Methods - Research Repository UCD
... Our initial interest in Bacillus sp. CS93 was the biosynthesis of chlorotetaine, thus the strain was cultured using conditions similar to those previously described (Phister et al., 2004), and upon bioassay, visible zones of clearing were apparent on plates of E. coli (8 mm, well plate method), Stap ...
... Our initial interest in Bacillus sp. CS93 was the biosynthesis of chlorotetaine, thus the strain was cultured using conditions similar to those previously described (Phister et al., 2004), and upon bioassay, visible zones of clearing were apparent on plates of E. coli (8 mm, well plate method), Stap ...
Using High-Throughput Sequencing to Investigate the Transgenerational
... the control vs. BPA-exposed mice within the F1 and F3 generations, denoted BCF1 and BCF3. Contrasts were done using the R package DESeq2, first by the UVA Bioinformatics Core, and then re-done again in DESeq2 with the outlier mouse removed. Contrasts between conditions produce a measure of effect si ...
... the control vs. BPA-exposed mice within the F1 and F3 generations, denoted BCF1 and BCF3. Contrasts were done using the R package DESeq2, first by the UVA Bioinformatics Core, and then re-done again in DESeq2 with the outlier mouse removed. Contrasts between conditions produce a measure of effect si ...
embj201284303-sup-0001-SupportingInformation
... Figure S1. A role for the PEPR pathway in local immune responses. (A) qRT-PCR analysis in 10day-old WT and rsw3 seedlings treated with 1 µM Pep2 for the indicated times. Bars represent means and standard errors of two biological replicates calculated by the mixed linear model. The vertical axis is t ...
... Figure S1. A role for the PEPR pathway in local immune responses. (A) qRT-PCR analysis in 10day-old WT and rsw3 seedlings treated with 1 µM Pep2 for the indicated times. Bars represent means and standard errors of two biological replicates calculated by the mixed linear model. The vertical axis is t ...
Microbial Source Tracking in Murrells Inlet, Horry County Volunteer Monitoring Luncheon
... same pattern of concentrations as FIB concentrations • Canine signal concentrations appear high at many sites. Detections are most common and concentrations highest after rain. • Only 2 of 27 samples were positive for human signal (sites #1 and 5). • The bird assay is not ready but samples are archi ...
... same pattern of concentrations as FIB concentrations • Canine signal concentrations appear high at many sites. Detections are most common and concentrations highest after rain. • Only 2 of 27 samples were positive for human signal (sites #1 and 5). • The bird assay is not ready but samples are archi ...
Transposons - iPlant Pods
... gene, resulting in colorless tissue. (2) Ds transposition early in kernel development restores the C gene, giving rise to a large colored sector. (3) Transposition later in kernel ...
... gene, resulting in colorless tissue. (2) Ds transposition early in kernel development restores the C gene, giving rise to a large colored sector. (3) Transposition later in kernel ...
Dynamics of Antimicrobial Resistance in the Urban Water
... has become increasingly clear that the environmental dimension of AMR is also of great importance. We postulate that urban water systems (UWS), which are our receptacle for excreted antimicrobials, AMR organisms and AMR genes, are central conduits of AMR to and from pathogens and environmental strai ...
... has become increasingly clear that the environmental dimension of AMR is also of great importance. We postulate that urban water systems (UWS), which are our receptacle for excreted antimicrobials, AMR organisms and AMR genes, are central conduits of AMR to and from pathogens and environmental strai ...
CM - Overview of HL7V2 genetic report lite for LOINC Lab commitee
... • We have divided the world into simple, complex, structural and pharmacogenomic variants. • The simple variant is a change in the DNA that is contiguous over a small (< 50 nucleotide) range of the genome. Mostly these are changes in one or two nucleotides. A major share of the clinically important ...
... • We have divided the world into simple, complex, structural and pharmacogenomic variants. • The simple variant is a change in the DNA that is contiguous over a small (< 50 nucleotide) range of the genome. Mostly these are changes in one or two nucleotides. A major share of the clinically important ...
Microarray data analysis
... half-lives vary. There tends to be a low positive correlation between RNA and protein levels. The pervasive nature of transcription: The Encyclopedia of DNA Elements (ENCODE) project identified functional features of genomic DNA, initially in 30 megabases (1% of the human genome). One of its observa ...
... half-lives vary. There tends to be a low positive correlation between RNA and protein levels. The pervasive nature of transcription: The Encyclopedia of DNA Elements (ENCODE) project identified functional features of genomic DNA, initially in 30 megabases (1% of the human genome). One of its observa ...
Conclusion We do not yet have enough information to conclude that
... splendens. Next we did PCR, on rps16 and TrnSG in E. splendens and E. chamissonis. We used an agarose gel to determine if DNA was present. ...
... splendens. Next we did PCR, on rps16 and TrnSG in E. splendens and E. chamissonis. We used an agarose gel to determine if DNA was present. ...
computation for chIP-seq and rNA-seq studies
... repeatedly with multiple datasets. Mapped reads are immediately converted to an integer count of ‘tags’ at each position in the genome that is ‘mappable’ under the selected mapping algorithm and its parameters (that is, read length can be fixed or variable, and reads mapped can be restricted to thos ...
... repeatedly with multiple datasets. Mapped reads are immediately converted to an integer count of ‘tags’ at each position in the genome that is ‘mappable’ under the selected mapping algorithm and its parameters (that is, read length can be fixed or variable, and reads mapped can be restricted to thos ...
Designing Molecular Machines·
... or malfunctioning protein can be tied to a disease, then biologists can work backward from the protein to deduce what the gene looked like that gave rise to the protein, We want to do more than juSt find genes, which can comain as many as LOO,OOO letters. We now know that a change of one---or a fewi ...
... or malfunctioning protein can be tied to a disease, then biologists can work backward from the protein to deduce what the gene looked like that gave rise to the protein, We want to do more than juSt find genes, which can comain as many as LOO,OOO letters. We now know that a change of one---or a fewi ...
5Poster012407 - Thomas Jefferson High School for Science and
... Borrelia lonestari is a spiral-shaped bacterium recently discovered in the lone star tick, Amblyomma americanum, located throughout the southeastern United States. This spirochete is suspected of inducing signs and symptoms in humans commonly associated with Lyme disease such as rash, fever, and fat ...
... Borrelia lonestari is a spiral-shaped bacterium recently discovered in the lone star tick, Amblyomma americanum, located throughout the southeastern United States. This spirochete is suspected of inducing signs and symptoms in humans commonly associated with Lyme disease such as rash, fever, and fat ...
Sequence Heterogeneities Among 16s
... For phylogeny, rRNA sequences have become popular because they are universally present and have a conserved function (they are homologous in all organisms), because they are easy to sequence, and finally because they are constituted of an interspersion of highly conserved to very variable domains. R ...
... For phylogeny, rRNA sequences have become popular because they are universally present and have a conserved function (they are homologous in all organisms), because they are easy to sequence, and finally because they are constituted of an interspersion of highly conserved to very variable domains. R ...
High-throughput cloning of eukaryotic open reading frames (ORFs
... the Gateway reactions are highly efficient at inserting them into our expression vectors. We have also developed a robotically aided PCR screen to identify clones containing inserts. Our sequence analysis of the clones obtained from bulk cDNA uncovered that a moderate level (23.7%) of the cloned ORF ...
... the Gateway reactions are highly efficient at inserting them into our expression vectors. We have also developed a robotically aided PCR screen to identify clones containing inserts. Our sequence analysis of the clones obtained from bulk cDNA uncovered that a moderate level (23.7%) of the cloned ORF ...
A new repetitive DNA sequence family in the olive (Olea
... Repetitive sequences form an important part of the eukaryotic genome. In higher plants they may account for between 20% and 90% of the genome. Nuclear DNA content can vary widely among plant species, even within the same family, and much of this variation in nuclear DNA content seems to be due to va ...
... Repetitive sequences form an important part of the eukaryotic genome. In higher plants they may account for between 20% and 90% of the genome. Nuclear DNA content can vary widely among plant species, even within the same family, and much of this variation in nuclear DNA content seems to be due to va ...
NextBio Biological Data Mining Software
... database of Genotypes and Phenotypes (dbGaP) have been standardized and normalized so that they can be mined rigorously. BaseSpace Analyzer content is focused on disease-specific cohorts such as cancer, autoimmune diseases, cardiovascular disorders, diabetes, and rare genetic disorders to maximize t ...
... database of Genotypes and Phenotypes (dbGaP) have been standardized and normalized so that they can be mined rigorously. BaseSpace Analyzer content is focused on disease-specific cohorts such as cancer, autoimmune diseases, cardiovascular disorders, diabetes, and rare genetic disorders to maximize t ...
Biotechnology
... 1. What makes it GM/transgenic? 2. What other organism was used as a source of the inserted/manipulated gene? 3. What process is commonly used to accomplish the modification? 4. What benefits does the transgenic plant promise or deliver? 5. Are there any concerns or drawbacks associated with using t ...
... 1. What makes it GM/transgenic? 2. What other organism was used as a source of the inserted/manipulated gene? 3. What process is commonly used to accomplish the modification? 4. What benefits does the transgenic plant promise or deliver? 5. Are there any concerns or drawbacks associated with using t ...
Slide 1
... – A genome of length n is comprised of (n/3) codons – Stop codons break genome into segments between consecutive Stop codons – The subsegments of these that start from the Start codon (ATG) are ORFs • ORFs in different frames may overlap ATG ...
... – A genome of length n is comprised of (n/3) codons – Stop codons break genome into segments between consecutive Stop codons – The subsegments of these that start from the Start codon (ATG) are ORFs • ORFs in different frames may overlap ATG ...
Genoombrowsers - Radboud Universiteit
... • Similar to mutations, but are simultaneously present in the population, and generally have little effect • Are being used as genetic markers (a genetic disease is e.g. associated with a SNP) • The Ensembl browser offers a nice SNP view ...
... • Similar to mutations, but are simultaneously present in the population, and generally have little effect • Are being used as genetic markers (a genetic disease is e.g. associated with a SNP) • The Ensembl browser offers a nice SNP view ...
C tudi - DNA to Darwin
... species to be incorrectly grouped with distantly-related organisms. f. All organisms have DNA or RNA, so there is a direct means for comparing them, which is not necessarily the case with other characteristics. Sequence data lends itself to computer-based analysis and statisitical techniques can al ...
... species to be incorrectly grouped with distantly-related organisms. f. All organisms have DNA or RNA, so there is a direct means for comparing them, which is not necessarily the case with other characteristics. Sequence data lends itself to computer-based analysis and statisitical techniques can al ...
PAN PROSTATE GENOMICS CONSORTIUM October 2016
... groups including papers in Nature, Lancet Oncology, Science, Elife and Nature Genetics. Many other publications have been submitted or are in preparation. Several members of this group are already participating in the Pan Cancer Analysis of Whole Genome Project (see below for details). Both in terms ...
... groups including papers in Nature, Lancet Oncology, Science, Elife and Nature Genetics. Many other publications have been submitted or are in preparation. Several members of this group are already participating in the Pan Cancer Analysis of Whole Genome Project (see below for details). Both in terms ...
Interpretation of Mastitis Milk Culture Results
... pathogen, the milk sample is likely contaminated upon sampling and will be reported as so. If a pathogen has been identified in addition to three or more dissimilar colony types, the reported results will include the pathogen in addition to “mixed flora” or “contaminants”. Organisms considered ‘cont ...
... pathogen, the milk sample is likely contaminated upon sampling and will be reported as so. If a pathogen has been identified in addition to three or more dissimilar colony types, the reported results will include the pathogen in addition to “mixed flora” or “contaminants”. Organisms considered ‘cont ...
Cloning Restriction Fragments of Cellular DNA
... Uses of Genomic Libraries • Large quantities of each clone can be grown for DNA sequencing studies, similar to what is being done in the Human Genome Project. • By producing genomic libraries using different restriction endonucleases (or allowing one type of restriction endonuclease to digest a DNA ...
... Uses of Genomic Libraries • Large quantities of each clone can be grown for DNA sequencing studies, similar to what is being done in the Human Genome Project. • By producing genomic libraries using different restriction endonucleases (or allowing one type of restriction endonuclease to digest a DNA ...
2.4. Sequence databases
... tables and combines the information into one report. Therefore, information can be found more quickly. Relational databases can be created using a special programming language called structured query language (SQL). The creation of this type of databases can take a great deal of planning during the ...
... tables and combines the information into one report. Therefore, information can be found more quickly. Relational databases can be created using a special programming language called structured query language (SQL). The creation of this type of databases can take a great deal of planning during the ...
Are My Genes Mutated? Analyzing Loss of Function Variants in the
... candidates are found in less than 2% of population • 26 known severe recessive disease-causing mutations identified in LoF set • 21 LoF variants identified in known novel disease-causing mutations (MacArthur, 2012; blog) ...
... candidates are found in less than 2% of population • 26 known severe recessive disease-causing mutations identified in LoF set • 21 LoF variants identified in known novel disease-causing mutations (MacArthur, 2012; blog) ...
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.