 is changed to produce a band-limited DNA–protein local alignment score (Zhang et al., 1997) as outlined above. FASTX and FASTY use a full Smith–Waterman local DNA–protein alignment in linear ...
Bisulfite sequencing
Bisulphite sequencing (also known as bisulfite sequencing) is the use of bisulphite treatment of DNA to determine its pattern of methylation. DNA methylation was the first discovered epigenetic mark, and remains the most studied. In animals it predominantly involves the addition of a methyl group to the carbon-5 position of cytosine residues of the dinucleotide CpG, and is implicated in repression of transcriptional activity.Treatment of DNA with bisulphite converts cytosine residues to uracil, but leaves 5-methylcytosine residues unaffected. Thus, bisulphite treatment introduces specific changes in the DNA sequence that depend on the methylation status of individual cytosine residues, yielding single- nucleotide resolution information about the methylation status of a segment of DNA. Various analyses can be performed on the altered sequence to retrieve this information. The objective of this analysis is therefore reduced to differentiating between single nucleotide polymorphisms (cytosines and thymidine) resulting from bisulphite conversion (Figure 1).