Joining the Dots: Network Analysis of Gene Perturbation Screens
... • What information do we get out of gene perturbations? – Phenotypes and their ‘richness’ • How do we use this information to infer the internal architecture of a cell? – Guilt-by-association – Nested Effects Models ...
... • What information do we get out of gene perturbations? – Phenotypes and their ‘richness’ • How do we use this information to infer the internal architecture of a cell? – Guilt-by-association – Nested Effects Models ...
Thesis Proposal Format
... the many different strains of HPV are “high risk” for cervical carcinogenesis. Strain 16 is most commonly found in cervical cancer. HPV has a circular double-stranded genome that is about 8.0 kb in length. It has two sections, the late region and the early region. (Figure 1) The genes in the late (L ...
... the many different strains of HPV are “high risk” for cervical carcinogenesis. Strain 16 is most commonly found in cervical cancer. HPV has a circular double-stranded genome that is about 8.0 kb in length. It has two sections, the late region and the early region. (Figure 1) The genes in the late (L ...
Intelligent DNA Chips: Logical Operation of Gene Expression
... 4. DCN seqs are simultaneously applied to a DNA chip with DNA strands encoding Boolean formulae 5. The complementary marker sequences fluorescently tagged are applied to the DNA chip after the logical evaluation and annealed to marker in the DNA chip which remain single-stranded. 6. * Color: truth-v ...
... 4. DCN seqs are simultaneously applied to a DNA chip with DNA strands encoding Boolean formulae 5. The complementary marker sequences fluorescently tagged are applied to the DNA chip after the logical evaluation and annealed to marker in the DNA chip which remain single-stranded. 6. * Color: truth-v ...
GDR ADN 2014 Chromatin folding in estrogen regulated
... Variations in the three-dimensional organization of chromosomes guide genome function from gene expression to DNA repair and recombination. DNA-bound transcription factors recruit many chromatin remodeling and modifying complexes to activate transcription. How the local chromatin environment prepare ...
... Variations in the three-dimensional organization of chromosomes guide genome function from gene expression to DNA repair and recombination. DNA-bound transcription factors recruit many chromatin remodeling and modifying complexes to activate transcription. How the local chromatin environment prepare ...
Permutation-Based Methods for Assessing Significance in Genetic Association Studies with Binary Traits and Related Individuals
... diseases such as type 2 diabetes. Some recently proposed association tests involve aggregating across variants in a gene or region and lead to test statistics with unknown null distribution, an issue which can be solved by using permutation to assess significance. In the presence of related individu ...
... diseases such as type 2 diabetes. Some recently proposed association tests involve aggregating across variants in a gene or region and lead to test statistics with unknown null distribution, an issue which can be solved by using permutation to assess significance. In the presence of related individu ...
Gene set enrichment analysis (GSEA)
... higher mean expression than DMSO group. Similarly, positive β2 means that the 3-week group has higher mean expression than the 1-day group. ...
... higher mean expression than DMSO group. Similarly, positive β2 means that the 3-week group has higher mean expression than the 1-day group. ...
2005 exam
... Explain the structural components needed for recruiting a gene into a novel developmental pathway during the course of evolution. ...
... Explain the structural components needed for recruiting a gene into a novel developmental pathway during the course of evolution. ...
Constructing gene networks underlying fat - BDPorc
... filter out indirect pair-wise correlations. Transcriptomic phenotype network was notably denser and showed much higher correlation values between traits. Besides, a weighted gene co-expression network (WGCN) was constructed on the basis of soft thresholding, using a power function and scale free top ...
... filter out indirect pair-wise correlations. Transcriptomic phenotype network was notably denser and showed much higher correlation values between traits. Besides, a weighted gene co-expression network (WGCN) was constructed on the basis of soft thresholding, using a power function and scale free top ...
TB1 - BIOCHEM, Broyles
... Zinc finger (Cys-Cys and Cys-His), e.g. TFIIIA or GATA-1 (a protein involved in regulation of human globin genes) Leucine zipper – a class of trans-acting factor with a special motif for interacting with other proteins as well as DNA Helix-loop-helix (HLH) or basic helix-loop-helix (bHLH) o Ci ...
... Zinc finger (Cys-Cys and Cys-His), e.g. TFIIIA or GATA-1 (a protein involved in regulation of human globin genes) Leucine zipper – a class of trans-acting factor with a special motif for interacting with other proteins as well as DNA Helix-loop-helix (HLH) or basic helix-loop-helix (bHLH) o Ci ...
RNA Polymerase II mediated modifications
... and HP1γ Are Associated with Transcription Elongation through Mammalian Chromatin Christopher R. Vakoc, Sean A. Mandat, Benjamin A. Olenchock and Gerd A. Blobel Molecular Cell 2005,19(3):381-391 ...
... and HP1γ Are Associated with Transcription Elongation through Mammalian Chromatin Christopher R. Vakoc, Sean A. Mandat, Benjamin A. Olenchock and Gerd A. Blobel Molecular Cell 2005,19(3):381-391 ...
Prenatal development
... Co-dominant genes: When two genes are of equal dominance, they will both be expressed in the phenotype. For example, blood groups A and B are equal, therefore resulting children would present with the blood type AB. 3. Understand the difference between Genotype & Phenotype ...
... Co-dominant genes: When two genes are of equal dominance, they will both be expressed in the phenotype. For example, blood groups A and B are equal, therefore resulting children would present with the blood type AB. 3. Understand the difference between Genotype & Phenotype ...
Methylation of an upstream Alu sequence on the Imprinted H19
... interspersed in primate genomes. They contain numerous CpG islands that are sometimes methylated. Alu methylation differs between somatic and germ cell DNA, suggesting a possible role for Alu sequences in genomic imprinting. The objective of this proposed research will be to examine Alu methylation ...
... interspersed in primate genomes. They contain numerous CpG islands that are sometimes methylated. Alu methylation differs between somatic and germ cell DNA, suggesting a possible role for Alu sequences in genomic imprinting. The objective of this proposed research will be to examine Alu methylation ...
Gene Section YPEL3 (yippee-like 3 (Drosophila)) Atlas of Genetics and Cytogenetics
... estrogen receptor positive (ER+) MCF7 cells while YPEL3 over-expression decreases cell number. Moreover, YPEL3 mRNA as well as Ypel protein levels show an increase in MCF7 cells when 17βestradiol (E2) is withdrawn. In contrast, the addition of E2 at a circulating level (1nM) decreases the expression ...
... estrogen receptor positive (ER+) MCF7 cells while YPEL3 over-expression decreases cell number. Moreover, YPEL3 mRNA as well as Ypel protein levels show an increase in MCF7 cells when 17βestradiol (E2) is withdrawn. In contrast, the addition of E2 at a circulating level (1nM) decreases the expression ...
PDF
... JNK pathways, which regulate apoptosis, these investigators uncovered a network of genes that show expression changes during metamorphosis. Cisushi, one such gene, is expressed in the tail epithelia and is downregulated by JNK inhibitors – when knocked down by a morpholino, tail cell death and regre ...
... JNK pathways, which regulate apoptosis, these investigators uncovered a network of genes that show expression changes during metamorphosis. Cisushi, one such gene, is expressed in the tail epithelia and is downregulated by JNK inhibitors – when knocked down by a morpholino, tail cell death and regre ...
Non-genetic inheritance of diet-induced obesity in mice
... offspring of obese parents to diet-induced obesity, reports a paper published online this week inNature Genetics. The study shows a direct role for epigenetic effects without the confounding effects of environment. ...
... offspring of obese parents to diet-induced obesity, reports a paper published online this week inNature Genetics. The study shows a direct role for epigenetic effects without the confounding effects of environment. ...
Document
... S1.Describe how the tight packing of chromatin in a closed conformation may prevent gene transcription. Answer: There are several possible ways that the tight packing of chromatin physically inhibits transcription. First, it may prevent transcription factors and/or RNA polymerase from binding to the ...
... S1.Describe how the tight packing of chromatin in a closed conformation may prevent gene transcription. Answer: There are several possible ways that the tight packing of chromatin physically inhibits transcription. First, it may prevent transcription factors and/or RNA polymerase from binding to the ...
S1.Describe how the tight packing of chromatin in a closed
... S1.Describe how the tight packing of chromatin in a closed conformation may prevent gene transcription. Answer: There are several possible ways that the tight packing of chromatin physically inhibits transcription. First, it may prevent transcription factors and/or RNA polymerase from binding to the ...
... S1.Describe how the tight packing of chromatin in a closed conformation may prevent gene transcription. Answer: There are several possible ways that the tight packing of chromatin physically inhibits transcription. First, it may prevent transcription factors and/or RNA polymerase from binding to the ...
Lab Exercise #17
... araC – this gene will produce a protein which in the presence of the sugar arabinose will allow the bacteria to turn on the GFP gene GFP – in the presence of arabinose, this gene will “turn on” and cause the transformed (transgenic) bacteria to glow green ...
... araC – this gene will produce a protein which in the presence of the sugar arabinose will allow the bacteria to turn on the GFP gene GFP – in the presence of arabinose, this gene will “turn on” and cause the transformed (transgenic) bacteria to glow green ...
pres2_odell - Harlem Children Society
... Whereas, we investigated the possibility of heterozygous mutations in islet-cell transcription factors such as IPF1/IDX-1/STF-1/PDX-1 and NEUROD1/BETA2 serve as a genetic cause of diabetes or glucose intolerance PAX6 gene mutations being a genetic factor common to aniridia and diabetes. In five anir ...
... Whereas, we investigated the possibility of heterozygous mutations in islet-cell transcription factors such as IPF1/IDX-1/STF-1/PDX-1 and NEUROD1/BETA2 serve as a genetic cause of diabetes or glucose intolerance PAX6 gene mutations being a genetic factor common to aniridia and diabetes. In five anir ...
gene pool
... LO: I will write a diagram for my notes. I will talk with my classmates about other evolutionary mechanisms. ...
... LO: I will write a diagram for my notes. I will talk with my classmates about other evolutionary mechanisms. ...
Genes Section RHOH (ras homolog gene family, member H)
... 5' RHOH - 3' BCL6 and 5' BCL6 - 3' RHOH, are leading to two fusion transcripts. ...
... 5' RHOH - 3' BCL6 and 5' BCL6 - 3' RHOH, are leading to two fusion transcripts. ...
Gene Section CITED4 (Cbp/p300 interacting transactivator, with Glu/Asp
... lower levels of CITED4 mRNA expression, suggesting a way by which CITED4 is almost silenced by both hypermethylation and chromosomal deletion (Tews et ...
... lower levels of CITED4 mRNA expression, suggesting a way by which CITED4 is almost silenced by both hypermethylation and chromosomal deletion (Tews et ...
PPT File
... • Best for transmission of epigenetic information (∵ influence on the modification of chromatin structure & access of transcriptional machinery to genes) • Methyl transferases mono-, di- or trimethylation of lysine or arginine Facilitate gene silencing ？Whether modified histones play a crucial r ...
... • Best for transmission of epigenetic information (∵ influence on the modification of chromatin structure & access of transcriptional machinery to genes) • Methyl transferases mono-, di- or trimethylation of lysine or arginine Facilitate gene silencing ？Whether modified histones play a crucial r ...