gebhart/patrepeval huggingface dataset:
An S-Layer Heavy Chain Camel Antibody Fusion Protein for Generation of a Nanopatterned Sensing Layer To Detect the Prostate-Specific Antigen by Surface Plasmon Resonance Technology (2004)

The bacterial cell surface layer (S-layer) protein of Bacillus sphaericus CCM 2177 assembles into a square lattice structure and recognizes a distinct type of secondary cell wall polymer (SCWP) as the proper anchoring structure in the rigid cell wall layer. For generating a nanopatterned sensing layer with high density and well defined distance of the ligand on the outermost surface, an S-layer fusion protein incorporating the sequence of a variable domain of a heavy chain camel antibody directed against prostate-specific antigen (PSA) was constructed, produced, and recrystallized on gold chips precoated with thiolated SCWP. The S-layer protein moiety consisted of the N-terminal part which specifically recognized the SCWP as binding site and the self-assembly domain. The PSA-specific variable domain of the camel heavy chain antibody was selected by several rounds of panning from a phage display library of an immunized dromedary, and was produced by heterologous expression in Escherichia coli. For construction of the S-layer fusion protein, the 3'-end of the sequence encoding the C-terminally truncated form rSbpA(31)(-)(1068) was fused via a short linker to the 5'-end of the sequence encoding cAb-PSA-N7. The S-layer fusion protein had retained the ability to self-assemble into the square lattice structure. According to the selected fusion site in the SbpA sequence, the cAb-PSA-N7 moiety remained located on the outer surface of the protein lattice. After recrystallization of the S-layer fusion protein on gold chips precoated with thiolated SCWP, the monomolecular protein lattice was exploited as sensing layer in surface plasmon resonance biochips to detect PSA.
Migratory functions of natural killer cells. (1997)

In numerous investigations it has been found that natural killer (NK) cells are among the cells arriving early at the site of defense. To reach the tissue sites of defense, the circulating NK cells have to penetrate through the capillary wall and actively migrate along the matrix proteins towards the tumor or infected target cells. For this process NK cells need adhesion receptors which do not anchor them but allow reversible binding. The migration capacity of NK cells is found to be higher than that of other lymphocytes. NK cells also have the ability to increase rapidly the migratory response. IL-2 and a peptide derived from ICAM-2 are potential inducers of NK cell migration. ICAM-2 is expressed on endothelium, a site where lymphocytes start migration. Also, a matrix protein, fibronectin, increases NK cell migration. This review focuses on the migratory capacity of NK cells and on the receptors which NK cells use when they migrate on different substrata.
Channel routing by constraint logic (1992)

Article Free Access Share on Channel routing by constraint logic Author: Nicholas C. Philips View Profile Authors Info & Claims SAC '92: Proceedings of the 1992 ACM/SIGAPP Symposium on Applied computing: technological challenges of the 1990'sApril 1992Pages 536–540https://doi.org/10.1145/143559.143684Published:01 April 1992Publication History 0citation174DownloadsMetricsTotal Citations0Total Downloads174Last 12 Months9Last 6 weeks1 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
[Preferential flow and its effect on solute migration in soil]. (2001)

The characteristics of soil preferential flow and the preferential migrate in soil for non-absorptive bromide and nitrate ions were studied. With undisturbed and packed soil columns, the results showed that soil preferential flow was characterized with preferential breakthrough, non-symmetric breakthrough curve, lateral infiltration, tailing and so on. The preferential breakthrough for Br- was 24 hours after it was applied, and the leachate volume was only 0.04 times as-much as the pore volumes. The preferential flow for Br- accounted for 26% of total flux in the undisturbed soil columns. But the accumulative leachate mass for Br- resulted from the preferential flow were 86.7% of total accumulative leachate mass, showing that the soil preferential flow accounted for relative small ratio of the flux, but caused relative much more solute transference. NO3- was moved down rapidly by preferential flow at only one time as large as pore volumes, and got 11% of the applied amount, respectively. As a result of the preferential flow, the lateral infiltration flow enabled Br- and NO3- rapidly distribute and diffuse into the deeper soil.
Vasovagal syncope and severe bradycardia following intranasal dexmedetomidine for pediatric procedural sedation (2014)

We report syncope and bradycardia in an 11-year-old girl following administration of intranasal dexmedetomidine for sedation for a voiding cystourethrogram. Following successful completion of VCUG and a 60-min recovery period, the patient's level of consciousness and vital signs returned to presedation levels. Upon leaving the sedation area, the patient collapsed, with no apparent inciting event. The patient quickly regained consciousness and no injury occurred. The primary abnormality found was persistent bradycardia, and she was admitted to the hospital for telemetric observation. The bradycardia lasted ~2 h, and further cardiac workup revealed no underlying abnormality. Unanticipated and previously unreported outcomes may be witnessed as we expand the use of certain sedatives to alternative routes of administration.
Inhibins, Activins, and Follistatins: The Saga Continues (1997)

In 1991, I co-authored a minireview which appeared in this journal and dealt with two protein factors that had recently been isolated from ovarian follicular fluid (1). The two proteins, activin and follistatin, were discovered in the context of their effects on the reproductive system to stimulate and inhibit, respectively, the secretion of follicle-stimulating hormone (FSH) from the anterior pituitary gland (2–5).
Opsonic activity of intravenous immunoglobulin preparations against Staphylococcus epidermidis. (1986)

Peritoneal dialysis effluent collected from patients undergoing continuous ambulatory peritoneal dialysis had no opsonic activity against Staphylococcus epidermidis and contained low concentrations of IgG and C3 (roughly equal to those found in 0.5% normal human serum). An intravenous immunoglobulin preparation that showed no opsonic activity against the same organism, on its own or when added to balanced salt solution or peritoneal dialysis fluid, showed good activity when combined with peritoneal dialysis effluent. This was probably due to the presence of low concentrations of C3 in the effluent as prior heat inactivation at 56 degrees C for 30 minutes eliminated any opsonic activity in the immunoglobulin-dialysis effluent mixture. Examination of a range of immunoglobulin preparations showed that their opsonic activity for S epidermidis in the absence of complement varied considerably. Luminol dependent chemiluminescence was unsatisfactory as a method for detecting complement independent immunoglobulin mediated opsonisation. Intravenous immunoglobulin preparations may be useful in boosting the peritoneal defences of those patients undergoing continuous ambulatory peritoneal dialysis (CAPD) who suffer from repeated intraperitoneal infections.
Subclinical Late Cardiomyopathy After Doxorubicin Therapy for Lymphoma in Adults (2004)

Cardiac abnormalities can occur in patients treated with doxorubicin for lymphoma in the absence of CHF, even in patients who received moderate anthracycline doses. Male sex, older age, higher dose of doxorubicin, radiotherapy, and being overweight were risk factors for the development of cardiomyopathy.
The origin and properties of free cholesterol potential gradients in plasma, and their relation to atherogenesis (1984)

TABLE 1. Thermodynamic constants for free cholesterol unidirectionat transfer in cell membranes and model systems Diffusion(J, moIes.cm-'.sec-')Activation energy (AG, kcalmole-') Jtheor 2 x 1 0 -l ~ AGtheor 14.0 Jcells-plasma 1 x 1 0 -l ~ AGcelIs-plnsina 11.0 Jvesicle-vesicle 4 x 1 0 -l ~ AGvesicle-vesicle 8-16Jtlleor is the diffusion rate calculated from Fick's law (J = DAc/x) where D is the lateral diffusion constant of free cholesterol (8 X cm2 sec-I), Ac is the critical micelle concentration of free cholesterol (3 X lo-" moles ~m -~) ,
A Buffer Management Strategy for a Model of Digital Continuous Media Display (2005)

The advent of multimedia information processing has brottght a lot of information managnnent issues into attention in the past few years. Prominent among them include the efficient storage and retrieval of multimedia objects. When handling digital continuous media, these issues become more critical. An efficient storage and retrieval process becnmrs useful and meaningful when combined with efficient buffer management. The bu.fftr acquisition and retention mechanisms go a long way to achieving the display requirements. Here, we present a technique for continuous media displays that strive to maintain some degree of data availability thro1tgh efficient buffer management. Media displrzy factors are deN/oped for data acquisition and buffer retention to satisfy media display requirements.
Instruction issue logic for high-performance, interruptable pipelined processors (1998)

Article Instruction issue logic for high-performance, interruptable pipelined processors Share on Authors: Gurindar S. Sohi Computer Sciences Department, University of Wisconsin-Madison, 1210 West Dayton Street, Madison, Wisconsin Computer Sciences Department, University of Wisconsin-Madison, 1210 West Dayton Street, Madison, WisconsinView Profile , Sriram Vajapeyam Computer Sciences Department, University of Wisconsin-Madison, 1210 West Dayton Street, Madison, Wisconsin Computer Sciences Department, University of Wisconsin-Madison, 1210 West Dayton Street, Madison, WisconsinView Profile Authors Info & Claims ISCA '98: 25 years of the international symposia on Computer architecture (selected papers)August 1998 Pages 329–336https://doi.org/10.1145/285930.285992Published:01 August 1998 0citation415DownloadsMetricsTotal Citations0Total Downloads415Last 12 Months3Last 6 weeks0 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access
Unroll-and-jam for imperfectly-nested loops in DSP applications (2000)

Article Free Access Share on Unroll-and-jam for imperfectly-nested loops in DSP applications Authors: Yonghong Song Department of Computer Sciences, Purdue University, West Lafayette, IN Department of Computer Sciences, Purdue University, West Lafayette, INView Profile , Yuan Lin Starcore Technology Center, 2100 Riveredge Parkway, Suite 600, Atlanta, GA Starcore Technology Center, 2100 Riveredge Parkway, Suite 600, Atlanta, GAView Profile Authors Info & Claims CASES '00: Proceedings of the 2000 international conference on Compilers, architecture, and synthesis for embedded systemsNovember 2000 Pages 148–156https://doi.org/10.1145/354880.354901Online:01 November 2000Publication History 2citation239DownloadsMetricsTotal Citations2Total Downloads239Last 12 Months8Last 6 weeks2 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Covalent crosslinking of tRNA1Val to 16S RNA at the ribosomal P site: identification of crosslinked residues. (1982)

N-Acetylvalyl-tRNA1Val (AcVal-tRNA1Val) was bound to the P site of uniformly 32P-labeled 70S ribosomes from Escherichia coli and crosslinked to 16S RNA in the 30S ribosomal subunit by irradiation with light of 300-400 nm. To identify the crosslinked nucleotide in 16S RNA. AcVal-tRNA1Val-16S [32P]RNA was digested completely with RNase T1 and the band containing the covalently attached oligonucleotides from tRNA and rRNA was isolated by polyacrylamide gel electrophoresis. The crosslinked oligonucleotide, and the 32P-labeled rRNA moiety released from it by photoreversal of the crosslink at 254 nm, were then analyzed by secondary hydrolysis with pancreatic RNase A and RNase U2. The oligonucleotide derived from 16S RNA was found to be the evolutionarily conserved sequence, U-A-C-A-C-A-C-C-G1401, and the nucleotide crosslinked to tRNA1Val, C1400. The identity of the covalently attached residue in the tRNA was established by using AcVal-tRNA1Val-16S RNA prepared from unlabeled ribosomes. This complex was digested to completion with RNase T1 and the resulting RNA fragments were labeled at the 3' end with [5'-32P]pCp. The crosslinked T1 oligonucleotide isolated from the mixture yielded one major end-labeled component upon photoreversal. Chemical sequence analysis demonstrated that this product was derived from the anticodon-containing pentadecanucleotide of tRNA1Val, C-A-C-C-U-C-C-C-U-cmo5U-A-C-m6A-A-G39(cmo5U, 5-carboxymethoxyuridine). A similar study of the crosslinked oligonucleotide revealed that the residue covalently bound to 16S was cmo5U34, the 5' or wobble base of the anticodon. The adduct is believed to result from formation of a cyclobutane dimer between cmo5U34 of tRNA1Val and C1400 of the 16S RNA.
Targeted relaxation enhancement agents for MRI (1991)

The design, relative merits, and initial applications of targeted relaxation enhancement agents, a new form of MRI contrast media, are briefly discussed. These agents are designed to bind reversibly to target macromolecules in a tissue of interest, thus enhancing water proton relaxation efficiency and MRI contrast. Initial applications for targeted agents include blood pool and hepatobiliary imaging.
TRANSDERMAL DRUG DELIVERY SYSTEM: AN OVERVIEW (2010)

Today about 74% of drugs are taken orally and are found not to be as effective as desired. To improve such characters transdermal drug delivery system was emerged. Drug delivery through the skin to achieve a systemic effect of a drug is commonly known as transdermal drug delivery and differs from traditional topical drug delivery. Transdermal drug delivery systems (TDDS) are dosage forms involves drug transport to viable epidermal and or dermal tissues of the skin for local therapeutic effect while a very major fraction of drug is transported into the systemic blood circulation. The adhesive of the transdermal drug delivery system is critical to the safety, efficacy and quality of the product. Topical administration of therapeutic agents offers many advantages over conventional oral and invasive methods of drug delivery. Several important advantages of transdermal drug delivery are limitation of hepatic first pass metabolism, enhancement of therapeutic efficiency and maintenance of steady plasma level of the drug. This article provides an overview of types of Transdermal patches, methods of preparation and its physicochemical methods of evaluation.
Plus-origin mapping of single-stranded DNA plasmid pE194 and nick site homologies with other plasmids (1990)

Staphylococcus aureus plasmid pE194 manifests a natural thermosensitivity for replication and can be established in several species, both gram positive and gram negative, thus making it attractive for use as a delivery vector. Like most characterized plasmids of gram-positive bacteria, pE194 generates single-stranded DNA. The direction of pE194 replication is clockwise, as determined by the strandedness of free single-stranded DNA. Significant homology exists between a 50-base-pair sequence in the origin of pE194 and sequences present in plasmids pMV158 (Streptococcus agalactiae), pADB201 (Mycoplasma mycoides), and pSH71 (Lactococcus lactis). We used an initiation-termination reaction, in which pE194 initiates replication at its own origin and is induced to terminate at the related pMV158 sequence, to demonstrate that pE194 replicates by a rolling-circle mechanism; the initiation nick site was localized to an 8-base-pair sequence.
Comparison of the three‐dimensional structures of a humanized and a chimeric Fab of an anti‐γ‐interferon antibody (1999)

The objective of this work is to compare the three-dimensional structures of “humanized” and mouse–human chimeric forms of a murine monoclonal antibody elicited against human γ-interferon. It is also to provide structural explanations for the small differences in the affinities and biological interactions of the two molecules for this antigen. Antigen-binding fragments (Fabs) were produced by papain hydrolysis of the antibodies and crystallized with polyethylene glycol (PEG) 8000 by nearly identical microseeding procedures. Their structures were solved by X-ray analyses at 2.9 Å resolution, using molecular replacement methods and crystallographic refinement. Comparison of these structures revealed marked similarities in the light (L) chains and near identities of the constant (C) domains of the heavy (H) chains. However, the variable (V) domains of the heavy chains exhibited substantial differences in the conformations of all three complementarity-determining regions (CDRs), and in their first framework segments (FR1). In FR1 of the humanized VH, the substitution of serine for proline in position 7 allowed the N-terminal segment (designated strand 4-1) to be closely juxtaposed to an adjacent strand (4-2) and form hydrogen bonds typical of an antiparallel β-pleated sheet. The tightening of the humanized structure was relayed in such a way as to decrease the space available for the last portion of HFR1 and the first part of HCDR1. This compression led to the formation of an α-helix involving residues 25–32. With fewer steric constraints, the corresponding segment in the chimeric Fab lengthened by at least 1 Å to a random coil which terminated in a single turn of 310 helix. In the humanized Fab, HCDR1, which is sandwiched between HCDR2 and HCDR3, significantly influenced the structures of both regions. HCDR2 was forced into a bent and twisted orientation different from that in the chimeric Fab, both at the crown of the loop (around proline H52a) and at its base. As in HCDR1, the last few residues of HCDR2 in the humanized Fab were compressed into a space-saving α-helix, contrasting with a more extended 310 helix in the chimeric form. HCDR3 in the humanized Fab was also adjusted in shape and topography. The observed similarities in the functional binding activities of the two molecules can be rationalized by limited induced fit adjustments in their structures on antigen binding. While not perfect replicas, the two structures are testimonials to the progress in making high affinity monoclonal antibodies safe for human use. Copyright © 1999 John Wiley & Sons, Ltd.
A NEW RECOMBINANT ADENO-ASSOCIATED VIRUS (AAV)-BASED RANDOM PEPTIDE DISPLAY LIBRARY SYSTEM: INFECTION-DEFECTIVE AAV1.9-3 AS A NOVEL DETARGETED PLATFORM FOR VECTOR EVOLUTION (2010)

Directed evolution through genetic engineering of viral capsids followed by selection has emerged as a powerful means to create novel recombinant adeno-associated virus (rAAV) vectors with desired tropism and enhanced properties. One of the most effective approaches uses rAAV-based random peptide display libraries. Here we report a novel system based on an infection-defective rAAV1.9-3 as a platform for random peptide display, and show that biopanning of the libraries in vitro effectively identifies the peptides that restore and enhance rAAV transduction. rAAV1.9-3 has a genetically engineered AAV1 capsid with amino acids 445-568 being replaced with those of AAV9, and has been identified as a variant exhibiting significantly impaired infectivity and delayed blood clearance when infused into mice. In this study, we generated rAAV1.9-3 variant libraries in which 7- or 12-mer random peptides were expressed at the capsid amino acid position 590. Three rounds of positive selection for primary human dermal fibroblasts successfully identified new rAAV-peptide variants that transduce them more efficiently than the prototype rAAV2. Thus our study demonstrates that an infection-defective rAAV variant serves as a novel detargeted platform for random peptide display libraries. We also describe a brief review of recent progress in rAAV-based random peptide display library approaches.
Inhibition of Granulocyte-Macrophage Colony Formation In Vitro by Substituted Isatin Thiosemicarbazones (1973)

The 1-methylisatin derivative of isatin thiosemicarbazone was previously shown to inhibit granulocyte-macrophage colony growth in vitro by an action at the early stages of colony development. The parent compound isatin thiosemicarbazone and 25 other derivatives were tested, and a wide range of activity was found (50% colony inhibition from 0.07 to > 100 mug per ml of culture). High activity was not associated with any specific substituent although 1-methyl or 1-ethyl isatin groups in association with 4'4' morpholino or 4'4' tetramethylene thiosemicarbazone substitutions were within the most active group. No correlation between the antimarrow and known antiviral activities of these compounds was apparent. Two of the more active compounds were compared with methisazone and were shown to have the same property of selective action on the early stages of granulocyte-macrophage differentiation in culture. It is suggested that this group of compounds might possibly provide some useful antileukemia agents.
Studies of a Melanoma Tumor-Associated Antigen Detected in the Spent Culture Medium of a Human Melanoma Cell Line by Allogeneic Antibody. I. Purification and Development of a Radioimmunoassay23 (1984)

A tumor-associated antigen (TAA) was isolated from spent culture medium (chemically defined serum-free medium) of human melanoma cell line UCLA-SO-M14 (M14). The isolation procedures included concentration, ultrafiltration, gel filtration chromatography, and chloroform:methanol (C:M) extraction. The melanoma TAA activity recovered from the organic phase of the C:M extract was subsequently fractionated by gel filtration and radiolabeled with Na125I. The radioiodinated antigen was further purified by Sephacryl S-200 gel filtration and allogeneic antibody affinity chromatography. With the use of previously characterized anti-TAA allogeneic sera from melanoma patients and 125I-labeled TAA, a radioimmunoassay (RIA) was developed. Protein A-bearing Staphylococcus aureus was used to separate bound and unbound 125I-labeled TAA. The coefficient of variation between experiments and within experiments with unlabeled melanoma TAA as the competitor in the competitive RIA ranged from 8.9 to 20.4%. These variations were consistently lower (8.9-13.6%) at high levels (6 micrograms melanoma TAA/ml) of the competitor than they were (17.3-20.5%) at low levels (0.5 microgram melanoma TAA/ml), suggesting reasonable reproducibility of the assay. A logit versus log plot of the competitive RIA data and analysis by linear regression yielded a straight line. This line represented a 5- to 1,000-ng detection range for melanoma TAA. Analysis of C:M-extracted and Sephacryl S-200-purified melanoma TAA by the competitive RIA revealed a 695-fold purification of the antigen that represented a 37.5% recovery from the spent culture medium. The greatest enrichment of the melanoma TAA was achieved by the C:M extraction step. This step separated the melanoma TAA from other antigens, e.g., fetal antigen and human leukocyte antigens.