Relevant bibliographies by topics / Phage library

Academic literature on the topic 'Phage library'

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Published: 1 April 2023

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Journal articles on the topic "Phage library"

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Farquharson, Emma L., and Sam R. Nugen. "Enterobacteria Phage Ac3's Genome Annotation and Host Range Analysis Against the ECOR Reference Library." PHAGE 3, no. 3 (September 1, 2022): 165–70. http://dx.doi.org/10.1089/phage.2022.0008.

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Petrenko, V. A., G. P. Smith, M. M. Mazooji, and T. Quinn. "α-Helically constrained phage display library." Protein Engineering, Design and Selection 15, no. 11 (November 2002): 943–50. http://dx.doi.org/10.1093/protein/15.11.943.

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Saggio, I., and R. Laufer. "Biotin binders selected from a random peptide library expressed on phage." Biochemical Journal 293, no. 3 (August 1, 1993): 613–16. http://dx.doi.org/10.1042/bj2930613.

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Recombinant biotin-binding phages were affinity-selected from a random peptide library expressed on the surface of filamentous phage. Phage binding to biotinylated proteins was half-maximally inhibited by micromolar concentrations of a monobiotinylated molecule. Sequencing of the peptide inserts of selected phages led to the identification of a previously unknown biotin-binding motif, CXWXPPF(K or R)XXC. A synthetic peptide containing this sequence motif inhibited streptavidin binding to biotinylated BSA with an IC50 of 50 microM. This compound represents the shortest non-avidin biotin-binding peptide identified to date. Our results illustrate that phage display technology can be used to identify novel ligands for a small non-proteinaceous molecule.
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Wen, Jianxin, and Kunpeng Yuan. "Phage Display Technology, Phage Display System, Antibody Library, Prospects and Challenges." Advances in Microbiology 11, no. 03 (2021): 181–89. http://dx.doi.org/10.4236/aim.2021.113013.

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Ding, Yan-Li, Mei-Yun Liu, Wei Han, Sheng-Li Yang, Hui Liu, and Yi Gong. "Application of Phage-displayed Single Chain Antibodies in Western Blot." Acta Biochimica et Biophysica Sinica 37, no. 3 (March 1, 2005): 205–9. http://dx.doi.org/10.1093/abbs/37.3.205.

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Abstract A phage display single chain fragment variable library constructed on pIII protein of M13 filamentous phage was screened using B-lymphocyte stimulator and FP248 as selective molecules. After four rounds of panning, there was a remarkable enrichment in the titer of bound phages. Twenty phage clones were selected from the last round and screened by means of phage-ELISA. With the antibody phages as primary antibodies in Western blot, we developed a method for detecting the specific antigen. The dilutions of antibody phages depend on the affinity between antibody-displayed phage particles and antigens.
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Gillespie, James W., Liping Yang, Laura Maria De Plano, Murray A. Stackhouse, and Valery A. Petrenko. "Evolution of a Landscape Phage Library in a Mouse Xenograft Model of Human Breast Cancer." Viruses 11, no. 11 (October 26, 2019): 988. http://dx.doi.org/10.3390/v11110988.

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Peptide-displayed phage libraries are billion-clone collections of diverse chimeric bacteriophage particles, decorated by genetically fused peptides built from a random combination of natural amino acids. Studying the molecular evolution of peptide-displayed libraries in mammalian model systems, using in vivo phage display techniques, can provide invaluable knowledge about the underlying physiology of the vasculature system, allow recognition of organ- and tissue-specific networks of protein–protein interactions, and provide ligands for targeted diagnostics and therapeutics. Recently, we discovered that landscape phage libraries, a specific type of multivalent peptide phage display library, expose on their surface comprehensive collections of elementary binding units (EBUs), which can form short linear motifs (SLiMs) that interact with functional domains of physiologically relevant proteins. Because of their unique structural and functional features, landscape phages can use an alternative mechanism of directed molecular evolution, i.e., combinatorial avidity selection. These discoveries fueled our interest in revisiting the in vivo evolution of phage displayed libraries using another format of display, i.e., landscape phages. In this study, we monitored the evolution of a landscape phage library in a mouse model with and without an implanted human breast cancer tumor xenograft. As expected, the multivalent architecture of landscape phage displayed proteins provided strong tissue selectivity and resulted in a huge diversity of tissue penetrating, chimeric phage particles. We identified several types of EBU interactions that evolved during the course of tissue distribution, which included interactions of EBUs with all tissue types, those EBUs that interacted selectively with specific organs or tissues with shared gene expression profiles or functionalities, and other EBUs that interacted in a tissue-selective manner. We demonstrated that landscape phage libraries are a rich collection of unique nanobioparticles that can be used to identify functional organ and tissue-binding elements after the evolution of a phage display library in vivo.
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Brichta, J., H. Vesela, and M. Franek. "Production of scFv recombinant fragments against 2,4-dichlorophenoxyacetic acid hapten using naďve phage library." Veterinární Medicína 48, No. 9 (March 30, 2012): 237–47. http://dx.doi.org/10.17221/5776-vetmed.

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Three single chain variable fragment (scFv) antibodies against 2,4-dichlophenoxyacetic acid (2,4-D) herbicide were produced by the Griffin1.library. The selection of the scFv from the phage library was carried out by 2,4-D-protein coated tubes with different levels of hapten substitution in the conjugate. The scFv phage clones were isolated within the five round library panning and the antibodies were expressed in Escherichia coli HB2151. The recombinant products were purified by metal affinity chromatography yielding 200 g of pure scFv per 1 liter of bacterial culture. The antibody fragments provided steep curves in conventional indirect ELISA having the IC<sub>50</sub> values from 10.2 to 14.5 ng/ml established for 2,4-D standard. Interestingly enough, the recombinant ScFv E1 antibody exhibited 68% cross-reactivity with 2,4-dichlorphenol (2,4-D = 100%), and 38.0% with methylchlorophenoxyacetic acid (MCPA) whereas reaction with other phenoxyacetic compounds was low. Similar characteristics were obtained for other two recombinant products. Low stability for the isolated scFv antibodies was found in storage buffer even in the presence of stabilizers and protease inhibitors. Factors influencing stability of the recombinant antibodies are discussed.
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Daniele, Sblattero, Not Tarcisio, Marzari Roberto, and Bradbury Andrew. "PHAGE ANTIBODY LIBRARY FROM CELIAC DISEASE PATIENT." Journal of Pediatric Gastroenterology & Nutrition 28, no. 5 (May 1999): 568. http://dx.doi.org/10.1097/00005176-199905000-00118.

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Barchan, D., M. Balass, M. C. Souroujon, E. Katchalski-Katzir, and S. Fuchs. "Identification of epitopes within a highly immunogenic region of acetylcholine receptor by a phage epitope library." Journal of Immunology 155, no. 9 (November 1, 1995): 4264–69. http://dx.doi.org/10.4049/jimmunol.155.9.4264.

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Abstract We have employed a hexapeptide phage-epitope library to identify epitopes for a mAb (mAb 5.14), which is directed to a determinant within a highly immunogenic, cytoplasmic region of the alpha-subunit of acetylcholine receptor (AChR). We have selected two different peptide-presenting phages (SWDDIR-phage and LWILTR-phage) which interact specifically with mAb 5.14. This interaction is specifically inhibited by AChR and by synthetic peptides corresponding to the hexapeptides presented by the selected phages. Although mAb 5.14 binds to AChR in its native as well as its denatured form, the selected hexapeptides do not exist as such in the AChR molecule. However, three amino acid sequence homologies with these hexapeptides were shown to be present in the cytoplasmic region of Torpedo AChR. By extending the selected hexapeptides, at one or both ends, with amino acid residues flanking the hexapeptides in the phage, we obtained mimotopes with an up to two order of magnitude higher affinity to the Ab. These extended peptides were able to efficiently block the binding of mAb 5.14 to both peptide-presenting phages, and to AChR.
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Duplessis, Martin, Céline M. Lévesque, and Sylvain Moineau. "Characterization of Streptococcus thermophilus Host Range Phage Mutants." Applied and Environmental Microbiology 72, no. 4 (April 2006): 3036–41. http://dx.doi.org/10.1128/aem.72.4.3036-3041.2006.

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ABSTRACT To investigate phage-host interactions in Streptococcus thermophilus, a phage-resistant derivative (SMQ-301R) was obtained by challenging a Tn917 library of phage-sensitive strain S. thermophilus SMQ-301 with virulent phage DT1. Mutants of phages DT1 and MD2 capable of infecting SMQ-301 and SMQ-301R were isolated at a frequency of 10−6. Four host range phage mutants were analyzed further and compared to the two wild-type phages. Altogether, three genes (orf15, orf17, and orf18) contained point mutations leading to amino acid substitutions and were responsible for the expanded host range. These three proteins were also identified in both phages by N-terminal sequencing and/or matrix-assisted laser desorption ionization-time-of-flight mass spectrometry. The results suggest that at least three phage structural proteins may be involved in phage-host interactions in S. thermophilus.
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Dissertations / Theses on the topic "Phage library"

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Bell, Matthew John. "Phage display of a cDNA library from Arabidopsis thaliana." Thesis, Coventry University, 2002. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.393652.

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Keklikian, Artine. "Construction of a Synthetic Human VL Phage Display Library and Isolation of Potential Neuropilin-1-specific VL Therapeutics from the Library." Thèse, Université d'Ottawa / University of Ottawa, 2011. http://hdl.handle.net/10393/20197.

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Antibody phage display technology mimics the natural immune system, and has been widely used for rapid isolation of single-domain antibodies (sdAbs) with various binding specificities and affinities in the micromolar to low nanomolar range. SdAbs are the variable regions of immunoglobulins (e.g., VH, VL, VHH) and serve as potential probes with therapeutic value. The small size, high solubility, high expression and stability, and high specificity and affinity for the cognate antigen, make sdAbs ideal in improving drug delivery and the overall therapeutic value of antibodies. The main objective of this thesis was to construct a large VL phage display library (~1010 diversity); analyze it via sequence analysis, and to subtractively pan the library for isolation of Neuropilin-1 (NRP1)-specific VLs. Neuropilin-1 (NRP1), a cell-surface receptor for both vascular endothelial growth factor (VEGF) and class 3 Semaphorins (Sema3A), contributes to neuron cell death through its interaction with Sema3A in stroke patients. Disruption of this NRP1-Sema3A interaction would allow for axonal outgrowth and neuron regeneration in the area of the brain affected by stroke. Construction of the synthetic phage antibody library utilized a single VL framework with selected positions in the complementarity-determining regions (CDRs) targeted for randomization in vitro using synthetic oligonucleotides that introduced sequence degeneracy. Specific VLs were then selected from the repertoire through subtractive panning against a cell line endogenously expressing NRP1 (PC12) as well as a negative cell line that does not express NRP1 (HEK293) with competitive elution carried out using a synthetic Sema3A-derived peptide. Fifteen VL clones were isolated, cloned in E. coli, expressed and purified, and of these, nine were determined to be non-aggregating by size exclusion chromatography. Further studies will determine the potential therapeutic use of these VL sdAbs as agents in recovery from stroke and neuron degeneration.
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Clayton, Ruth. "Generation and characterisation of human sperm antibodies by combinatorial phage display library technology." Thesis, University of Sheffield, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.286988.

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Hald, Rikke. "Generation and characterisation of a naive human antibody phage display library : a resource for clinically relevant reagents /." Cph. : Department of Pharmacology, The Danish University of Pharmaceutical Sciences, 2004. http://www.dfh.dk/phd/defences/rikkehald.htm.

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Prendergast, D. "Discovery of tumour necrosis factor receptor-1 (p55) binding peptides using a phage display library." Thesis, Queen's University Belfast, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.368468.

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Saxena, Abhishek. "Construction of immune scFv M13 phage display library and isolation of anti-glycan monoclonal antibodies." Thesis, University of Aberdeen, 2013. http://digitool.abdn.ac.uk:80/webclient/DeliveryManager?pid=203295.

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Lim, Theam Soon [Verfasser]. "Parameters affecting phage display library design for improved generation of human antibodies / Theam Soon Lim." Berlin : Freie Universität Berlin, 2009. http://d-nb.info/1023748355/34.

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Cortini, Andrea. "Serum profiling and autoantibodies identification in Multiple Sclerosis using epitope and CSF IgG phage display libraries." Doctoral thesis, Università degli studi di Trieste, 2009. http://hdl.handle.net/10077/3073.

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2007/2008
Multiple sclerosis (MS) is considered the prototype of inflammatory autoimmune diseases of the central nervous system (CNS). The typical feature of the disease is the plaques of demyelination. The evolution of the plaque lesion in MS implicates an inflammatory phase followed by a recovery of functional myelin; a second step is the chronic progressive disease with axonal loss. The earlier phase of MS may be mediated by an autoimmune reaction. Whereas the role of T cells in MS pathogenesis is well established, the role of B cells and autoantibodies in demyelination and plaque formation is still unresolved. However several evidences suggest a contribute of autoantibodies in MS pathogenesis. B cells and myelin specific autoantibodies are present in the sclerosis plaques, and there is an increased production of immunoglobulin (Ig) in the cerebrospinal fluid (CSF) of more than 90% of MS patients . Typically these Ig present an oligoclonal pattern and sequencing of oligoclonal IgG showed extensive somatic mutations suggesting B cell clonal expansion and a specific antigen-driven immune response. The most extensively studied putative autoantigens are components of CNS myelin (myelin basic protein MBP, proteolipid protein PLP, myelin oligodendrocyte glycoprotein MOG). The autoantibodies in MS recognize both linear and conformational epitopes, but at present the conformational epitopes of myelin proteins have not been identified. For example, in MS, the T-cell receptors of autoreactive T lymphocytes recognize various peptides of the MBP, and, in EAE, the anti-MOG antibodies recognize only conformational epitopes. Furthermore, the progression of MS is accompanied by the decline of primary T-cell autoreactivity and by the concurrent emergence of neo-autoreactivity (epitope spreading). However recent investigation have showed that no myelin antigens, like neuron-specific enolase (NSE), retinal arrestin, beta-arrestin, may also have a role in MS pathogenesis. Autoimmunity against these antigens may be linked to neurodegeneration, defective remyelination, and predisposition to uveitis in multiple sclerosis. Several strategies, involving the phage display technology, have been employed in the attempt to discover the antigen that drives the immune response in MS. A first strategy depends on the cloning of IgG repertoire of MS patients in a phage display library screened with brain sections or known antigens. Another strategy involves large phage display libraries of random peptides screened with IgG of CSF in order to identify peptides recognized by antibodies present in CSF of MS patients. Phage display is a technique which involves the coupling of phenotype to genotype in a selectable format. It has been extensively used in molecular biology to study protein-protein interactions and to select antibodies against a wide range of different antigens. In this project we have proposed: 1. to study the autoimmune response in MS by using the phage display for the expression of antibodies involved in the disease. We wanted to make a ScFv library from B cells of CSF of different multiple sclerosis patients, to employ as tool to select a phage display Human Brain cDNA library for the identification of new antigens recognized by the immune sistem in MS patients. 2. To produce single gene mini library of putative antigens (MBP,PLP, MOG) for the generation of epitope chips to use for serotyping the immune response in different patients 3. To investigate the feasibility to use a single gene phage display mini-library as tool for epitope mapping (both linear and conformational) of novels autoantigens 4. To investigate the role of NSE(neuron specific enolase), a new possible no myelin autoantigen in multiple sclerosis, in the pathogenesis of the disease and the usefulness as possible diagnostic marker. Results: Scope 1 B-cells from liquor of two MS patients were centrifuged and the total RNA was extracted from the pellets. Total RNA was retrotranscripted and variable region of heavy and light chain of the antibodies were amplified by PCR. Heavy chain and light chain were assorted and assembled before to be cloned in the phagemid vector pDAN 5. A 2x104 independent clones library was obtained and analyzed by PCR and fingerprinting. A diversity of 30,8% for heavy chain and 72,7% for light chain was established. ScFv library was used to select a phage display Human Brain cDNA library. 17 clones with an high reactivity were obtained and after sequencing 6 clones on 17 have shown to be the same antigen(antigen A ); the reactivity on other two antigens obtained with the selection (antigen B and C) of CSF from 18 MS patients and 16 patients with other neurological disease (OND) was tested by ELISA to evaluate diagnostic value of this protein. The results shown that SM response was statistically different from OND response; the ELISA test gave a specificity of 94,12% and a significance of 53,85 %. The reactivity for the antigen B was also evaluated on sera of MS patients and controls. The MS response was statistically different from OND response and shown a specificity of 97,44% and a significance of 58,62 %. Scope 2&3 We have generated three single gene mini libraries of the major antigens in MS (MBP, MOG and PLP); cDNA of each gene was obtained by RT-PCR and after fragmentation cloned in a phagemid vector (pEP1) to obtain a mini-library for each gene. We have obtained a 2x105 for MBP, 2.4x104 for MOG and 1.6x106 for PLP independent clones library. MBP and MOG libraries were characterized by PCR and fingerprinting. Sequencing analysis shown that the entire MBP transcript variant 7 mRNA (664-1177 nt) and MOG isoform alpha 1 mRNA (262-918 nt) were represented in the respective library. To testing the capacity of selecting a single epitope from our libraries, we have performed a selection test with a commercial monoclonal antibody that recognize MBP 82-98 epitope; after three selection panning all selected clones contain the nucleotidic sequence 906- 956 nt (MBP transcript variant 7 mRNA) which encodes the immunogenic epitope recognized by the monoclonal antibody. Scope 4 The reactivity of sera from 31 MS patients and 14 healthy controls was tested by ELISA on NSE ; statistical analysis of the results shown that the two populations were significantly different.
XXI Ciclo
1981
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Bosompem, Amma N. "Isolation of an anti-CD20 single chain variable fragment from a naïve human phage-scFv library." Connect to this title online, 2007. http://etd.lib.clemson.edu/documents/1202410076/.

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Marson, Lorena. "Phage-display epitope library development for biomarkers identification in autoimmune diseases of the Central Nervous System." Doctoral thesis, Università degli studi di Trieste, 2012. http://hdl.handle.net/10077/7405.

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2010/2011
The principal aim of my PhD was the setting of a protocol for the creation of phage libraries to display cDNA fragments encoding real ORF sequences, that could correspond to potential epitopes. A similar phage display library contains all the potential ORF repertoire of a cell or tissue. This tool can be specially used in the study of autoimmune diseases to perform different kind of analysis, such as the identification of epitopes involved in pathological reaction, the comparison between healthy and pathological conditions, or between different pathological conditions. A complex protocol was developed. It provides for: cDNA normalization, cDNA fragmentation to obtain peptides with useful size, and ORF enrichment to obtain really coding fragments. With this system we have created a epitopes library from Human brain mRNA.
Il principale obiettivo del mio lavoro di ricerca è la messa a punto di un protocollo per la costruzione di librerie fagiche di frammenti di cDNA codificanti per frammenti ORF, e che quindi potrebbero corrispondere a potenziali epitopi. Questo tipo di librerie contengono, potenzialmente, tutto il repertorio ORF di una cellula o di un tessuto e possono quindi essere utilizzate nello studio di malattie autoimmuni al fine di identificare nuovi epitopi coinvolti nella risposta immunitaria, di fare un confronto tra lo stato patologico e quello sano o tra diverse condizioni patologiche. Abbiamo quindi messo a punto un complesso protocollo che prevede: la normalizzazione del cDNA, la sua frammentazione per ottenere peptidi di dimensioni opportune, e l'arricchimento in frammenti realmente codificanti. Con questo sistema abbiamo realizzato una libreria di epitopi a partire da mRNA di cervello umano.
XXIV Ciclo
1984
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Books on the topic "Phage library"

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Tim, Clackson, and Lowman Henry B, eds. Phage display: A practical approach. Oxford: Oxford University Press, 2004.

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Clarke, Dougan & Associates. Library automation study: Feasibility phase : final report. [Waterloo, Ont.]: Clarke, Dougan & Associates, 1987.

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Beaumont, Jane. Bancroft Public Library: Needs assessment for library automation, APSL phase I report. [Bancroft, Ont.]: The Library, 1987.

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Consultants, Woods Gordon Management. Barrie Public Library facilities development study, phase II. [Toronto: Woods Gordon, 1989.

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Crawford, Walt. Patron Access Project, phase I. Stanford, Calif: Research Libraries Group, Research & Development Division, 1986.

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Crawford, Walt. Patron Access Project, phase I. Stanford, Calif: Research Libraries Group, Research & Development Division, 1986.

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Research Libraries Group. Research & Development Division., ed. Patron access project, phase I. Stanford, Calif: Research Libraries Group, Research & Development Division, 1986.

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Associates, Fox Jones &. Wainfleet Township Public Library facility feasibility study: Phase II report. [Wainfleet, Ont: Wainfleet Township Public Library, 1991.

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Fox Jones & Associates. Wainfleet Township Public Library needs assessment study: Phase I report. [Wainfleet, Ont: WTPL, 1990.

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Library, Fort Erie Public, and Information Technology Strategy Inc, eds. Fort Erie Public Library automation feasibility study: Phase 1 report. [Toronto, Ont: Information Technology Strategy Inc., 1988.

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Book chapters on the topic "Phage library"

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Midoro-Horiuti, Terumi, and Randall M. Goldblum. "Epitope Mapping with Random Phage Display Library." In Methods in Molecular Biology, 477–84. Totowa, NJ: Humana Press, 2014. http://dx.doi.org/10.1007/978-1-62703-992-5_28.

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Weil, Clifford F., and Thomas E. Bureau. "Construction of a Genomic Library in Lambda Phage." In The Maize Handbook, 595–98. New York, NY: Springer New York, 1994. http://dx.doi.org/10.1007/978-1-4612-2694-9_105.

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Fagerlund, Annette, Astrid Hilde Myrset, and Mari Ann Kulseth. "Construction of a Filamentous Phage Display Peptide Library." In Methods in Molecular Biology, 19–33. Totowa, NJ: Humana Press, 2013. http://dx.doi.org/10.1007/978-1-62703-673-3_2.

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Samoylova, Tatiana I., and Bruce F. Smith. "Identification of Cell Targeting Ligands Using Random Peptide-Presenting Phage Libraries." In Genetic Library Construction and Screening, 209–31. Berlin, Heidelberg: Springer Berlin Heidelberg, 2002. http://dx.doi.org/10.1007/978-3-642-56408-6_11.

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Addepalli, Balasubrahmanyam, Suryadevara Rao, and Arthur G. Hunt. "Phage Display Library Screening for Identification of Interacting Protein Partners." In Methods in Molecular Biology, 147–58. New York, NY: Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-2175-1_13.

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Omar, Noorsharmimi, and Theam Soon Lim. "Construction of Naive and Immune Human Fab Phage-Display Library." In Methods in Molecular Biology, 25–44. New York, NY: Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7447-4_2.

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Chen, Peng-Hsun Chase, and Wenshe Ray Liu. "The Construction of a Genetically Encoded, Phage-Displayed Cyclic-Peptide Library." In Methods in Molecular Biology, 219–30. New York, NY: Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1617-8_17.

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Zhu, Kejia, Shanshan Wu, Hailing Ma, Ke Wu, Wenhui Ji, Shifei Yang, Xiaolan Fu, et al. "Screening of Ochratoxin a mimotopes in phage random 7-peptide library." In Advances in Civil Engineering and Environmental Engineering, Volume 2, 45–49. London: CRC Press, 2023. http://dx.doi.org/10.1201/9781003383031-8.

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Summer, Elizabeth J. "Preparation of a Phage DNA Fragment Library for Whole Genome Shotgun Sequencing." In Methods in Molecular Biology, 27–46. Totowa, NJ: Humana Press, 2009. http://dx.doi.org/10.1007/978-1-60327-565-1_4.

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Jakob, Valentin, Saskia Helmsing, Michael Hust, and Martin Empting. "Restriction-Free Construction of a Phage-Presented Very Short Macrocyclic Peptide Library." In Methods in Molecular Biology, 95–113. New York, NY: Springer US, 2019. http://dx.doi.org/10.1007/978-1-4939-9853-1_6.

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Conference papers on the topic "Phage library"

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Spitzer, S. G., P. Usharani, A. D. Roser, C. K. Kasper, and S. G. Bajaj. "THE CATALYTIC TRIAD RESIDUES (HIS221, ASP269, SER365) AND THE BINDING POCKET RESIDUE (ASP359) IN FACTOR IXBm ELSINORE (IXBmLE) ARE NOT ALTERED." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644071.

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Previous studies suggested that the defect in IXBmLE (a nonfunctional variant of human IX) is either in the catalytic triad or at the site(s) of interaction with the macromolecular substrates (antithrombin III, factor VII or factor X). To distinguish between these possibilities, we isolated a complete IX cDNA clone from a human liver cDNA library. We also constructed a genomic library (in phage EMBL3) using DNA of the BmLE patient. The library was screened with normal IX cDNA and with synthetic oligonucleotides. The positive clones containing the exons coding for IX were plaque purified. Two clones which contained the coding sequence of the catalytic domain, i.e., His221 (exon VII), and Asp269, Asp359, and Ser365 (exon VIII) were selected for further studies. The phage containing exon VIII was first digested with Sail and EcoRI and a 2-Kb fragment, which hybridized with the segment of cDNA containing exon VIII, was gel purified. The 2-Kb fragment was further digested and the subfragments were cloned into M13; the length and direction of the fragments used in sequencing are shown below:The phage containing exon VII was digested with PstI and SalI, and a 1-Kb fragment that hybridized with the 19-mer His221 probe was subcloned into M13 phage for sequencing. The sequence starting with residue Vall96 through residue Arg403 was found to be normal. Thus, none of the residues in the catalytic domain of IXBmLE are different from that of normal IX. These data provide strong indirect evidence that the noncatalytic aminoterminal portion of IX plays a significant role in the structural recognition of the macromolecular substrates. The sequence of this region of IXBmLE should provide information about the putative residue(s) essential for this recognition.
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Jones, Kelvin M., Rajeev Samant, Shree Singh, and Deepa Bedi. "Abstract 1078: Identification of peptides binding to mesenchymal subtype breast cancer from phage display peptide library." In Proceedings: AACR Annual Meeting 2018; April 14-18, 2018; Chicago, IL. American Association for Cancer Research, 2018. http://dx.doi.org/10.1158/1538-7445.am2018-1078.

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Bezerra, Marcus, Andrea Maranhao, Igor Studart, Larissa Pontes, Marcela Fonseca, and Gilvan Furtado. "Construction of a scFv library using directed evolution for rituximab-based therapies: using phage display towards antibody affinity maturation." In IV International Symposium on Immunobiologicals & VII Seminário Anual Científico e Tecnológico. Instituto de Tecnologia em Imunobiológicos, 2019. http://dx.doi.org/10.35259/isi.sact.2019_32708.

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Ding, Huihua, Fan-Lin Wu, Dan-Yun Lai, Yuan-Jia Tang, Zhao-Wei Xu, Ming-Liang Ma, Shu-Juan Guo, et al. "165 Identification of serum biomarkers for systemic lupus erythematosus using a library of phage displayed random peptides and deep sequencing." In 13th International Congress on Systemic Lupus Erythematosus (LUPUS 2019), San Francisco, California, USA, April 5–8, 2019, Abstract Presentations. Lupus Foundation of America, 2019. http://dx.doi.org/10.1136/lupus-2019-lsm.165.

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Ploos van Amstel, J. K., A. L. van der Zanden, E. Bakker, P. H. Reitsma, and R. M. Bertina. "INDEPENDENT ISOLATION OF HUMAN PROTEIN S cDNA AND THE ASSIGNMENT OF THE GENE TO CHROMOSOME 3." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644638.

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Protein S is a vitamin K-dependent glycoprotein, that serves as a cofactor of activated protein C. A hereditary deficiency in protein S is associated with an increased risk for the development of venous thrombosis. The deficiency is inherited as an autosomal dominant trait. We isolated a cDNA coding for protein S and assigned its gene to chromosome 3.A human liver cDNA library in phage xgtll (complexity 1.2 × 106 , D. Stafford, Chapel Hill) was screened by using immuno-purifiedpolyclonal anti-protein S IgG as a probe. Approximately 1.5 x 10 recombinants of the amplified library were screened. Out of eighteen positive clones one clone was found, after nucleotide sequence analysis, to code for a peptide with a high degree of homology with the carboxy terminal region of the already published bovine protein S. This clone pSP84 (450 bp) was used as a probe to screen a human liver cDNA library in plasmid pUC9. From this library we isolated several positive clones. Clone pSUL5 contained the largest insert (2200 base pairs). Dideoxy sequencing revealed that it codes for 330 amino acids of the carboxy terminal part of protein S. Furthermore, it contained a 1200 base pairs 3' untranslated region. The predicted amino acid sequence did not differ from the published sequence of human protein S, although at the nucleotide level some differences could be detected.Clone pSUL5 was used to localize the protein S gene to its chromosome. The assignment was done by hybridization to Pst I digested DNA from human-hamster c.q. human-mouse somatic cell hybrids. In this way we got strong indication that the protein S gene is located on chromosome 3.
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Ahmed, Kafil, Vyankatesh Pidiyar, Syed Ahmed, and Sanket Shah. "Development of anti-SARS-CoV-2 specific scFv antibody library from convalescent plasma of COVID-19 recovered patients using phage display technology." In International Symposium on Immunobiological. Instituto de Tecnologia em Imunobiológicos, 2021. http://dx.doi.org/10.35259/isi.2021_46568.

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Pearson, Hannah. "Making Collection Management Manageable: A Three-Phase Approach to an Annual Subscription Review." In Charleston Library Conference. Purdue Univeristy, 2020. http://dx.doi.org/10.5703/1288284317143.

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Annual subscription reviews are a normal part of many libraries’ operations, but this process is time consuming and can be particularly challenging for institutions with small e-resources staffs. The approach pursued by the Michael Schwartz Library at Cleveland State University includes strategies other libraries may find helpful in moving beyond cost per use in their reviews. In early fiscal year 2019, the Michael Schwartz Library identified a need to systematically review all subscriptions annually. The library operates with a flat budget and cancellations are often required to manage inflation. Previously, subscription reviews were in response to immediate needs (e.g. budget cuts, changes in consortium offerings, etc.). Largely due to staffing and time constraints, examining the entire corpus of subscriptions was outside of the scope of past reviews. A new subscription review process was developed to prepare the library to make data-driven decisions regarding cancellations for the next fiscal year. The methodology developed for the new subscription review consisted of three phases with each phase narrowing the number of resources considered for cancellation. The first phase was an evaluation of resource performance from an acquisitions perspective and incorporated cost per use and annual price increases. In the next phase, subject librarians evaluated resources in their respective disciplines based on several criteria and were required to rank resources in order of retention priority. In the final phase, faculty were surveyed on content quality, frequency of use in instruction, and other criteria for those resources deemed “cancellation eligible.”
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Orcutt, Darby. "The User‐Driven Collection 4.0: The Next Phase in User‐Driven Monographic Acquisition." In Charleston Library Conference. Purdue University Press, 2016. http://dx.doi.org/10.5703/1288284316286.

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Huber, P., J. Dalmon, M. Laurent, G. Courtois, D. Thevenon, and G. Marguerie. "CHARACTERIZATION OFTHE 5’FLANKING REGION FOR THE HUMAN FIBRINOGEN β GENE." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1642889.

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Fibrinogen is coded by three separate genes located in a 50kb region of chromosome 4 and organized in a α - β - γ orientation with an inversion of the gene 3- A human genomic library was constructed using the EMBL4 phage and screened with cDNA probes coding for human fibrinogen Aα, Bβ and γ chains. Clones, covering the fibrinogen locus,were identified, and their organization was analyzed by means of hybridization and restriction mapping. Among these clones one recombinant phage containing the β gene and large 5’ and 3’ -flanking sequences was isolated.To identify the regulatory sequences Dpstream from the human β gene, a 1.5 kb fragment of the immediate 5’-flanking region was sequenced. The SI mapping experiments revealed three transcription initiation sites. PotentialTATA and CAAT sequences were identified upstream the initiation start points at the positions -21 and -58 from the first initiation start point.Comparison of this sequence with that previously reported for the same region upstream from the human γ gene revealed no significant homology which suggests that the potential promoting sequences of these genes are different. In contrast, comparison of the 5’flanking regions of human and rat β genes showed more than 80% homology for 142 bp upstream from the gene. This highly conserved region is a potential candidate for a regulatory sequence of the human β gene.To verify this activity, a β fibrinogen minigene was constructed by deletion of the internal part of the normal gene and including 3.4kb of the 5’flanking region and 1.4kb of the 3’flanking region. The minigene was transfected into HepG2, a human hepatoma cell line, to show whether the 5’flanking region of the human fibrinogen gene contains DNA sequences sufficient for efficient transcription in HepG2. Constructions of several parts of the sequenced 5’flanking region of the human β gene with the gene of the chloramphenical acetyl transferase have been also transfected in the HepG2 cells to determine the specificity of the gene expression and to localize the sequences controlling the transcription of the gene.
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Rathemacher, Andrée, Robert Heaton, Noah Levin, and Christine Stohn. "Six Impossible Things: Moving KBART into the Next Decade." In Charleston Library Conference. Purdue Univeristy, 2020. http://dx.doi.org/10.5703/1288284317173.

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KBART is one of the most successful NISO recommendations today. Formally supported by over 80 organizations across all stakeholder groups, it enables a standardized transfer of data between content providers and knowledge bases. Most recently KBART added an automated process to transfer holdings data to localize an institution’s knowledge base holdings. While KBART was originally built to focus on journal and book data, the world has moved on—the different flavors and nuances of open access, the increased use of audiovisual material, holdings at the chapter and article levels, and issues around translations, transliterations, and author names are just some of the challenges that are disrupting the flow. So what is next for KBART? How does it adapt to continue to solve the data flow problems that libraries, publishers, and knowledge base providers face today? The presenters in this session, all members of the NISO KBART Standing Committee and/or the KBART Automation Working Group, discuss the status and future of a “Phase III” revision of NISO KBART that aims not only to clarify the existing recommendations but also to expand them to address the new challenges, including the support of additional content types beyond serials and monographs and improvements to item-level discovery and access.
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Reports on the topic "Phage library"

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Pai, Jih T. Tumor Targeting with Phage Library. Fort Belvoir, VA: Defense Technical Information Center, July 2000. http://dx.doi.org/10.21236/ada383701.

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Siciliano, E. R., and E. D. Arthur. Medium-Energy Nuclear Data Library (MENDLIB): Phase 1. Office of Scientific and Technical Information (OSTI), October 1987. http://dx.doi.org/10.2172/5978252.

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Ciezki, John G., and Robert W. Ashton. PEBB Feedback Control Low Library. Volume 1: Three-Phase Inverter Control Algorithms. Fort Belvoir, VA: Defense Technical Information Center, January 1999. http://dx.doi.org/10.21236/ada360711.

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Baughman, Sue, Ava Brillat, Gordon Daines, Greg Davis, Stephanie JH McReynolds, Margaret Roller, and Kevin Borden. Building a Community of Assessment: Final Report of the Research Library Impact Framework Pilot Initiative. Association of Research Libraries, March 2023. http://dx.doi.org/10.29242/report.rlif2023.

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The Association of Research Libraries (ARL) Research Library Impact Framework (RLIF) pilot initiative, established in 2019, has released its final report, Building a Community of Assessment. The report details the research projects, findings, and lessons learned conducted under the pilot phase of this framework. It also includes information about the framework itself as a means to explore and learn about research library impacts. Finally, the report identifies next steps and potential considerations for any future implementation. The RLIF provides a structure to examine library services, operations, impact, and alignment with institutional mission and goals across four critical areas: Research and Scholarly Life Cycle; Teaching, Learning, and Student Success; Collections; and Physical Space. The full framework includes 185 potential research questions across these critical areas. However, the framework is also meant to be flexible and modular, allowing for modifications and adjustments based on salient issues facing research libraries. In this way, the framework serves as a tool to organize and prioritize research efforts.
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Eyal, Yoram, and Sheila McCormick. Molecular Mechanisms of Pollen-Pistil Interactions in Interspecific Crossing Barriers in the Tomato Family. United States Department of Agriculture, May 2000. http://dx.doi.org/10.32747/2000.7573076.bard.

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During the evolutionary process of speciation in plants, naturally occurring barriers to reproduction have developed that affect the transfer of genes within and between related species. These barriers can occur at several different levels beginning with pollination-barriers and ending with hybrid-breakdown. The interaction between pollen and pistils presents one of the major barriers to intra- and inter-specific crosses and is the focus of this research project. Our long-term goal in this research proposal was defined to resolve questions on recognition and communication during pollen-pistil interactions in the extended tomato family. In this context, this work was initiated and planned to study the potential involvement of tomato pollen-specific receptor-like kinases (RLK's) in the interaction between pollen and pistils. By special permission from BARD the objectives of this research were extended to include studies on pollen-pistil interactions and pollination barriers in horticultural crops with an emphasis on citrus. Functional characterization of 2 pollen-specific RLK's from tomato was carried out. The data shows that both encode functional kinases that were active as recombinant proteins. One of the kinases was shown to accumulate mainly after pollen germination and to be phosphorylated in-vitro in pollen membranes as well as in-vivo. The presence of style extract resulted in dephosphorylation of the RLK, although no species specificity was observed. This data implies a role for at least one RLK in pollination events following pollen germination. However, a transgenic plant analysis of the RLK's comprising overexpression, dominant-negative and anti-sense constructs failed to provide answers on their role in pollination. While genetic effects on some of the plants were observed in both the Israeli and American labs, no clear functional answers were obtained. An alternative approach to addressing function was pursued by screening for an artificial ligand for the receptor domain using a peptide phage display library. An enriched peptide sequence was obtained and will be used to design a peptide-ligand to be tested for its effect o pollen germination and tube growth. Self-incompatibility (SI) in citrus was studied on 3 varieties of pummelo. SI was observed using fluorescence microscopy in each of the 3 varieties and compatibility relations between varieties was determined. An initial screen for an S-RNase SI mechanism yielded only a cDNA homologous to the group of S-like RNases, suggesting that SI results from an as yet unknown mechanism. 2D gel electrophoresis was applied to compare pollen and style profiles of different compatibility groups. A "polymorphic" protein band from style extracts was observed, isolated and micro-sequenced. Degenerate primers designed based on the peptide sequence date will be used to isolate the relevant genes i order to study their potential involvement in SI. A study on SI in the apple cultivar Top red was initiated. SI was found, as previously shown, to be complete thus requiring a compatible pollinator variety. A new S-RNase allele was discovered fro Top red styles and was found to be highly homologous to pear S-RNases, suggesting that evolution of these genes pre-dated speciation into apples and pears but not to other Rosaceae species. The new allele provides molecular-genetic tools to determine potential pollinators for the variety Top red as well as a tool to break-down SI in this important variety.
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Pinelli, Thomas E., John M. Kennedy, and Terry F. White. NASA/DoD Aerospace Knowledge Diffusion Research Project. Report Number 10. Summary Report to Phase 3 Academic Library Respondents Including Frequency Distributions. Fort Belvoir, VA: Defense Technical Information Center, August 1991. http://dx.doi.org/10.21236/ada252069.

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Epel, Bernard L., Roger N. Beachy, A. Katz, G. Kotlinzky, M. Erlanger, A. Yahalom, M. Erlanger, and J. Szecsi. Isolation and Characterization of Plasmodesmata Components by Association with Tobacco Mosaic Virus Movement Proteins Fused with the Green Fluorescent Protein from Aequorea victoria. United States Department of Agriculture, September 1999. http://dx.doi.org/10.32747/1999.7573996.bard.

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The coordination and regulation of growth and development in multicellular organisms is dependent, in part, on the controlled short and long-distance transport of signaling molecule: In plants, symplastic communication is provided by trans-wall co-axial membranous tunnels termed plasmodesmata (Pd). Plant viruses spread cell-to-cell by altering Pd. This movement scenario necessitates a targeting mechanism that delivers the virus to a Pd and a transport mechanism to move the virion or viral nucleic acid through the Pd channel. The identity of host proteins with which MP interacts, the mechanism of the targeting of the MP to the Pd and biochemical information on how Pd are alter are questions which have been dealt with during this BARD project. The research objectives of the two labs were to continue their biochemical, cellular and molecular studies of Pd composition and function by employing infectious modified clones of TMV in which MP is fused with GFP. We examined Pd composition, and studied the intra- and intercellular targeting mechanism of MP during the infection cycle. Most of the goals we set for ourselves were met. The Israeli PI and collaborators (Oparka et al., 1999) demonstrated that Pd permeability is under developmental control, that Pd in sink tissues indiscriminately traffic proteins of sizes of up to 50 kDa and that during the sink to source transition there is a substantial decrease in Pd permeability. It was shown that companion cells in source phloem tissue export proteins which traffic in phloem and which unload in sink tissue and move cell to cell. The TAU group employing MP:GFP as a fluorescence probe for optimized the procedure for Pd isolation. At least two proteins kinases found to be associated with Pd isolated from source leaves of N. benthamiana, one being a calcium dependent protein kinase. A number of proteins were microsequenced and identified. Polyclonal antibodies were generated against proteins in a purified Pd fraction. A T-7 phage display library was created and used to "biopan" for Pd genes using these antibodies. Selected isolates are being sequenced. The TAU group also examined whether the subcellular targeting of MP:GFP was dependent on processes that occurred only in the presence of the virus or whether targeting was a property indigenous to MP. Mutant non-functional movement proteins were also employed to study partial reactions. Subcellular targeting and movement were shown to be properties indigenous to MP and that these processes do not require other viral elements. The data also suggest post-translational modification of MP is required before the MP can move cell to cell. The USA group monitored the development of the infection and local movement of TMV in N. benthamiana, using viral constructs expressing GFP either fused to the MP of TMV or expressing GFP as a free protein. The fusion protein and/or the free GFP were expressed from either the movement protein subgenomic promoter or from the subgenomic promoter of the coat protein. Observations supported the hypothesis that expression from the cp sgp is regulated differently than expression from the mp sgp (Szecsi et al., 1999). Using immunocytochemistry and electron microscopy, it was determined that paired wall-appressed bodies behind the leading edge of the fluorescent ring induced by TMV-(mp)-MP:GFP contain MP:GFP and the viral replicase. These data suggest that viral spread may be a consequence of the replication process. Observation point out that expression of proteins from the mp sgp is temporary regulated, and degradation of the proteins occurs rapidly or more slowly, depending on protein stability. It is suggested that the MP contains an external degradation signal that contributes to rapid degradation of the protein even if expressed from the constitutive cp sgp. Experiments conducted to determine whether the degradation of GFP and MP:GFP was regulated at the protein or RNA level, indicated that regulation was at the protein level. RNA accumulation in infected protoplast was not always in correlation with protein accumulation, indicating that other mechanisms together with RNA production determine the final intensity and stability of the fluorescent proteins.
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