Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 20 of 98 for “"binding specificity"”.
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Deciphering protein binding specificity with deep learning
Submission published under a 24 month embargo labeled 'Closed Access', the embargo will last until 2026-12-01
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Carbohydrate and bacterial binding specificity of human intelectin-1
… Human soluble lectins are secreted carbohydrate-binding proteins that bind microbes by specific recognition of cell surface glycans. Many soluble lectins are important mucosal innate immune factors, as lectins binding to microbes can result in their clearance from the host. However, the glycan …
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Insights into the Substrate Binding Specificity of Quorum-Quenching Acylase PVDQ
… lengths and substituents. However, the substrate binding specificity determinants of PvdQ with different bacterial ligands remain unknown and unintuitive. Elucidation of these determinants can lead to mutants with efficiency and broader substrate promiscuity. To investigate this question, a …
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DNA Binding Specificity of Mu Transcription Factor C and Crystallization of C : DNA Complex
… aims of this study was, (1) To understand the binding specificity of C and determine a possible consensus sequence for C binding, and (2) To crystallize the C : DNA complex as a first step towards structure determination. In previous work, single base substitution mutations in Plys identified …
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Determination and Dissection of DNA-binding Specificity for the Thermus thermophilus HB8 Transcriptional Regulator TTHB099
… (REPSA), we identified the preferred DNA-binding motif for TTHB099, 5'-TGT(A/g)n(t/c)c(t/c)(a/g)g(a/g)n(T/c)ACA-3', and mapped potential binding sites, and regulated genes within the <em>T. thermophilus</em> HB8 genome. Comparisons with expression profile data in TTHB099-deficient and wild …
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DNA-binding specificity of the E2F gene family, and cloning and characterization of a novel family mamber
Thesis (Ph.D.)--Massachusetts Institute of Technology, Dept. of Biology, 1999.
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Global analysis of mRNA decay rates and RNA-binding specificity reveals novel roles for CUGBP1 and PARN deadenylase in muscle cells
… muscle cells expression and function of the RNA-binding proteins CUGBP1 and MBNL1 are disrupted, resulting in altered mRNA metabolism at the levels of splicing and translation. Intriguingly, despite strong evidence for CUGBP1 being a regulator of mRNA turnover in humans and other organisms, the …
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Probing RNA binding specificities of AID/APOBEC proteins by iCLIP
… However, little is known about AID/APOBECs RNA binding specificity. A promiscuous binding has been suggested in some cases while in vitro evidence for other members of the family indicate a certain level of specificity. Therefore, to thoroughly unravel the AID/APOBECs RNA binding specificity, in …
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Glycan receptor binding determinants of Influenza A virus hemagglutinin
… hemagglutinin (HA), which changes its binding specificity towards glycan receptors in the human upper respiratory epithelia (referred to as human receptors). In this thesis, determinants that mediate changes in HA-glycan receptor binding specificity are investigated, with focus on the …
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Learning the Language of Antibody Hypervariability Through Biological Property Prediction
… on examples of antibody structure and binding specificity. We demonstrate how our feature representations can be applied to the accurate prediction of an antibody’s local and global 3D structures, mutational effects on antigen binding specificity, as well as identification of its …
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Determinants of protein-peptide interaction specificity in the Bcl-2 and TRAF families
… in which homologous members display differential binding preferences for peptide sequence features. Peptide binding specificity is critical for the functional roles played by each family member, which can be overlapping or distinct. The two peptide recognition domain families discussed in this …
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Rational design, characterization and in vivo studies of antibody mimics against HER2
… these molecules, antibodies showed excellent binding affinity and specificity toward HER2. However, uses of antibodies are limited by their high cost of production, long development time, limited ability to penetrate tumor tissue and immunogenicity. Many of these limitations are due to the …
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Nanoscale Organization of The Small Gtpase Rac1
<p>Rac1 is a small, guanine-nucleotide binding protein that cycles between an inactive GDP-bound and active GTP-bound state to regulate actin-mediated motility, migration, and adhesion. Plasma membrane (PM) localization is essential for its biological activity. Rac1 PM targeting is directed by a …
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Cadherin recognition and specificity
… of cadherin mediated cell-cell interaction and binding specificity. First, the bond properties were studied with the micropipette manipulation method. The results revealed that cadherin binding exhibits biphasic kinetics. Further studies with domain deletion mutants showed that the EC1 domain of …
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Computational Methods for the Measurement of Protein-DNA Interactions
It is of interest to know where in the genome DNA binding proteins act in order to effect their gene regulatory function. For many sequence specific DNA binding proteins we plan to predict the location of their action by having a model of their affinity to short DNA sequences. Existing and new …
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Entropy-based machine learning algorithms applied to genomics and pattern recognition
… factors underlying transcription factor (TF) binding specificity is important for understanding the mechanism of oncogenesis. As large, biological datasets become more readily available, machine learning (ML) algorithms have proven to make up an important and useful set of tools for cancer …
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Analysis of genes involved in cell-specific control of programmed cell death in Caenorhabditis elegans
… transcription factors. By sequence and DNA-binding specificity CES-1 is a member of the Snail family of zinc-finger proteins, and most similar to the Drosophila protein Scratch. CES-2 is a bZIP protein closest in sequence and DNA-binding specificity to members of the vertebrate PAR …
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Molecular Dynamics Study of Hormone Receptors Binding DNA and Hormones
… dynamic structural properties of modified DNA, binding of the estrogen receptor to specific and non-specific DNA, and binding/unbinding of hormones to/from retinoic acid receptor and thyroid hormone receptor. In the DNA dodecamer, d(CGCGAATTCGCG), two Adenine residues, individually or jointly, …
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Human adaptation of avian influenza viruses
… hemagglutinin (HA), that changes HA's binding specificity and affinity towards glycan receptors in the upper respiratory epithelia (referred to as human receptors). Unlike for the H1, H2, H3 and more recently H5 HA a correlation between the quantitative binding of HA to human receptors …
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