Supplementary Materials and Methods for A nucleosome signature
... expression pattern of downstream genes is not an artifact of gene expression level. The analysis setup resembles Figure 1 but only includes expressed genes, defined as the top 90% expressed genes. Nucleosome (left) depletion marks the functional SWI4 motifs in regulating gene expression (right) duri ...
... expression pattern of downstream genes is not an artifact of gene expression level. The analysis setup resembles Figure 1 but only includes expressed genes, defined as the top 90% expressed genes. Nucleosome (left) depletion marks the functional SWI4 motifs in regulating gene expression (right) duri ...
THE CONTROL OF GENE EXPRESSION
... THE CONTROL OF GENE EXPRESSION • ATTEMPTING TO EXPLAIN THE PROCESS OF DIFFERENTATION LIES IN DISCOVERING HOW EUKARYOTIC CELLS CONTROL GENE EXPRESSION • THIS IS DIFFICULT, BECAUSE EUKARYOTIC GENOMES ARE LARGE AND COMPLEX; BUT WE SHALL DO OUR BEST!!! (VICTORY WILL BE OURS!!) ...
... THE CONTROL OF GENE EXPRESSION • ATTEMPTING TO EXPLAIN THE PROCESS OF DIFFERENTATION LIES IN DISCOVERING HOW EUKARYOTIC CELLS CONTROL GENE EXPRESSION • THIS IS DIFFICULT, BECAUSE EUKARYOTIC GENOMES ARE LARGE AND COMPLEX; BUT WE SHALL DO OUR BEST!!! (VICTORY WILL BE OURS!!) ...
Slide 1 - Elsevier
... FIGURE 9.7 Regulatory elements andchromatin organization of the osteocalcin gene promoter. A. Illustrates the transcriptionally active osteocalcin gene indicated by strong DNase hypersensitivity (DHS) between the proximal and distal domains separated by a positioned nucleosome within the 1.1-kb pro ...
... FIGURE 9.7 Regulatory elements andchromatin organization of the osteocalcin gene promoter. A. Illustrates the transcriptionally active osteocalcin gene indicated by strong DNase hypersensitivity (DHS) between the proximal and distal domains separated by a positioned nucleosome within the 1.1-kb pro ...
8.4 Lecture - Issaquah Connect
... – Nucleotides (5) pair with one strand of the DNA (4). – RNA polymerase (7) reads one side of the DNA template and strings together a complementary strand of RNA nucleotides. (6) – The DNA helix winds again as the gene is transcribed. ...
... – Nucleotides (5) pair with one strand of the DNA (4). – RNA polymerase (7) reads one side of the DNA template and strings together a complementary strand of RNA nucleotides. (6) – The DNA helix winds again as the gene is transcribed. ...
Bioinformatics how to predict protein structure using comparative
... E-value - the number of hits one can "expect" to see just by chance when searching a database of a particular size (closer to zero the better) Z-score – score expressed as a distance from the mean calculated in standard deviations (the bigger the better) ...
... E-value - the number of hits one can "expect" to see just by chance when searching a database of a particular size (closer to zero the better) Z-score – score expressed as a distance from the mean calculated in standard deviations (the bigger the better) ...
Lecture 12: Enzyme Catalysis Topics: Catalytic Strategies Steps in a
... Isozymes are enzymes which have the same activity but different kinetics or regulatory properties- differential expression of isozymes allows control over enzyme activity. Many proteins are regulated by covalent modification. The most common such modification is phosphorylation. Protein kinase A car ...
... Isozymes are enzymes which have the same activity but different kinetics or regulatory properties- differential expression of isozymes allows control over enzyme activity. Many proteins are regulated by covalent modification. The most common such modification is phosphorylation. Protein kinase A car ...
Sp100 is important for the stimulatory effect of
... 1990). The Sp100 family of proteins comprises the Sp110, Sp140/LYSp100 and the autoimmune regulator protein (AIRE), a transactivator which is mutated in a hereditary autoimmune disease (Vogel et al., 2002). All members of the Sp100 protein family share an N-terminal HSR (homogeneously staining regio ...
... 1990). The Sp100 family of proteins comprises the Sp110, Sp140/LYSp100 and the autoimmune regulator protein (AIRE), a transactivator which is mutated in a hereditary autoimmune disease (Vogel et al., 2002). All members of the Sp100 protein family share an N-terminal HSR (homogeneously staining regio ...
Inhibition of signal transduction pathways involved in inflammation G. Haegeman
... pathway and the concomitant production of inflammatory cytokines. In order to understand the inflammatory process at the "molecular" level and thus devise more specific molecular targets for the development of novel anti-inflammatory drugs, the author9s group has studied signal transduction pathways ...
... pathway and the concomitant production of inflammatory cytokines. In order to understand the inflammatory process at the "molecular" level and thus devise more specific molecular targets for the development of novel anti-inflammatory drugs, the author9s group has studied signal transduction pathways ...
histone proteins, the nucleosome and chromatin structure_9
... • Heterochromatic regions, which tend to be rich with adenine and thymine (AT-rich) DNA and relatively gene-poor, stain more darkly in Gbanding. • Euchromatin less condensed chromatin —which tends to be rich with guanine and cytosine (GCrich) and more transcriptionally active— incorporates less Gie ...
... • Heterochromatic regions, which tend to be rich with adenine and thymine (AT-rich) DNA and relatively gene-poor, stain more darkly in Gbanding. • Euchromatin less condensed chromatin —which tends to be rich with guanine and cytosine (GCrich) and more transcriptionally active— incorporates less Gie ...
Structural vs. nonstructural proteins
... is shifted or retarded upon protein binding. PROS ‐Ability to resolve complexes of different stoichiometry or conformation ‐ Can be used qualitatively to identify sequence‐specific DNA‐binding proteins (such as transcription factors) in crude lysates ‐ In conjunction with mutagenesis, can identify ...
... is shifted or retarded upon protein binding. PROS ‐Ability to resolve complexes of different stoichiometry or conformation ‐ Can be used qualitatively to identify sequence‐specific DNA‐binding proteins (such as transcription factors) in crude lysates ‐ In conjunction with mutagenesis, can identify ...
The Blueprint of Life, From DNA to Protein
... – a set of genes that are controlled by regulatory proteins – divided into two regions, the control region and the structural region • The control region include the operator and the promoter – The operator acts as the “on-off” switch ...
... – a set of genes that are controlled by regulatory proteins – divided into two regions, the control region and the structural region • The control region include the operator and the promoter – The operator acts as the “on-off” switch ...
Tag-ChIP-IT® Enables ChIP Without Protein
... protein of interest? No problem! Transcription factor ChIP is often challenging due to a lack of available antibodies that are capable of recognizing target-bound protein of interest post-fixation, or the inability of available antibodies to distinguish between protein isoforms. These limitations ma ...
... protein of interest? No problem! Transcription factor ChIP is often challenging due to a lack of available antibodies that are capable of recognizing target-bound protein of interest post-fixation, or the inability of available antibodies to distinguish between protein isoforms. These limitations ma ...
Introductory presentation(, 3.5 MB)
... Forms a protective film on the surfaces of cells in our bodies, e.g. those lining the intestines and throat. ...
... Forms a protective film on the surfaces of cells in our bodies, e.g. those lining the intestines and throat. ...
Powerpoint
... Oxidants can modulate cell signaling events by modifying cell surface receptors, phosphatases and protein phosphorylation, etc. These phenomena are important in transactivation of transcription factors and activation/inactivation of gene transcription that may regulate steps in the development of di ...
... Oxidants can modulate cell signaling events by modifying cell surface receptors, phosphatases and protein phosphorylation, etc. These phenomena are important in transactivation of transcription factors and activation/inactivation of gene transcription that may regulate steps in the development of di ...
bio_ch08
... – Nucleotides pair with one strand of the DNA. – RNA polymerase bonds the nucleotides together. – The DNA helix winds again as the gene is transcribed. DNA ...
... – Nucleotides pair with one strand of the DNA. – RNA polymerase bonds the nucleotides together. – The DNA helix winds again as the gene is transcribed. DNA ...
8.4 Transcription
... – Nucleotides pair with one strand of the DNA. – RNA polymerase bonds the nucleotides together. – The DNA helix winds again as the gene is transcribed. DNA ...
... – Nucleotides pair with one strand of the DNA. – RNA polymerase bonds the nucleotides together. – The DNA helix winds again as the gene is transcribed. DNA ...
TUMOR-SUPPRESSOR GENES
... less tightly to the nucleus and less tightly to the E2F transcription factor which activates some genes for cell cycle progression. In the normal cell cycle, Rb becomes hyperphosphorylated at the G1/S transition and is released from the E2F transcription factor. The Rb protein can also bind specific ...
... less tightly to the nucleus and less tightly to the E2F transcription factor which activates some genes for cell cycle progression. In the normal cell cycle, Rb becomes hyperphosphorylated at the G1/S transition and is released from the E2F transcription factor. The Rb protein can also bind specific ...
8.4 Transcription KEY CONCEPT Transcription converts a gene into a single-stranded RNA molecule.
... – Nucleotides pair with one strand of the DNA. – RNA polymerase bonds the nucleotides together. – The DNA helix winds again as the gene is transcribed. DNA ...
... – Nucleotides pair with one strand of the DNA. – RNA polymerase bonds the nucleotides together. – The DNA helix winds again as the gene is transcribed. DNA ...
Gene Section LYL1 (lymphoblastic leukemia derived sequence 1) in Oncology and Haematology
... cord tissues. Ectopic transcription is observed in Tlymphoblastic and myeloblastic leukemic cells. ...
... cord tissues. Ectopic transcription is observed in Tlymphoblastic and myeloblastic leukemic cells. ...
Regulation of Gene Expression
... Eukaryotic promoter and enhancer elements mediate expression of cell-specific genes Cells contain factors that recognize promoters and enhancers in the genes they transcribe Transcription is accompanied by changes in chromosomal structure ...
... Eukaryotic promoter and enhancer elements mediate expression of cell-specific genes Cells contain factors that recognize promoters and enhancers in the genes they transcribe Transcription is accompanied by changes in chromosomal structure ...
In vivo assays to study histone ubiquitylation
... similar in many parameters to nucleosomes containing unmodified histones [36]. Because ubiquitin is a bulky moiety, it has been postulated that its attachment to histones could disrupt chromatin folding [35,37]. This argument tends to be supported by the observation that metazoan histones are globall ...
... similar in many parameters to nucleosomes containing unmodified histones [36]. Because ubiquitin is a bulky moiety, it has been postulated that its attachment to histones could disrupt chromatin folding [35,37]. This argument tends to be supported by the observation that metazoan histones are globall ...
Genome Biology and
... – The use of CHIP and DNA microarrays to define the genomic binding sites of the SBF and MBF transcription factors in vivo – The SBF and MBF transcription factors are active in the initiation of the cell division cycle (G1/S) in yeast • A few target genes of SBF and MBF are known but the precise rol ...
... – The use of CHIP and DNA microarrays to define the genomic binding sites of the SBF and MBF transcription factors in vivo – The SBF and MBF transcription factors are active in the initiation of the cell division cycle (G1/S) in yeast • A few target genes of SBF and MBF are known but the precise rol ...
Methods S1
... DREB2A fragment spanning amino acid residues 136-335 (DREB2A CT) that was expressed in Escherichia coli as an antigen. The coding sequence of DREB2A CT was amplified by PCR from a cDNA clone of DREB2A [5] using the primer pair DREB2A/406F-EcoRI DREB2A/C-SalI ...
... DREB2A fragment spanning amino acid residues 136-335 (DREB2A CT) that was expressed in Escherichia coli as an antigen. The coding sequence of DREB2A CT was amplified by PCR from a cDNA clone of DREB2A [5] using the primer pair DREB2A/406F-EcoRI DREB2A/C-SalI ...
1 Fungi are eukaryotic organisms with approximately 300 000 different species.... 200 are potential parasites, with only a few of these... 1. INTRODUCTION
... peroxisomal beta-oxidation was first discovered in Saccharomyces cerevisiae [24-26]. Fatty acid degradation occurs via different mechanisms, such as, alpha oxidation leading to formation of CO2, beta-oxidation in mitochondria and peroxisomes and omega-oxidation carried out by cytochrome P450. The la ...
... peroxisomal beta-oxidation was first discovered in Saccharomyces cerevisiae [24-26]. Fatty acid degradation occurs via different mechanisms, such as, alpha oxidation leading to formation of CO2, beta-oxidation in mitochondria and peroxisomes and omega-oxidation carried out by cytochrome P450. The la ...
Histone acetylation and deacetylation
Histone acetylation and deacetylation are the processes by which the lysine residues within the N-terminal tail protruding from the histone core of the nucleosome are acetylated and deacetylated as part of gene regulation. Histone acetylation and deacetylation are essential parts of gene regulation. These reactions are typically catalysed by enzymes with ""histone acetyltransferase"" (HAT) or ""histone deacetylase"" (HDAC) activity. Acetylation is the process where an acetyl functional group is transferred from one molecule (in this case, Acetyl-Coenzyme A) to another. Deacetylation is simply the reverse reaction where an acetyl group is removed from a molecule.Acetylated histones, octameric proteins that organize chromatin into nucleosomes and ultimately higher order structures, represent a type of epigenetic marker within chromatin. Acetylation removes the positive charge on the histones, thereby decreasing the interaction of the N termini of histones with the negatively charged phosphate groups of DNA. As a consequence, the condensed chromatin is transformed into a more relaxed structure that is associated with greater levels of gene transcription. This relaxation can be reversed by HDAC activity. Relaxed, transcriptionally active DNA is referred to as euchromatin. More condensed (tightly packed) DNA is referred to as heterochromatin. Condensation can be brought about by processes including deacetylation and methylation; the action of methylation is indirect and has no effect upon charge.