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Adapting the Surgical Apgar Score for Perioperative Outcome Prediction in Liver Transplantation

Amy C. S. Pearson, Arun Subramanian, Darrell R. Schroeder, James Y. Findlay
2017 Transplantation Direct  
The surgical Apgar score (SAS) is a 10-point scale using the lowest heart rate, lowest mean arterial pressure, and estimated blood loss (EBL) during surgery to predict postoperative outcomes.  ...  An Apgar score for surgery.  ...  The surgical Apgar score (SAS) is a 10-point scale first described in 2007 by Gawande et al, 12 as a simple means of grading patients after general or vascular operations using 3 intraoperative variables  ... 
doi:10.1097/txd.0000000000000739 pmid:29184910 pmcid:PMC5682766 fatcat:fzmnl2penfcmtn5eitqfdoe2gu

Predicting helix orientation for coiled-coil dimers

James R. Apgar, Karl N. Gutwin, Amy E. Keating
2008 Proteins: Structure, Function, and Bioinformatics  
Model ELEC assigns all occurrences of g-e' (parallel) or g-g' + e-e' (antiparallel) E-R, R-E, K-E or E-K pairs a weight of -1, while E-E, R-R, R-K, K-R, K-K, D-E, E-D and D-D pairs are given a weight of  ...  The parallel set contained 120 structures with R 0 values of 4. Figure S4 ).  ... 
doi:10.1002/prot.22118 pmid:18506779 pmcid:PMC2562949 fatcat:hnxrwrsmavdwzlh6q4dz3hasg4

AB-Bind: Antibody binding mutational database for computational affinity predictions

Sarah Sirin, James R. Apgar, Eric M. Bennett, Amy E. Keating
2015 Protein Science  
Numerical correlations between computed and observed DDG values were low (r 5 0.16-0.45), but the potentials exhibited predictive power for classifying variants as improved vs weakened binders.  ...  For each crystal structure, quality metrics such as the resolution, R work , R free , and MolProbity scores, and experimental conditions such as pH and temperature were included in the database.  ...  Pearson r values were 0.52, 0.27, 20.33, and 0.23 for these energy terms, respectively, compared to 0.34 for the complete FoldX scoring function.  ... 
doi:10.1002/pro.2829 pmid:26473627 pmcid:PMC4815335 fatcat:ebpb2plozfa4fnb2cwfjmaixca

Gsk3 is a metabolic checkpoint regulator in B cells

Julia Jellusova, Matthew H Cato, John R Apgar, Parham Ramezani-Rad, Charlotte R Leung, Cindi Chen, Adam D Richardson, Elaine M Conner, Robert J Benschop, James R Woodgett, Robert C Rickert
2017 Nature Immunology  
P.R-R. was supported by a fellowship from the Cancer Centers Council (C3). The Animal Resources and Cancer Metabolism Cores at SBP are supported by NCI award number 5P30CA030199.  ...  The following stimulations or inhibitors were used as indicated: 10 ng/ml rmBAFF (R&D Systems), 10 ng/ml recombinant protein IL-4 (eBioscience), 5 µg/ml anti-CD40 (eBioscience), 12 µg/ml anti-IgM (Jackson  ... 
doi:10.1038/ni.3664 pmid:28114292 pmcid:PMC5310963 fatcat:7pnpmh3xdfbo3i3ble77dbkxaq

Modeling Backbone Flexibility to Achieve Sequence Diversity: The Design of Novel α-Helical Ligands for Bcl-xL

Xiaoran Fu, James R. Apgar, Amy E. Keating
2007 Journal of Molecular Biology  
ΔE total = E R−H − (E RC + E R ) (5) The energy of the isolated receptor is the same for all design calculations and can be ignored.  ...  ) to an isolated receptor (R) and a random coil (RC).  ... 
doi:10.1016/j.jmb.2007.04.069 pmid:17597151 pmcid:PMC1994813 fatcat:6tx7hgy3qff27mg4tscjrrjxbi

A Predictive Model of Intein Insertion Site for Use in the Engineering of Molecular Switches

James Apgar, Mary Ross, Xiao Zuo, Sarah Dohle, Derek Sturtevant, Binzhang Shen, Humberto de la Vega, Philip Lessard, Gabor Lazar, R. Michael Raab, Hans-Joachim Wieden
2012 PLoS ONE  
Citation: Apgar J, Ross M, Zuo X, Dohle S, Sturtevant D, et al. (2012) A Predictive Model of Intein Insertion Site for Use in the Engineering of Molecular Switches. PLoS ONE 7(5): e37355.  ...  This is not the case for our dataset of native exteins (R 2 = 0.0154). The distance to the active site may be functionally important to the intein.  ... 
doi:10.1371/journal.pone.0037355 pmid:22649521 pmcid:PMC3359363 fatcat:nec6ve4sqzbjhgbqg35pu5nm3u

Beyond CDR-grafting: Structure-guided humanization of framework and CDR regions of an anti-myostatin antibody

James R. Apgar, Michelle Mader, Rita Agostinelli, Susan Benard, Peter Bialek, Mark Johnson, Yijie Gao, Mark Krebs, Jane Owens, Kevin Parris, Michael St. Andre, Kris Svenson (+2 others)
2016 mAbs  
R free is equivalent to R work , except that it is calcu- lated for a randomly chosen 5% of reflections omitted from the refinement pro- cess.  ...  0.008 Bond angles ( ) 1.08 1.18 Ã R work D SjjF obs j -jF calc j/ SjF obs j.  ... 
doi:10.1080/19420862.2016.1215786 pmid:27625211 pmcid:PMC5058614 fatcat:fker6dparrcoponl7l3gfnmhui

Modeling and mitigation of high-concentration antibody viscosity through structure-based computer-aided protein design

James R. Apgar, Amy S. P. Tam, Rhady Sorm, Sybille Moesta, Amy C. King, Han Yang, Kerry Kelleher, Denise Murphy, Aaron M. D'Antona, Guoying Yan, Xiaotian Zhong, Linette Rodriguez (+6 others)
2020 PLoS ONE  
Author Contributions Conceptualization: James R. Apgar, Gregory J. Carven, Eric M. Bennett, Laura Lin.  ...  is similar to the predictive performance of the Sharma Score (R = 0.72) and the Tomar Score (R = 0.70) (Fig 7) .  ...  The fit to the curve is determined by calculating the correlation coefficient (R 2 ).  ... 
doi:10.1371/journal.pone.0232713 pmid:32379792 fatcat:ekr7hzmasneutpr4wnvedk7tqi

Augmented Binary Substitution: Single-pass CDR germ-lining and stabilization of therapeutic antibodies

Sue Townsend, Brian J. Fennell, James R. Apgar, Matthew Lambert, Barry McDonnell, Joanne Grant, Jason Wade, Edward Franklin, Niall Foy, Deirdre Ní Shúilleabháin, Conor Fields, Alfredo Darmanin-Sheehan (+6 others)
2015 Proceedings of the National Academy of Sciences of the United States of America  
Although humanized antibodies have been highly successful in the clinic, all current humanization techniques have potential limitations, such as: reliance on rodent hosts, immunogenicity due to high non-germ-line amino acid content, v-domain destabilization, expression and formulation issues. This study presents a technology that generates stable, soluble, ultrahumanized antibodies via single-step complementarity-determining region (CDR) germ-lining. For three antibodies from three separate key
more » ... immune host species, binary substitution CDR cassettes were inserted into preferred human frameworks to form libraries in which only the parental or human germ-line destination residue was encoded at each position. The CDR-H3 in each case was also augmented with 1 ± 1 random substitution per clone. Each library was then screened for clones with restored antigen binding capacity. Lead ultrahumanized clones demonstrated high stability, with affinity and specificity equivalent to, or better than, the parental IgG. Critically, this was mainly achieved on germ-line frameworks by simultaneously subtracting up to 19 redundant non-germ-line residues in the CDRs. This process significantly lowered non-germ-line sequence content, minimized immunogenicity risk in the final molecules and provided a heat map for the essential non-germ-line CDR residue content of each antibody. The ABS technology therefore fully optimizes the clinical potential of antibodies from rodents and alternative immune hosts, rendering them indistinguishable from fully human in a simple, single-pass process. antibody | paratope | plasticity | humanization | immunogenicity
doi:10.1073/pnas.1510944112 pmid:26621728 pmcid:PMC4687607 fatcat:pyqsvl45krf7dfb4wwanbkcmtq

Pharmacological AMPK activation induces transcriptional responses congruent to exercise in skeletal and cardiac muscle, adipose tissues and liver

Eric S. Muise, Hong-Ping Guan, Jinqi Liu, Andrea R. Nawrocki, Xiaodong Yang, Chuanlin Wang, Carlos G. Rodríguez, Dan Zhou, Judith N. Gorski, Marc M. Kurtz, Danqing Feng, Kenneth J. Leavitt (+20 others)
2019 PLoS ONE  
Acknowledgments We thank John R. Thompson, Jennifer Cho, Hans Weber, Laura Lubbers, and Jianchao Yao for their technical and/or intellectual support during the execution of these studies.  ... 
doi:10.1371/journal.pone.0211568 pmid:30811418 pmcid:PMC6392219 fatcat:pgucncl2ibembetz7ueot57teu

Structure-function relationships of the soluble form of the antiaging protein Klotho have therapeutic implications for managing kidney disease

Xiaotian Zhong, Srinath Jagarlapudi, Yan Weng, Mellisa Ly, Jason C. Rouse, Kim McClure, Tetsuya Ishino, Yan Zhang, Eric Sousa, Justin Cohen, Boriana Tzvetkova, Kaffa Cote (+19 others)
2020 Journal of Biological Chemistry  
Serum free media include RPMI, 0.1% BSA and 7µg/ml puromycin. 100µg/mL of commercially available FGF23 (Cat# 2604-FG, R&D systems) and purified sKlotho variants were co-treated for 1 hour.  ...  Serum levels of either HEK-or CHO-sKlotho were determined using an LC-MSMS method following immunoprecipitation of the protein using a monoclonal anti-human Klotho antibody MAB5334 obtained from R&D Systems  ... 
doi:10.1074/jbc.ra119.012144 pmid:32005658 pmcid:PMC7062171 fatcat:jwnt3o2dcvgwxceuhu3yplpdku

Page 176 of Revue Francaise de Gynecologie et d'Obstetrique Vol. 75, Issue 3 [page]

1980 Revue Francaise de Gynecologie et d'Obstetrique  
< 7 in der ersten Mi- nute) bei welchen eine rasche Besserung (Apgar-Score > 7 in der 5.  ...  Fenner A., Busse H.G., Junce M., Mutter R. — Acid- base parameters and alveolar arterial oxygen tension gra- dients in healthy neonatal and _post-neonatal Europ. J. Pediat., 1976, 122, 69. .  ... 

Virginia Apgar (1909–1974): Apgar score innovator

SY Tan, CA Davis
2018 Singapore medical journal  
M U S I C I A N E X T R A O R D I N A I R E Apgar never married and was an avid fisherman, philatelist and musician, performing in several orchestras on the cello and violin.  ...  With the help of two colleagues, Dr Duncan Holaday and Dr Stanley James, Apgar learned new methods of testing blood gases and levels of anaesthesia in the blood of newborns.  ... 
doi:10.11622/smedj.2018091 pmid:30109352 pmcid:PMC6056375 fatcat:3dhev7w24rabppfvffndo5qa2u

Page 560 of Journal of the American Medical Women's Association Vol. 29, Issue 12 [page]

1974 Journal of the American Medical Women's Association  
.: Acronym of Apgar score, JAMA, 181: 353, 1962. Apgar, V., and James, L. S.: Further observations on the newborn scoring system, Am J Dis Child, 104: 419, 1962. Apgar, V., and Girdany, B.  ...  ., and Turpin, R.: Les chromo- somes humains en cultures, CR Acad Sci (Paris), 248: 602, 1959. In the News Lottie C.  ... 

Page 964 of Clinical Obstetrics and Gynecology Vol. 3, Issue 4 [page]

1960 Clinical Obstetrics and Gynecology  
Apgar, V. A proposal for a new method of evaluation of the newborn infant. Anesth. & Analg. 32:260, 1953. ApGar, V., Houapay, D. A., James, L. S., Prince, C. E., Wetssror, I. M.. and Weiss, I.  ...  A., James, L. S., Werssrot, I. M., and Berrien, C. Evaluation of the newborn infant—Second report. J.A.M.A. 168 :1985, 1958. 4. Brown, R. J. K.  ... 
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