Reconstruction of a Functional Human Gene Network, with an
... the data sources from which the true positives were derived and their degree of overlap. Numbers in parentheses indicate the number of interactions that are provided by each of the data sets. b, Potential gene-gene interactions derived from GO, microarray coexpression data, and human and orthologous ...
... the data sources from which the true positives were derived and their degree of overlap. Numbers in parentheses indicate the number of interactions that are provided by each of the data sets. b, Potential gene-gene interactions derived from GO, microarray coexpression data, and human and orthologous ...
Computational Definition of
... sequence families comprising 2069 putative exonic enhancers and 974 putative exonic silencers. Representatives of each class indeed functioned as enhancers or silencers when inserted into a test exon and assayed in transfected mammalian cells. As a class, the enhancer sequencers were more prevalent ...
... sequence families comprising 2069 putative exonic enhancers and 974 putative exonic silencers. Representatives of each class indeed functioned as enhancers or silencers when inserted into a test exon and assayed in transfected mammalian cells. As a class, the enhancer sequencers were more prevalent ...
Package ‘GenomicFeatures’ October 14, 2014
... functions for making your own custom TxDb object from various annotation resources. • The BSgenome, TwoBitFile, and FaFile classes, defined and documented in the BSgenome, rtracklayer, and Rsamtools packages, respectively. • The TxDb class. • The genes function for extracting gene ranges from a TxDb ...
... functions for making your own custom TxDb object from various annotation resources. • The BSgenome, TwoBitFile, and FaFile classes, defined and documented in the BSgenome, rtracklayer, and Rsamtools packages, respectively. • The TxDb class. • The genes function for extracting gene ranges from a TxDb ...
Title: FISH analysis comparing the gene composition of the Onager
... The onager [E. hemionus onager, EHO] and the domestic horse [E. caballus, ECA] have evolved over the course of 3.7 million years. The closely related EHO and ECA have diploid chromosome numbers of 2n=56 and 2n=64, respectively. Comparative gene mapping was done by FISH [fluorescent in-situ hybridiza ...
... The onager [E. hemionus onager, EHO] and the domestic horse [E. caballus, ECA] have evolved over the course of 3.7 million years. The closely related EHO and ECA have diploid chromosome numbers of 2n=56 and 2n=64, respectively. Comparative gene mapping was done by FISH [fluorescent in-situ hybridiza ...
HUMAN CHROMOSOMES
... compensation, as in male karyotypes there is only one X chromosome present, and in female - two. Thus the genotypic possibilities of male and female karyotype are equalized. It is important that this inactivation occurs randomly, so that in early embryonic life (after 16 days) different cells may ha ...
... compensation, as in male karyotypes there is only one X chromosome present, and in female - two. Thus the genotypic possibilities of male and female karyotype are equalized. It is important that this inactivation occurs randomly, so that in early embryonic life (after 16 days) different cells may ha ...
Test Info Sheet
... 4. Prenatal diagnosis for known familial mutation(s) in at-risk pregnancies Methods: Using genomic DNA, coding exons and flanking splice junctions of the genes on this panel are enriched using a proprietary targeted capture method developed by GeneDx. The products are sequenced on an Illumina instru ...
... 4. Prenatal diagnosis for known familial mutation(s) in at-risk pregnancies Methods: Using genomic DNA, coding exons and flanking splice junctions of the genes on this panel are enriched using a proprietary targeted capture method developed by GeneDx. The products are sequenced on an Illumina instru ...
Microbial Ecology: Where are we now?
... Consortium studied the complex microbial communities from various sites of the human body, including the gut, skin and vagina, making use of the Illumina GAIIx platform (The Human Microbiome Project Consortium 2012). Unfortunately, 16S rRNA gene sequencing is not infallible and sometimes exhibits lo ...
... Consortium studied the complex microbial communities from various sites of the human body, including the gut, skin and vagina, making use of the Illumina GAIIx platform (The Human Microbiome Project Consortium 2012). Unfortunately, 16S rRNA gene sequencing is not infallible and sometimes exhibits lo ...
Pierre MADL Div. of Material Sciences Dep
... “the branch of biology which studies the causal interactions between genes and their products, which bring the phenotype into being”. Epigenetics appears in the literature as far back as the mid 19th century, although the conceptual origins date back to Aristotle (384-322 BC). He believed in epigene ...
... “the branch of biology which studies the causal interactions between genes and their products, which bring the phenotype into being”. Epigenetics appears in the literature as far back as the mid 19th century, although the conceptual origins date back to Aristotle (384-322 BC). He believed in epigene ...
Developmental Validation of the Quantifiler Real-Time
... amplify target loci, allowing accurate genotype information to be gathered from as little as picogram amounts of genomic DNA (1). Yet, ancillary methods for the quantification of forensic DNA samples, an official requirement for STR analysis of casework samples (2), have until recently relied on old ...
... amplify target loci, allowing accurate genotype information to be gathered from as little as picogram amounts of genomic DNA (1). Yet, ancillary methods for the quantification of forensic DNA samples, an official requirement for STR analysis of casework samples (2), have until recently relied on old ...
Document
... http://popgen.biol.ucl.ac.uk/software.html http://www-rcf.usc.edu/~stram/tagSNPs.html ...
... http://popgen.biol.ucl.ac.uk/software.html http://www-rcf.usc.edu/~stram/tagSNPs.html ...
Bio 309F
... the answers on the scantron are as you want them. Through out the exam, please cover your answers. Do not use electronic gadgets, including telephone--so, please turn off your telephone prior to starting the exam. Turn in both the scantron and the exam. I. Multiple Choice, scan in the best answer (5 ...
... the answers on the scantron are as you want them. Through out the exam, please cover your answers. Do not use electronic gadgets, including telephone--so, please turn off your telephone prior to starting the exam. Turn in both the scantron and the exam. I. Multiple Choice, scan in the best answer (5 ...
Analysis of 16S ribosomal RNA gene segments for the diagnosis of
... Bacterial 16S ribosomal RNA (rRNA) genes contain nine “hyper-variable regions” (V1–V9) that demonstrate considerable sequence diversity among different bacteria. Species-specific sequences within a given hyper-variable region constitute useful targets for diagnostic assays and other scientific inves ...
... Bacterial 16S ribosomal RNA (rRNA) genes contain nine “hyper-variable regions” (V1–V9) that demonstrate considerable sequence diversity among different bacteria. Species-specific sequences within a given hyper-variable region constitute useful targets for diagnostic assays and other scientific inves ...
... heritable during division, but appear unrelated to DNA sequence changes, and can be modified by environmental stimuli [4, 5]. In a more recent view, epigenetics encompasses “mitotically heritable alterations in gene expression potential” [6], a definition that we have favored in this paper. Epigenet ...
Base Composition and Translational Selection are Insufficient to
... 5.7kb that is translated from subgenomic RNAs, and geminiviruses have one or two circular, ~2.7kb, ambisense genomic segments that are transcribed by host enzymes [23]. Unlike cellular organisms, which share related genes across extremely divergent clades, which can be used as the basis for phylogen ...
... 5.7kb that is translated from subgenomic RNAs, and geminiviruses have one or two circular, ~2.7kb, ambisense genomic segments that are transcribed by host enzymes [23]. Unlike cellular organisms, which share related genes across extremely divergent clades, which can be used as the basis for phylogen ...
(HPV) L1 gene DNA possibly bound to particulate aluminum
... degenerate primers for initial amplification and the GP5/GP6-based nested PCR primers for the second amplification were used to prepare the template for direct automated cycle DNA sequencing of a hypervariable segment of the HPV L1 gene which is used for manufacturing of the HPV L1 capsid protein by a ...
... degenerate primers for initial amplification and the GP5/GP6-based nested PCR primers for the second amplification were used to prepare the template for direct automated cycle DNA sequencing of a hypervariable segment of the HPV L1 gene which is used for manufacturing of the HPV L1 capsid protein by a ...
Establishment of new mutations under divergence and genome
... (a) Genomic islands and divergence hitchhiking To aid thinking about divergence in the genome, evolutionary biologists have developed the metaphor of ‘genomic islands of divergence’, where a genomic island is any gene region, be it a single nucleotide or an entire chromosome, which exhibits signific ...
... (a) Genomic islands and divergence hitchhiking To aid thinking about divergence in the genome, evolutionary biologists have developed the metaphor of ‘genomic islands of divergence’, where a genomic island is any gene region, be it a single nucleotide or an entire chromosome, which exhibits signific ...
Ugandan Kaposi`s Sarcoma-Associated Herpesvirus Phylogeny
... et al. [8] represented an important step forward in proposing the first explanatory theory of the evolutionary and molecular processes by which these distributions arose. As has been proposed for other viruses [38, 39], Hayward et al. [6] hypothesized that KSHV is an evolutionarily old human virus di ...
... et al. [8] represented an important step forward in proposing the first explanatory theory of the evolutionary and molecular processes by which these distributions arose. As has been proposed for other viruses [38, 39], Hayward et al. [6] hypothesized that KSHV is an evolutionarily old human virus di ...
Definitions for annotating CDS sequences
... that flank the relevant CDS that need to be analyzed at the nucleotide level, it is sufficient to indicate “N/A”. It is also worth noting that any sequences outside of the linker sequences will be masked out and not analyzed. 5’ Linker – any sequences upstream of the relevant CDS for which the user ...
... that flank the relevant CDS that need to be analyzed at the nucleotide level, it is sufficient to indicate “N/A”. It is also worth noting that any sequences outside of the linker sequences will be masked out and not analyzed. 5’ Linker – any sequences upstream of the relevant CDS for which the user ...
USB® Thermo Sequenase Cycle Sequencing Kit
... All kit batches are functionally tested using radiolabeled dATP and pUC18 doublestranded DNA template as described in this protocol. Release specifications are based on sequence length, band intensity, and sequence quality. The sequence must be visible up to 300 base pairs on a standardized gel with ...
... All kit batches are functionally tested using radiolabeled dATP and pUC18 doublestranded DNA template as described in this protocol. Release specifications are based on sequence length, band intensity, and sequence quality. The sequence must be visible up to 300 base pairs on a standardized gel with ...
the PDF file
... Mitochondrial DNA • There are about 1,700 in every human cell • Each mitochondrion includes an identical loop of DNA about 16,000 base pairs long containing 37 genes. • In contrast, nuclear DNA consists ...
... Mitochondrial DNA • There are about 1,700 in every human cell • Each mitochondrion includes an identical loop of DNA about 16,000 base pairs long containing 37 genes. • In contrast, nuclear DNA consists ...
SNPs for individual identification
... being present, it is not a very meaningful alteration even in this extreme case of a relatively common disease-causing mutation. Extrapolated to complex disorders with no deterministic alleles and low risk conveyed by variants at any one locus, this logic indicates that genotypes for SNPs with globa ...
... being present, it is not a very meaningful alteration even in this extreme case of a relatively common disease-causing mutation. Extrapolated to complex disorders with no deterministic alleles and low risk conveyed by variants at any one locus, this logic indicates that genotypes for SNPs with globa ...
View Tutorial
... in the number of complete genomes, we are provided with the information of not only which genes are present (in order to identify the “orthologs” between different genomes) or present in multiple copies (in order to identify the “paralogs” within one genome) in any particular genome but also which o ...
... in the number of complete genomes, we are provided with the information of not only which genes are present (in order to identify the “orthologs” between different genomes) or present in multiple copies (in order to identify the “paralogs” within one genome) in any particular genome but also which o ...
Transposable elements activity reveals punctuated
... (Table S5). For each genome, we calculated the four parameters described above (1%DI, 5%DI, 1%NF, 5%NF; Table S2). We tested the association between putative "hot"/"cold" genomes (defined via RRS) and TEs activity (DI and NF), with the paired Wilcoxon Signed Rank Test. All tests, excluding 5%DI, wer ...
... (Table S5). For each genome, we calculated the four parameters described above (1%DI, 5%DI, 1%NF, 5%NF; Table S2). We tested the association between putative "hot"/"cold" genomes (defined via RRS) and TEs activity (DI and NF), with the paired Wilcoxon Signed Rank Test. All tests, excluding 5%DI, wer ...
Transcripts of the MHM region on the chicken Z chromosome
... of chickens, consists of approximately 210 tandem repeats of a BamHI 2.2-kb sequence unit. Cytosines of the CpG dinucleotides of this region are extensively methylated on the two Z chromosomes in the male but much less methylated on the single Z chromosome in the female. The state of methylation of ...
... of chickens, consists of approximately 210 tandem repeats of a BamHI 2.2-kb sequence unit. Cytosines of the CpG dinucleotides of this region are extensively methylated on the two Z chromosomes in the male but much less methylated on the single Z chromosome in the female. The state of methylation of ...
Human genome
The human genome is the complete set of nucleic acid sequence for humans (Homo sapiens), encoded as DNA within the 23 chromosome pairs in cell nuclei and in a small DNA molecule found within individual mitochondria. Human genomes include both protein-coding DNA genes and noncoding DNA. Haploid human genomes, which are contained in germ cells (the egg and sperm gamete cells created in the meiosis phase of sexual reproduction before fertilization creates a zygote) consist of three billion DNA base pairs, while diploid genomes (found in somatic cells) have twice the DNA content. While there are significant differences among the genomes of human individuals (on the order of 0.1%), these are considerably smaller than the differences between humans and their closest living relatives, the chimpanzees (approximately 4%) and bonobos. Humans share 50% of their DNA with bananas.The Human Genome Project produced the first complete sequences of individual human genomes, with the first draft sequence and initial analysis being published on February 12, 2001. The human genome was the first of all vertebrates to be completely sequenced. As of 2012, thousands of human genomes have been completely sequenced, and many more have been mapped at lower levels of resolution. The resulting data are used worldwide in biomedical science, anthropology, forensics and other branches of science. There is a widely held expectation that genomic studies will lead to advances in the diagnosis and treatment of diseases, and to new insights in many fields of biology, including human evolution.Although the sequence of the human genome has been (almost) completely determined by DNA sequencing, it is not yet fully understood. Most (though probably not all) genes have been identified by a combination of high throughput experimental and bioinformatics approaches, yet much work still needs to be done to further elucidate the biological functions of their protein and RNA products. Recent results suggest that most of the vast quantities of noncoding DNA within the genome have associated biochemical activities, including regulation of gene expression, organization of chromosome architecture, and signals controlling epigenetic inheritance.There are an estimated 20,000-25,000 human protein-coding genes. The estimate of the number of human genes has been repeatedly revised down from initial predictions of 100,000 or more as genome sequence quality and gene finding methods have improved, and could continue to drop further. Protein-coding sequences account for only a very small fraction of the genome (approximately 1.5%), and the rest is associated with non-coding RNA molecules, regulatory DNA sequences, LINEs, SINEs, introns, and sequences for which as yet no function has been elucidated.