Rooting the Universal Tree of Life Using Genomic Fusion
... (Buc), will be used as the root of Enterobacteriales branch. This strategy, similar as the neighbor-join method, can be recursively used to find the root of Gammaproteobacteria which again is Buc. The corresponding rooted Gammaproteobacteria tree is drawn at the right-bottom in Fig. 3. It is worthy ...
... (Buc), will be used as the root of Enterobacteriales branch. This strategy, similar as the neighbor-join method, can be recursively used to find the root of Gammaproteobacteria which again is Buc. The corresponding rooted Gammaproteobacteria tree is drawn at the right-bottom in Fig. 3. It is worthy ...
DECIPHER project proposal v4
... moved onto another chromosome (termed ‘chromosome imbalance'). However, using these methods of analysis many cases of developmental delay, learning disability and / or congenital malformation remain unexplained, although there is a strong suspicion that genetic abnormality is responsible. Genomic ar ...
... moved onto another chromosome (termed ‘chromosome imbalance'). However, using these methods of analysis many cases of developmental delay, learning disability and / or congenital malformation remain unexplained, although there is a strong suspicion that genetic abnormality is responsible. Genomic ar ...
genomic flux: genome evolution by gene loss and
... enterica. Salmonella's ability to synthesize cobalamin and use it to support propanediol degradation forms the basis of a test diagnostic for this bacterium (52). These species-specific abilities are frequently ones whose genes appear to have been acquired horizontally (based on nucleotide compositi ...
... enterica. Salmonella's ability to synthesize cobalamin and use it to support propanediol degradation forms the basis of a test diagnostic for this bacterium (52). These species-specific abilities are frequently ones whose genes appear to have been acquired horizontally (based on nucleotide compositi ...
Analysis of imputed rare variants
... • GRANVIL assumes the same direction of effect on the trait of all rare variants within the functional unit. • Methodology allowing for different directions of effect of rare variants are well established for resequencing data, and are being generalised to allow for imputation. • The most powerful r ...
... • GRANVIL assumes the same direction of effect on the trait of all rare variants within the functional unit. • Methodology allowing for different directions of effect of rare variants are well established for resequencing data, and are being generalised to allow for imputation. • The most powerful r ...
ISME Journal
... of Arabidopsis thaliana. Amoebae showed distinct grazing preferences for specific bacterial taxa, which were rapidly replaced by grazing tolerant taxa in a highly reproducible way. The relative proportion of active bacteria increased although bacterial abundance was strongly decreased by amoebae. Sp ...
... of Arabidopsis thaliana. Amoebae showed distinct grazing preferences for specific bacterial taxa, which were rapidly replaced by grazing tolerant taxa in a highly reproducible way. The relative proportion of active bacteria increased although bacterial abundance was strongly decreased by amoebae. Sp ...
A Comparison of Gastrointestinal Bacterial Population Between
... Ikmal Hisham, Farhana Binti, "A Comparison of Gastrointestinal Bacterial Population Between Indoor Cats and Outdoor Cats" ...
... Ikmal Hisham, Farhana Binti, "A Comparison of Gastrointestinal Bacterial Population Between Indoor Cats and Outdoor Cats" ...
A GENETIC LINKAGE MAP OF Phycomyces blakesleeanus
... this research the genome (version 1.1) was made up of 491 fragments. The genetic linkage map shows the arrangement of genes and genetic markers along the chromosomes as calculated by the frequency with which they are co-inherited together. The map can also provide information about the number of ch ...
... this research the genome (version 1.1) was made up of 491 fragments. The genetic linkage map shows the arrangement of genes and genetic markers along the chromosomes as calculated by the frequency with which they are co-inherited together. The map can also provide information about the number of ch ...
Published
... Vink et al26 Duggirala et al12 Duggirala et al12 Bierut et al13 Duggirala et al12 Duggirala et al12 Vink et al26 Bergen et al11 Duggirala et al12 Bierut et al13 Bergen et al11 Vink et al26 Vink et al26 Straub et al14 Bierut et al (2003) Vink et al26 Bergen et al11 Duggirala et al12 Duggirala et al12 ...
... Vink et al26 Duggirala et al12 Duggirala et al12 Bierut et al13 Duggirala et al12 Duggirala et al12 Vink et al26 Bergen et al11 Duggirala et al12 Bierut et al13 Bergen et al11 Vink et al26 Vink et al26 Straub et al14 Bierut et al (2003) Vink et al26 Bergen et al11 Duggirala et al12 Duggirala et al12 ...
For Official Use ENV/JM/BIO(2006)6/REV3 Working
... Natural transformation is generally understood as the uptake of free DNA by competent bacteria (Lorenz and Wackernagel, 1994; Dubnau, 1999, Chen and Dubnau, 2004). Natural competence is a genetically programmed physiological state permitting the efficient uptake of macromolecular DNA. Natural transf ...
... Natural transformation is generally understood as the uptake of free DNA by competent bacteria (Lorenz and Wackernagel, 1994; Dubnau, 1999, Chen and Dubnau, 2004). Natural competence is a genetically programmed physiological state permitting the efficient uptake of macromolecular DNA. Natural transf ...
Recombinant DNA Technology
... is usually used. Prior to electroporation it is mixed with the plasmid to be transformed. The mixture is pipetted into the cuvette, the voltage is set on the electroporator (240 volts is often used) and the cuvette is inserted into the electroporator. Immediately after electroporation 1 milliliter o ...
... is usually used. Prior to electroporation it is mixed with the plasmid to be transformed. The mixture is pipetted into the cuvette, the voltage is set on the electroporator (240 volts is often used) and the cuvette is inserted into the electroporator. Immediately after electroporation 1 milliliter o ...
Advanced primer design
... become too stringent and either the primers are not generated or the variety is insufficient. In such a case, one can design the primer with less stringent condition, for example reduce the number of the mutation point entered or completely eliminate the mutation sites from the target sequence. Appr ...
... become too stringent and either the primers are not generated or the variety is insufficient. In such a case, one can design the primer with less stringent condition, for example reduce the number of the mutation point entered or completely eliminate the mutation sites from the target sequence. Appr ...
Microbial Source Tracking - Rutgers Cooperative Extension Water
... [genome], particular genes, or a specific DNA sequence. The three most common library-based methods are pulsed field gel electrophoresis (“PFGE”; the entire genome is analyzed), repetitive extragenic palindromic elements – polymerase chain reaction (“rep-PCR”; the DNA between adjacent repetitive non ...
... [genome], particular genes, or a specific DNA sequence. The three most common library-based methods are pulsed field gel electrophoresis (“PFGE”; the entire genome is analyzed), repetitive extragenic palindromic elements – polymerase chain reaction (“rep-PCR”; the DNA between adjacent repetitive non ...
PDF manual - QIAGEN Bioinformatics
... One of the differences between the new and the old version is the algorithm used to map the reads. The old algorithm was more memory-efficient than the new one is when launching version 7.0 of CLC Genomics Workbench 1 . This means that running RNA-Seq analysis on e.g. human data will not be possible ...
... One of the differences between the new and the old version is the algorithm used to map the reads. The old algorithm was more memory-efficient than the new one is when launching version 7.0 of CLC Genomics Workbench 1 . This means that running RNA-Seq analysis on e.g. human data will not be possible ...
Gene quantification using real-time quantitative PCR
... of normal individuals in order to determine how background levels of this rearrangement might impact the measurement of disease in patients with FL [43]. Many of these studies have benefited greatly by the application of realtime Q-PCR methods. With highly sensitive and quantitative Q-PCR assays ava ...
... of normal individuals in order to determine how background levels of this rearrangement might impact the measurement of disease in patients with FL [43]. Many of these studies have benefited greatly by the application of realtime Q-PCR methods. With highly sensitive and quantitative Q-PCR assays ava ...
the genome of herpes simplex virus: structure, replication and
... term, latent infections (Roizman, 1982). Three sub-families have been defined, based primarily on biological characteristics; these are termed the Alpha-, Beta- and Gamma-herpesvirinae. The genomes of the herpesviruses vary widely, in their size and base composition and in the arrangement of large, ...
... term, latent infections (Roizman, 1982). Three sub-families have been defined, based primarily on biological characteristics; these are termed the Alpha-, Beta- and Gamma-herpesvirinae. The genomes of the herpesviruses vary widely, in their size and base composition and in the arrangement of large, ...
Nixon Evidence
... identified here novel G. lamblia and E. histolytica genes encoding ferredoxins and ferredoxin-nitroreductase fusion proteins. We also identified genes encoding NADH oxidase and a hypothetical oxygen-insensitive nitroreductase (giardia organisms only), which may be involved in drug activation by the ...
... identified here novel G. lamblia and E. histolytica genes encoding ferredoxins and ferredoxin-nitroreductase fusion proteins. We also identified genes encoding NADH oxidase and a hypothetical oxygen-insensitive nitroreductase (giardia organisms only), which may be involved in drug activation by the ...
Block 1: Genetics Dr. McKinney Test 1: Transcription (4) The order
... are involved and form a lariat loop structure to take out the intron and join the exons. 14. T/F: The addition of the polyA tail at the 3’ end of the transcript occurs when the RNA polymerase reads past the “stop” codon in the coding strand and reaches an AAUAAA signal. At this point, the RNA polyme ...
... are involved and form a lariat loop structure to take out the intron and join the exons. 14. T/F: The addition of the polyA tail at the 3’ end of the transcript occurs when the RNA polymerase reads past the “stop” codon in the coding strand and reaches an AAUAAA signal. At this point, the RNA polyme ...
TNFα signals through specialized factories where responsive coding
... se rather than genes which are coregulated by p65. In fact the discussion seems to suggest a model in which at early time points, at least, association begins at generic tx factories which then become specialized NF-KB factories. A second question revolves around the number of clusters and whether t ...
... se rather than genes which are coregulated by p65. In fact the discussion seems to suggest a model in which at early time points, at least, association begins at generic tx factories which then become specialized NF-KB factories. A second question revolves around the number of clusters and whether t ...
P. roridus - Longwood Blogs
... individual spores. By comparing the results of this type of technique to the compiled data from scientists such as Grove and Hu (Foos et al. 2011), the species the spores originated from could be hypothesized. However, due to spore-size overlaps and natural distinctive characteristics among individu ...
... individual spores. By comparing the results of this type of technique to the compiled data from scientists such as Grove and Hu (Foos et al. 2011), the species the spores originated from could be hypothesized. However, due to spore-size overlaps and natural distinctive characteristics among individu ...
Review Article Viral Bacterial Artificial - diss.fu
... of BAC-containing sequences in transfected cells selection in mammalian cells and, hence, ease the generation of recombinant viruses that contain the mini-F. The major advantage of the maintenance of virus genomes in BAC vectors is the availability of well-established mutagenesis techniques in E. co ...
... of BAC-containing sequences in transfected cells selection in mammalian cells and, hence, ease the generation of recombinant viruses that contain the mini-F. The major advantage of the maintenance of virus genomes in BAC vectors is the availability of well-established mutagenesis techniques in E. co ...
Supplementary Information (doc 408K)
... Variants in the parents cannot be phased in the same way alleles are phased in probands unless the genotypes of the grandparents are also known. Therefore, parents were called as having a compound heterozygous genotype if they were observed to transmit one allele and not transmit a different allele ...
... Variants in the parents cannot be phased in the same way alleles are phased in probands unless the genotypes of the grandparents are also known. Therefore, parents were called as having a compound heterozygous genotype if they were observed to transmit one allele and not transmit a different allele ...
Information Encoding in Biological Molecules: DNA and protein
... • Usually outside the normal framework of statistical inference; • less appropriate when only a few genes are likely to change. • Needs lots of experiments • Always possible to cluster even if there is nothing going on. • Useful for learning about the data, but does not provide biological truth. ...
... • Usually outside the normal framework of statistical inference; • less appropriate when only a few genes are likely to change. • Needs lots of experiments • Always possible to cluster even if there is nothing going on. • Useful for learning about the data, but does not provide biological truth. ...
On testing the significance of sets of genes
... In an interesting and useful paper, Subramanian et al. (2005) proposed a method called Gene Set Enrichment Analysis (GSEA) for assessing the significance of pre-defined gene-sets, rather than individual genes. The genesets can be derived from different sources, for example the sets of genes represen ...
... In an interesting and useful paper, Subramanian et al. (2005) proposed a method called Gene Set Enrichment Analysis (GSEA) for assessing the significance of pre-defined gene-sets, rather than individual genes. The genesets can be derived from different sources, for example the sets of genes represen ...
Metagenomics
Metagenomics is the study of genetic material recovered directly from environmental samples. The broad field may also be referred to as environmental genomics, ecogenomics or community genomics. While traditional microbiology and microbial genome sequencing and genomics rely upon cultivated clonal cultures, early environmental gene sequencing cloned specific genes (often the 16S rRNA gene) to produce a profile of diversity in a natural sample. Such work revealed that the vast majority of microbial biodiversity had been missed by cultivation-based methods. Recent studies use either ""shotgun"" or PCR directed sequencing to get largely unbiased samples of all genes from all the members of the sampled communities. Because of its ability to reveal the previously hidden diversity of microscopic life, metagenomics offers a powerful lens for viewing the microbial world that has the potential to revolutionize understanding of the entire living world. As the price of DNA sequencing continues to fall, metagenomics now allows microbial ecology to be investigated at a much greater scale and detail than before.