CS790 – Introduction to Bioinformatics
... Prior to cell division, all the genetic instructions must be “copied” so that each new cell will have a complete set DNA polymerase is the enzyme that copies DNA • Reads the old strand in the 3´ to 5´ direction ...
... Prior to cell division, all the genetic instructions must be “copied” so that each new cell will have a complete set DNA polymerase is the enzyme that copies DNA • Reads the old strand in the 3´ to 5´ direction ...
Practical: Ranges
... Split ranges by a factor into a RangesList c Concatenate two or more range objects Category Accessors ...
... Split ranges by a factor into a RangesList c Concatenate two or more range objects Category Accessors ...
Blue eye color in humans may be caused by a perfectly associated
... of the variation was estimated to a QTL, linked to OCA2 (DuVy et al. 2007). Attempts to identify the BEY/blue mutations in OCA2 have failed (Frudakis et al. 2007), and a variation within the 5⬘ proximal regulatory control region of OCA2 was suggested to be responsible for 90% of the eye color pigmen ...
... of the variation was estimated to a QTL, linked to OCA2 (DuVy et al. 2007). Attempts to identify the BEY/blue mutations in OCA2 have failed (Frudakis et al. 2007), and a variation within the 5⬘ proximal regulatory control region of OCA2 was suggested to be responsible for 90% of the eye color pigmen ...
Positive and Negative Selection on Noncoding
... noncoding DNA. Here, we study regions upstream and downstream of protein-coding genes in the house mouse Mus musculus castaneus, a species that has a much larger effective population size (Ne) than humans. We analyze polymorphism data for 78 genes from 15 wild-caught M. m. castaneus individuals and ...
... noncoding DNA. Here, we study regions upstream and downstream of protein-coding genes in the house mouse Mus musculus castaneus, a species that has a much larger effective population size (Ne) than humans. We analyze polymorphism data for 78 genes from 15 wild-caught M. m. castaneus individuals and ...
Conjugative plasmids: vessels of the communal gene pool
... mean that many conferrable traits can be transferred between discrete replicating elements (chromosomes or plasmids) by the movement of relatively small fragments of DNA. Phylogenetic analyses of complete genomes have also shown that some prokaryotic genes are more likely to be transferred than othe ...
... mean that many conferrable traits can be transferred between discrete replicating elements (chromosomes or plasmids) by the movement of relatively small fragments of DNA. Phylogenetic analyses of complete genomes have also shown that some prokaryotic genes are more likely to be transferred than othe ...
CORPORATE RESPONSIBILITY AT DNA CORPORATE
... in Lahti for four years now. I had not given that much thought to responsibility from the company point of view, or how wide-spread its scope is, until I participated in the training last spring. While I may not be the most ecoconscious person out there, it was great to hear about DNA’s commitment a ...
... in Lahti for four years now. I had not given that much thought to responsibility from the company point of view, or how wide-spread its scope is, until I participated in the training last spring. While I may not be the most ecoconscious person out there, it was great to hear about DNA’s commitment a ...
Detection of Agrobacterium vitis by polymerase chain reaction in
... selected colonies grown on tartrate as sole carbon source. Lanes 6-8, 15 and 17 show A. vitis. ...
... selected colonies grown on tartrate as sole carbon source. Lanes 6-8, 15 and 17 show A. vitis. ...
Solving a Crime Using DNA Analysis and Chemistry
... molecular biology and genetics. While modern DNA-based forensics uses short tandem repeat (STR) analysis, the first lab in this manual uses restriction fragment length polymorphism (RFLP) analysis. RFLP analysis is the conceptual predecessor for modern STR analyses conducted by crime scene investiga ...
... molecular biology and genetics. While modern DNA-based forensics uses short tandem repeat (STR) analysis, the first lab in this manual uses restriction fragment length polymorphism (RFLP) analysis. RFLP analysis is the conceptual predecessor for modern STR analyses conducted by crime scene investiga ...
Synonymous Codon Usage, Accuracy of Translation, and Gene
... errors may be tolerated at those positions that are not crucial for protein function, whereas other positions are highly constrained. The nature and proportion of constrained amino acids vary widely according to the proteins. In absence of biochemical or structural data, these amino acids can be pre ...
... errors may be tolerated at those positions that are not crucial for protein function, whereas other positions are highly constrained. The nature and proportion of constrained amino acids vary widely according to the proteins. In absence of biochemical or structural data, these amino acids can be pre ...
High-Throughput NGS Library Preparation
... development and validation work is usually done this way. Although it is possible to achieve moderately high sample throughput by using multi-channel pipettes and 96-well plates, automated liquid handling is indispensable for the majority of HTP NGS production lines, and automating a validated manua ...
... development and validation work is usually done this way. Although it is possible to achieve moderately high sample throughput by using multi-channel pipettes and 96-well plates, automated liquid handling is indispensable for the majority of HTP NGS production lines, and automating a validated manua ...
In Vitro Cell. Dev. Biol. In Press
... Agrobacterium strains and plasmid vector. Genetic transformation was performed using the Agrobacterium strains EHA105 and LBA4404. Both strains harbor the binary vector pME 504 (Fig. 1) that carries a neomycin phosphotransferase (npt II) gene under the control of nos promoter, and the bar and uidA g ...
... Agrobacterium strains and plasmid vector. Genetic transformation was performed using the Agrobacterium strains EHA105 and LBA4404. Both strains harbor the binary vector pME 504 (Fig. 1) that carries a neomycin phosphotransferase (npt II) gene under the control of nos promoter, and the bar and uidA g ...
Role for CCG-trinucleotide repeats in the pathogenesis of chronic
... 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, from centromeric to telomeric and from left to right. Below this the location of various YACs and PACs and their relative sizes are indicated by gray boxes together ...
... 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, from centromeric to telomeric and from left to right. Below this the location of various YACs and PACs and their relative sizes are indicated by gray boxes together ...
Enzyme Mechanisms - Illinois Institute of Technology
... So, in fact, the ladder gets twisted into a helix. The most common helix is B-DNA, but there are others. B-DNA’s properties include: ...
... So, in fact, the ladder gets twisted into a helix. The most common helix is B-DNA, but there are others. B-DNA’s properties include: ...
Research Project Final Report
... been used to establish a population of recombinant inbred lines, using a commercial bleach-prone line as the second parent. These lines have been used to make a genetic map that will inform future studies of quantitative variation in seed bleaching under field conditions. Besides this ‘open’ approac ...
... been used to establish a population of recombinant inbred lines, using a commercial bleach-prone line as the second parent. These lines have been used to make a genetic map that will inform future studies of quantitative variation in seed bleaching under field conditions. Besides this ‘open’ approac ...
Complete Nucleotide Sequence of a South African Isolate of
... respectively. The 5' UTR of GFLV-SACH44 had the same insertion, AA/GTCCGTT/CA, at position 73–98, also found in GFLV-SAPCS3, GFLV-Ghu [28] and other ArMV isolates, but not present in any other GFLV isolates sequenced to date. This suggests that GFLV-SACH44, like GFLV-SAPCS3, may have arisen from the ...
... respectively. The 5' UTR of GFLV-SACH44 had the same insertion, AA/GTCCGTT/CA, at position 73–98, also found in GFLV-SAPCS3, GFLV-Ghu [28] and other ArMV isolates, but not present in any other GFLV isolates sequenced to date. This suggests that GFLV-SACH44, like GFLV-SAPCS3, may have arisen from the ...
Spatially ordered transcription of regulatory DNA in
... inversion with a breakpoint at about +140 that separates the iab-3-iab-7 region from the Abd-B transcription unit (Fig. 5A) (Karch et al. 1985), and transforms A5-A7 (or PS10-12) into A4 (or PS9; Fig. 5D) (SSnchez-Herrero etal. 1985; Duncan, 1987). We hybridized an Abd-B cDNA (Hoey et al. 1986) or a ...
... inversion with a breakpoint at about +140 that separates the iab-3-iab-7 region from the Abd-B transcription unit (Fig. 5A) (Karch et al. 1985), and transforms A5-A7 (or PS10-12) into A4 (or PS9; Fig. 5D) (SSnchez-Herrero etal. 1985; Duncan, 1987). We hybridized an Abd-B cDNA (Hoey et al. 1986) or a ...
Leukaemia Section t(3;12)(q26;p13) ETV6/MECOM / t(3;12)(q26;p13) ETV6/EVI1 Atlas of Genetics and Cytogenetics
... located at the beginning of the gene and another alternative (exon 1b starting at codon 43) upstream of exon 3. Protein The ETV6 protein (452 amino acids) contains two major domains, the HLH (helix-loop-helix) and ETS domains. The HLH domain, also referred to as the pointed or sterile alpha motif do ...
... located at the beginning of the gene and another alternative (exon 1b starting at codon 43) upstream of exon 3. Protein The ETV6 protein (452 amino acids) contains two major domains, the HLH (helix-loop-helix) and ETS domains. The HLH domain, also referred to as the pointed or sterile alpha motif do ...
Price, DK, Zhang, F, Ashley, CT and Warren, ST: The chicken FMR1 gene is highly conserved containing a CTT 5\' untranslated repeat and encodes an RNA-binding protein. Genomics 31:3-12 (1996).
... cluding material representative of exons 11 and 12 were not present in detectable amounts in chicken brain FMR1 RNA. Indeed, while alternative splicing of exon 12 of the mammalian FMR1 gene has been documented in multiple tissues (Ashley et al., 1993a; Verkerk et al., 1993), alternative splicing eve ...
... cluding material representative of exons 11 and 12 were not present in detectable amounts in chicken brain FMR1 RNA. Indeed, while alternative splicing of exon 12 of the mammalian FMR1 gene has been documented in multiple tissues (Ashley et al., 1993a; Verkerk et al., 1993), alternative splicing eve ...
prenatal arrays user guide - Leeds Teaching Hospitals NHS Trust
... What if I can’t obtain parental blood samples? We are aware that family circumstances can be difficult and it may not be possible to obtain parental samples in some cases. Interpretation of an imbalance detected on array CGH is less informative without inheritance studies. Will array CGH detect muta ...
... What if I can’t obtain parental blood samples? We are aware that family circumstances can be difficult and it may not be possible to obtain parental samples in some cases. Interpretation of an imbalance detected on array CGH is less informative without inheritance studies. Will array CGH detect muta ...
The Large Loop Repair and Mismatch Repair Pathways
... 2). We determined the level of recombination and the frequency of loop mismatch repair in wild-type strains and in strains lacking the MMR pathway gene PMS1 or the LLR pathway gene RAD1. As described in Introduction, RAD1 functions specifically in LLR during meiosis, while PMS1 has been demonstrated ...
... 2). We determined the level of recombination and the frequency of loop mismatch repair in wild-type strains and in strains lacking the MMR pathway gene PMS1 or the LLR pathway gene RAD1. As described in Introduction, RAD1 functions specifically in LLR during meiosis, while PMS1 has been demonstrated ...
Technique ChIC and ChEC: Genomic Mapping of Chromatin Proteins
... myc-tagged strains. Importantly, this blotting analysis serves to conveniently assess the specificity of the procedure, that is, to determine the optimal concentrations of antibodies, pA-MN, and the required stringency of the washing steps. Mapping of Gbd-myc13 and Sir3-myc13 at Two Genomic Loci wit ...
... myc-tagged strains. Importantly, this blotting analysis serves to conveniently assess the specificity of the procedure, that is, to determine the optimal concentrations of antibodies, pA-MN, and the required stringency of the washing steps. Mapping of Gbd-myc13 and Sir3-myc13 at Two Genomic Loci wit ...
Multiple domain structure in a chitinase gene (chic)
... Recombinant D N A techniques. Preparation of plasmid, doublestranded and single-stranded M 13 DNA, restriction enzyme digestion, recovery of DNA fragments from agarose gels, transformation of E. coli, and selection of transformed colonies of E. coli and transformed plaques of M 13 clones were done a ...
... Recombinant D N A techniques. Preparation of plasmid, doublestranded and single-stranded M 13 DNA, restriction enzyme digestion, recovery of DNA fragments from agarose gels, transformation of E. coli, and selection of transformed colonies of E. coli and transformed plaques of M 13 clones were done a ...
Analysis and Characterization of Nucleic Acids and Proteins
... After transfer, the cut, denatured DNA is avidly bound to the membrane. The DNA can be permanently immobilized to the membrane by baking in a vacuum oven (80°C, 30–60 minutes) or by uv cross‐linking, that is, covalently attaching the DNA to the nitrocellulose using UV light energy Following i ...
... After transfer, the cut, denatured DNA is avidly bound to the membrane. The DNA can be permanently immobilized to the membrane by baking in a vacuum oven (80°C, 30–60 minutes) or by uv cross‐linking, that is, covalently attaching the DNA to the nitrocellulose using UV light energy Following i ...
Phylogenetic analysis of members of the genus Rickettsia using the
... spotted fever. Integration of phenotypic, genotypic and phylogenetic data will contribute to the definition of a polyphasic taxonomy as has been done for other bacterial genera. ...
... spotted fever. Integration of phenotypic, genotypic and phylogenetic data will contribute to the definition of a polyphasic taxonomy as has been done for other bacterial genera. ...
Inferring gene-to-phenotype and gene-to
... where these alleles function as a recombinase, and nonconditional genotypes, where these alleles may be causative; therefore, both transgenic and knock-in recombinase alleles may be eliminated when the genotype is conditional. When the genotype is not conditional, recombinase alleles are retained. F ...
... where these alleles function as a recombinase, and nonconditional genotypes, where these alleles may be causative; therefore, both transgenic and knock-in recombinase alleles may be eliminated when the genotype is conditional. When the genotype is not conditional, recombinase alleles are retained. F ...