Advanced Analysis with SeqMonk Version 1.3.0
... use to quantitate your data (see the later notes about filtering features based on their biotypes). You can also choose the type of strand specificity in the libraries you’re quantitating so you can only count the relevant reads. The default quantitation from this pipeline is log2 RPM (reads per fea ...
... use to quantitate your data (see the later notes about filtering features based on their biotypes). You can also choose the type of strand specificity in the libraries you’re quantitating so you can only count the relevant reads. The default quantitation from this pipeline is log2 RPM (reads per fea ...
The Complex Inheritance of Maize Domestication Traits and Gene
... B.1 PCR markers used for genotyping RCNILs including gene or SNP target, AGPv2 position, and primer sequence. . . . . . . . . . . . . . . . . . . . . 107 C.1 Biological replicates for RNAseq experiment. . . . . . . . . . . . . . . . . . 113 C.2 Adapter name, barcode sequence, and barcode length for ...
... B.1 PCR markers used for genotyping RCNILs including gene or SNP target, AGPv2 position, and primer sequence. . . . . . . . . . . . . . . . . . . . . 107 C.1 Biological replicates for RNAseq experiment. . . . . . . . . . . . . . . . . . 113 C.2 Adapter name, barcode sequence, and barcode length for ...
NCBI Molecular Biology Resources
... • Examples: Refseq, TPA, RefSNP, UniGene, Protein, Structure, ...
... • Examples: Refseq, TPA, RefSNP, UniGene, Protein, Structure, ...
PDF
... older gametophytes, additional rhizoids were formed as laterals from the basal ends of upright filaments (Fig. 2H,I). Gametophytes adhered only weakly to glass or polystyrene, easily becoming detached and floating off into the medium. The overall development of the gametophyte was of the immediate d ...
... older gametophytes, additional rhizoids were formed as laterals from the basal ends of upright filaments (Fig. 2H,I). Gametophytes adhered only weakly to glass or polystyrene, easily becoming detached and floating off into the medium. The overall development of the gametophyte was of the immediate d ...
Cloning and analysis of the mobile element gypsy from D. virilis
... The mobile element gypsy was originally cloned from D. melanogaster (1). It belongs to the LTR-containing class of the retroelements (2) and is responsible for a number of mutations described in D. melanogaster (3). gypsy appears to be the best studied LTR-containing mobile element in Drosophila. It ...
... The mobile element gypsy was originally cloned from D. melanogaster (1). It belongs to the LTR-containing class of the retroelements (2) and is responsible for a number of mutations described in D. melanogaster (3). gypsy appears to be the best studied LTR-containing mobile element in Drosophila. It ...
Copy Number Analysis in Partek® Genomics Suite™ 6.6
... chromosome view from the Copy Number workflow. At this stage of the workflow, you can visualize only the raw copy number estimates of each marker (Figure 9). Select Plot chromosome view from either QA/QC or Visualization (Figure 9). If prompted to Select an annotation source, select Ensembl Transc ...
... chromosome view from the Copy Number workflow. At this stage of the workflow, you can visualize only the raw copy number estimates of each marker (Figure 9). Select Plot chromosome view from either QA/QC or Visualization (Figure 9). If prompted to Select an annotation source, select Ensembl Transc ...
Modeling Fragile X Syndrome Using Human Pluripotent Stem Cells
... Human embryonic stem cells (hESCs) are undifferentiated pluripotent cell lines with unrestricted self-renewal and the ability to differentiate into a wide range of cell types [26]. They are established from in vitro fertilization (IVF) embryos, and can be obtained from genetically affected embryos f ...
... Human embryonic stem cells (hESCs) are undifferentiated pluripotent cell lines with unrestricted self-renewal and the ability to differentiate into a wide range of cell types [26]. They are established from in vitro fertilization (IVF) embryos, and can be obtained from genetically affected embryos f ...
ORF distribution and statistics
... ORF distribution and statistics Limitation of "long ORF" - based gene detection • Where to set the threshold (multiple testing!)? • Overlapping ORF • Nucleotide frequency and codon usage • Sequencing errors Error rates of NGS sequencing range from 0.1% to 0.6%, depen ...
... ORF distribution and statistics Limitation of "long ORF" - based gene detection • Where to set the threshold (multiple testing!)? • Overlapping ORF • Nucleotide frequency and codon usage • Sequencing errors Error rates of NGS sequencing range from 0.1% to 0.6%, depen ...
Goal - Cytoscape Wiki
... • Method – Calculate z-score/node, ZA score/subgraph, correct vs. random expression data sampling – Score over multiple experimental conditions – Simulated annealing used to find high scoring networks Ideker T, Ozier O, Schwikowski B, Siegel AF Bioinformatics. 2002;18 Suppl 1:S233-40 ...
... • Method – Calculate z-score/node, ZA score/subgraph, correct vs. random expression data sampling – Score over multiple experimental conditions – Simulated annealing used to find high scoring networks Ideker T, Ozier O, Schwikowski B, Siegel AF Bioinformatics. 2002;18 Suppl 1:S233-40 ...
Molecular evolutionary analysis of the American pika
... confer a fitness advantage in a changing environment or improvement of the competitive ability of individuals or phenotypes within a population (Kimura 1984; Nei 1987). We often consider that this process occurs after the initial appearance of a new allele that has ...
... confer a fitness advantage in a changing environment or improvement of the competitive ability of individuals or phenotypes within a population (Kimura 1984; Nei 1987). We often consider that this process occurs after the initial appearance of a new allele that has ...
Contrasting Properties of Gene-Specific Regulatory, Coding, and
... effects on fitness and will be disfavored by natural selection. One example of this is that coding mutations are commonly expected to be more pleiotropic (and hence have lower average fitness) than ...
... effects on fitness and will be disfavored by natural selection. One example of this is that coding mutations are commonly expected to be more pleiotropic (and hence have lower average fitness) than ...
Mouse Lefty2 and Zebrafish Antivin Are Feedback
... lefty2 Null Mutants Are Early Embryonic Lethal The murine “lefty” locus is composed of two highly conserved genes, lefty1 and lefty2, which are tightly linked on chromosome 1 (Meno et al., 1997). To examine the role of lefty2 in gastrulation and L–R asymmetry, we generated mutant mice deficient in l ...
... lefty2 Null Mutants Are Early Embryonic Lethal The murine “lefty” locus is composed of two highly conserved genes, lefty1 and lefty2, which are tightly linked on chromosome 1 (Meno et al., 1997). To examine the role of lefty2 in gastrulation and L–R asymmetry, we generated mutant mice deficient in l ...
Science Flashcard Printouts.doc
... This German botanist was the first to propose that the cell nucleus plays a part in cellular reproduction. ...
... This German botanist was the first to propose that the cell nucleus plays a part in cellular reproduction. ...
Gene density and transcription influence the localization of
... 11p15.5 was linked to the imprinted state of genes in this region, as both alleles were found outside of chromosome territories in many nuclei. However, we wished to determine whether other imprinted regions of the human genome were also located outside of chromosome territories. There is a large cl ...
... 11p15.5 was linked to the imprinted state of genes in this region, as both alleles were found outside of chromosome territories in many nuclei. However, we wished to determine whether other imprinted regions of the human genome were also located outside of chromosome territories. There is a large cl ...
Methods for detecting positive selection and examples among fungi
... in Yang et al. (2000) implemented a naive empirical approach (NEB) in which maximum likelihood estimates were used as priors, but in this way the uncertainty associated with the estimation was not taken into account. Several Bayesian techniques were proposed to improve accuracy, including the Bayes ...
... in Yang et al. (2000) implemented a naive empirical approach (NEB) in which maximum likelihood estimates were used as priors, but in this way the uncertainty associated with the estimation was not taken into account. Several Bayesian techniques were proposed to improve accuracy, including the Bayes ...
Gene Section PYY (peptide YY) Atlas of Genetics and Cytogenetics
... Enteroendocrine L-cells release two circulating forms of PYY in the distal gut: PYY1-36 and PYY3-36. The latter form is considered the predominant form in both fasted and fed states and is produced by the cleavage of the N-terminal Tyr-Pro residues from PYY1-36 by ...
... Enteroendocrine L-cells release two circulating forms of PYY in the distal gut: PYY1-36 and PYY3-36. The latter form is considered the predominant form in both fasted and fed states and is produced by the cleavage of the N-terminal Tyr-Pro residues from PYY1-36 by ...
12 | mendel`s experiments and heredity
... chromosomes or genes had been identified, at a time when meiosis was not well understood. Mendel selected a simple biological system and conducted methodical, quantitative analyses using large sample sizes. Because of Mendel’s work, the fundamental principles of heredity were revealed. We now know t ...
... chromosomes or genes had been identified, at a time when meiosis was not well understood. Mendel selected a simple biological system and conducted methodical, quantitative analyses using large sample sizes. Because of Mendel’s work, the fundamental principles of heredity were revealed. We now know t ...
PDF
... for the genitalia; sources of descriptions of thoracic structures are as previously cited (Ingham, ...
... for the genitalia; sources of descriptions of thoracic structures are as previously cited (Ingham, ...
Metabolic regulation of Escherichia coli cultivated under anaerobic
... changes were analyzed for the case under anaerobic condition. The effects of the knockout of such genes as pgi, zwf, gnd, ppc pck, pyk, and lpdA on the metabolic changes were also analyzed for the case under aerobic condition. The metabolic regulation analysis was made focusing on the roles of trans ...
... changes were analyzed for the case under anaerobic condition. The effects of the knockout of such genes as pgi, zwf, gnd, ppc pck, pyk, and lpdA on the metabolic changes were also analyzed for the case under aerobic condition. The metabolic regulation analysis was made focusing on the roles of trans ...
- Free Documents
... Biology, e Campbell Chapter Mendel and the Gene Idea MultipleChoice Questions Pea plants were particularly well suited for use in Mendels breeding experiments for all of the following reasons except that A peas show easily observed variations in a number of characters, such as pea shape and flower c ...
... Biology, e Campbell Chapter Mendel and the Gene Idea MultipleChoice Questions Pea plants were particularly well suited for use in Mendels breeding experiments for all of the following reasons except that A peas show easily observed variations in a number of characters, such as pea shape and flower c ...
PDF
... (the prolonged cold of winter) and long days (see Amasino, 2010). Arabidopsis provides a useful guide to the types of genes/proteins that regulate flowering and, although there are important differences, the molecular mechanisms controlling seasonal flowering responses of grasses can be viewed as vari ...
... (the prolonged cold of winter) and long days (see Amasino, 2010). Arabidopsis provides a useful guide to the types of genes/proteins that regulate flowering and, although there are important differences, the molecular mechanisms controlling seasonal flowering responses of grasses can be viewed as vari ...
Regulation of Ovule Development
... Ovule development in Arabidopsis and other plants has been the focus of classic and molecular genetic analyses in recent years. This has been an exciting time to be involved in plant developmental biology, because many genetic pathways and regulatory mechanisms have been elucidated. Continued studie ...
... Ovule development in Arabidopsis and other plants has been the focus of classic and molecular genetic analyses in recent years. This has been an exciting time to be involved in plant developmental biology, because many genetic pathways and regulatory mechanisms have been elucidated. Continued studie ...
Supporting information S1.
... Supporting information S1. Detailed explanation of plasmids and strains construction The suicide vector pKNG101 was used to introduce the CAT* reporter gene within the Escherichia coli chromosome (Table S2). This plasmid contains a defective pir minus origin of replication (oriR6K), the strAB genes ...
... Supporting information S1. Detailed explanation of plasmids and strains construction The suicide vector pKNG101 was used to introduce the CAT* reporter gene within the Escherichia coli chromosome (Table S2). This plasmid contains a defective pir minus origin of replication (oriR6K), the strAB genes ...
Massive Changes in Genome Architecture Accompany
... The suppression of recombination across such a region will be selected for if it creates linkage between the sex-determining locus and other genes that are sexually antagonistic in that their functions are beneficial to only one of the sexes. The nonrecombining region can be formed from the spread of ...
... The suppression of recombination across such a region will be selected for if it creates linkage between the sex-determining locus and other genes that are sexually antagonistic in that their functions are beneficial to only one of the sexes. The nonrecombining region can be formed from the spread of ...
RNA-Seq
RNA-seq (RNA sequencing), also called whole transcriptome shotgun sequencing (WTSS), is a technology that uses the capabilities of next-generation sequencing to reveal a snapshot of RNA presence and quantity from a genome at a given moment in time.