<?xml version="1.0" encoding="UTF-8"?><xml><records><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>17</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">Susan Abbatiello</style></author><author><style face="normal" font="default" size="100%">Birgit Schilling</style></author><author><style face="normal" font="default" size="100%">D.R. Mani</style></author><author><style face="normal" font="default" size="100%">L.I. Shilling</style></author><author><style face="normal" font="default" size="100%">S.C. Hall</style></author><author><style face="normal" font="default" size="100%">B. McLean</style></author><author><style face="normal" font="default" size="100%">M. Albetolle</style></author><author><style face="normal" font="default" size="100%">S. Allen</style></author><author><style face="normal" font="default" size="100%">M. Burgess</style></author><author><style face="normal" font="default" size="100%">M.P. Cusack</style></author><author><style face="normal" font="default" size="100%">M Gosh</style></author><author><style face="normal" font="default" size="100%">V Hedrick</style></author><author><style face="normal" font="default" size="100%">J.M. Held</style></author><author><style face="normal" font="default" size="100%">H.D. Inerowicz</style></author><author><style face="normal" font="default" size="100%">A. Jackson</style></author><author><style face="normal" font="default" size="100%">H. Keshishian</style></author><author><style face="normal" font="default" size="100%">C.R. Kinsinger</style></author><author><style face="normal" font="default" size="100%">Lyssand, JS</style></author><author><style face="normal" font="default" size="100%">Makowski L</style></author><author><style face="normal" font="default" size="100%">Mesri M</style></author><author><style face="normal" font="default" size="100%">Rodriguez H</style></author><author><style face="normal" font="default" size="100%">Rudnick P</style></author><author><style face="normal" font="default" size="100%">Sadowski P</style></author><author><style face="normal" font="default" size="100%">Nell Sedransk</style></author><author><style face="normal" font="default" size="100%">Shaddox K</style></author><author><style face="normal" font="default" size="100%">Skates SJ</style></author><author><style face="normal" font="default" size="100%">Kuhn E</style></author><author><style face="normal" font="default" size="100%">Smith D</style></author><author><style face="normal" font="default" size="100%">Whiteaker, JR</style></author><author><style face="normal" font="default" size="100%">Whitwell C</style></author><author><style face="normal" font="default" size="100%">Zhang S</style></author><author><style face="normal" font="default" size="100%">Borchers CH</style></author><author><style face="normal" font="default" size="100%">Fisher SJ</style></author><author><style face="normal" font="default" size="100%">Gibson BW</style></author><author><style face="normal" font="default" size="100%">Liebler DC</style></author><author><style face="normal" font="default" size="100%">M.J. McCoss</style></author><author><style face="normal" font="default" size="100%">Neubert TA</style></author><author><style face="normal" font="default" size="100%">Paulovich AG</style></author><author><style face="normal" font="default" size="100%">Regnier FE</style></author><author><style face="normal" font="default" size="100%">Tempst, P</style></author><author><style face="normal" font="default" size="100%">Carr, SA</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma.</style></title><secondary-title><style face="normal" font="default" size="100%">Molecular Cell Proteomics</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2015</style></year><pub-dates><date><style  face="normal" font="default" size="100%">09/2015</style></date></pub-dates></dates><volume><style face="normal" font="default" size="100%">14</style></volume><pages><style face="normal" font="default" size="100%">2357-74</style></pages><language><style face="normal" font="default" size="100%">eng</style></language><abstract><style face="normal" font="default" size="100%">&lt;p&gt;There is an increasing need in biology and clinical medicine to robustly and reliably measure tens to hundreds of peptides and proteins in clinical and biological samples with high sensitivity, specificity, reproducibility, and repeatability. Previously, we demonstrated that LC-MRM-MS with isotope dilution has suitable performance for quantitative measurements of small numbers of relatively abundant proteins in human plasma and that the resulting assays can be transferred across laboratories while maintaining high reproducibility and quantitative precision. Here, we significantly extend that earlier work, demonstrating that 11 laboratories using 14 LC-MS systems can develop, determine analytical figures of merit, and apply highly multiplexed MRM-MS assays targeting 125 peptides derived from 27 cancer-relevant proteins and seven control proteins to precisely and reproducibly measure the analytes in human plasma. To ensure consistent generation of high quality data, we incorporated a system suitability protocol (SSP) into our experimental design. The SSP enabled real-time monitoring of LC-MRM-MS performance during assay development and implementation, facilitating early detection and correction of chromatographic and instrumental problems. Low to subnanogram/ml sensitivity for proteins in plasma was achieved by one-step immunoaffinity depletion of 14 abundant plasma proteins prior to analysis. Median intra- and interlaboratory reproducibility was &amp;lt;20%, sufficient for most biological studies and candidate protein biomarker verification. Digestion recovery of peptides was assessed and quantitative accuracy improved using heavy-isotope-labeled versions of the proteins as internal standards. Using the highly multiplexed assay, participating laboratories were able to precisely and reproducibly determine the levels of a series of analytes in blinded samples used to simulate an interlaboratory clinical study of patient samples. Our study further establishes that LC-MRM-MS using stable isotope dilution, with appropriate attention to analytical validation and appropriate quality control measures, enables sensitive, specific, reproducible, and quantitative measurements of proteins and peptides in complex biological matrices such as plasma.&lt;/p&gt;
</style></abstract><issue><style face="normal" font="default" size="100%">9</style></issue></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>17</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">Abbatiello, S.</style></author><author><style face="normal" font="default" size="100%">Feng, X.</style></author><author><style face="normal" font="default" size="100%">Sedransk, N.</style></author><author><style face="normal" font="default" size="100%">Mani, DR</style></author><author><style face="normal" font="default" size="100%">Schilling, B</style></author><author><style face="normal" font="default" size="100%">Maclean, B</style></author><author><style face="normal" font="default" size="100%">Zimmerman, LJ</style></author><author><style face="normal" font="default" size="100%">Cusack, MP</style></author><author><style face="normal" font="default" size="100%">Hall, SC</style></author><author><style face="normal" font="default" size="100%">Addona, T</style></author><author><style face="normal" font="default" size="100%">Allen, S</style></author><author><style face="normal" font="default" size="100%">Dodder, NG</style></author><author><style face="normal" font="default" size="100%">Ghosh, M</style></author><author><style face="normal" font="default" size="100%">Held, JM</style></author><author><style face="normal" font="default" size="100%">Hedrick, V</style></author><author><style face="normal" font="default" size="100%">Inerowicz, HD</style></author><author><style face="normal" font="default" size="100%">Jackson, A</style></author><author><style face="normal" font="default" size="100%">Keshishian, H</style></author><author><style face="normal" font="default" size="100%">Kim, JW</style></author><author><style face="normal" font="default" size="100%">Lyssand, JS</style></author><author><style face="normal" font="default" size="100%">Riley, CP</style></author><author><style face="normal" font="default" size="100%">Rudnick, P</style></author><author><style face="normal" font="default" size="100%">Sadowski, P</style></author><author><style face="normal" font="default" size="100%">Shaddox, K</style></author><author><style face="normal" font="default" size="100%">Smith, D</style></author><author><style face="normal" font="default" size="100%">Tomazela, D</style></author><author><style face="normal" font="default" size="100%">Wahlander, A</style></author><author><style face="normal" font="default" size="100%">Waldemarson, S</style></author><author><style face="normal" font="default" size="100%">Whitwell, CA</style></author><author><style face="normal" font="default" size="100%">You, J</style></author><author><style face="normal" font="default" size="100%">Zhang, S</style></author><author><style face="normal" font="default" size="100%">Kinsinger, CR</style></author><author><style face="normal" font="default" size="100%">Mesri, M</style></author><author><style face="normal" font="default" size="100%">Rodriguez, H</style></author><author><style face="normal" font="default" size="100%">Borchers, CH</style></author><author><style face="normal" font="default" size="100%">Buck, C</style></author><author><style face="normal" font="default" size="100%">Fisher, SJ</style></author><author><style face="normal" font="default" size="100%">Gibson, BW</style></author><author><style face="normal" font="default" size="100%">Liebler, D</style></author><author><style face="normal" font="default" size="100%">Maccoss, M</style></author><author><style face="normal" font="default" size="100%">Neubert, TA</style></author><author><style face="normal" font="default" size="100%">Paulovich, A</style></author><author><style face="normal" font="default" size="100%">Regnier, F</style></author><author><style face="normal" font="default" size="100%">Skates, SJ</style></author><author><style face="normal" font="default" size="100%">Tempst, P</style></author><author><style face="normal" font="default" size="100%">Wang, M</style></author><author><style face="normal" font="default" size="100%">Carr, SA</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Design, Implementation and Multisite Evaluation of a System Suitability Protocol for the Quantitative Assessment of Instrument Performance in Liquid Chromatography-Multiple Reaction Monitoring-MS (LC-MRM-MS)</style></title><secondary-title><style face="normal" font="default" size="100%">Molecular and Cellular Proteomics</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2013</style></year></dates><volume><style face="normal" font="default" size="100%">12</style></volume><pages><style face="normal" font="default" size="100%">2623-2639</style></pages><language><style face="normal" font="default" size="100%">eng</style></language><abstract><style face="normal" font="default" size="100%">&lt;p&gt;Multiple reaction monitoring (MRM) mass spectrometry coupled with stable isotope dilution (SID) and liquid chromatography (LC) is increasingly used in biological and clinical studies for precise and reproducible quantification of peptides and proteins in complex sample matrices. Robust LC-SID-MRM-MS-based assays that can be replicated across laboratories and ultimately in clinical laboratory settings require standardized protocols to demonstrate that the analysis platforms are performing adequately. We developed a system suitability protocol (SSP), which employs a predigested mixture of six proteins, to facilitate performance evaluation of LC-SID-MRM-MS instrument platforms, configured with nanoflow-LC systems interfaced to triple quadrupole mass spectrometers. The SSP was designed for use with low multiplex analyses as well as high multiplex approaches when software-driven scheduling of data acquisition is required. Performance was assessed by monitoring of a range of chromatographic and mass spectrometric metrics including peak width, chromatographic resolution, peak capacity, and the variability in peak area and analyte retention time (RT) stability. The SSP, which was evaluated in 11 laboratories on a total of 15 different instruments, enabled early diagnoses of LC and MS anomalies that indicated suboptimal LC-MRM-MS performance. The observed range in variation of each of the metrics scrutinized serves to define the criteria for optimized LC-SID-MRM-MS platforms for routine use, with pass/fail criteria for system suitability performance measures defined as peak area coefficient of variation &amp;lt;0.15, peak width coefficient of variation &amp;lt;0.15, standard deviation of RT &amp;lt;0.15 min (9 s), and the RT drift &amp;lt;0.5min (30 s). The deleterious effect of a marginally performing LC-SID-MRM-MS system on the limit of quantification (LOQ) in targeted quantitative assays illustrates the use and need for a SSP to establish robust and reliable system performance. Use of a SSP helps to ensure that analyte quantification measurements can be replicated with good precision within and across multiple laboratories and should facilitate more widespread use of MRM-MS technology by the basic biomedical and clinical laboratory research communities.&lt;/p&gt;
</style></abstract></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>17</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">Isukapati, Isaac Kumar</style></author><author><style face="normal" font="default" size="100%">List, George F.</style></author><author><style face="normal" font="default" size="100%">Williams, Billy M</style></author><author><style face="normal" font="default" size="100%">Alan F. Karr</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Synthesizing route travel time distributions from segment travel time distributions</style></title><secondary-title><style face="normal" font="default" size="100%">Trans. Res. Rec.</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2013</style></year><pub-dates><date><style  face="normal" font="default" size="100%">02/2013</style></date></pub-dates></dates><pages><style face="normal" font="default" size="100%">71–81</style></pages><language><style face="normal" font="default" size="100%">eng</style></language></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>17</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">A. F. Karr</style></author><author><style face="normal" font="default" size="100%">C.-M. Aldea</style></author><author><style face="normal" font="default" size="100%">J.D. Picka</style></author><author><style face="normal" font="default" size="100%">S. P. Shah</style></author><author><style face="normal" font="default" size="100%">S.S. Jaiswal</style></author><author><style face="normal" font="default" size="100%">T. Igusa</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Experimental and statistical study of chloride permeability of cracked high strength concrete</style></title><secondary-title><style face="normal" font="default" size="100%">ASTM Cement, Concrete and Aggregates</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2000</style></year><pub-dates><date><style  face="normal" font="default" size="100%">December</style></date></pub-dates></dates><number><style face="normal" font="default" size="100%">2</style></number><volume><style face="normal" font="default" size="100%">22</style></volume><pages><style face="normal" font="default" size="100%">000-000</style></pages><language><style face="normal" font="default" size="100%">eng</style></language><abstract><style face="normal" font="default" size="100%">&lt;p&gt;Within any cast cylinder of concrete, the coarse aggregate will tend to be inhomogeneously distributed. This variability may arise as a result of segregation caused by gravity or as a result of the wall effect that is caused by the inability of the aggregate to penetrate the walls of the mold. Using methods from image analysis, stereology, and statistics, local estimates of aggregate inhomogeniety are defined that quantify phenomena that have been qualitatively described in the past. These methods involve modification of the two-dimensional images to prepare them for analysis, as well as simple diagnostic statistics for determining the presence of a wall effect. While the techniques presented herein are developed specifically for cast cylinders, they can be generalized to other cast or cored concrete specimens.&lt;/p&gt;
</style></abstract></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>47</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">A. F. Karr</style></author><author><style face="normal" font="default" size="100%">S. P. Shah</style></author><author><style face="normal" font="default" size="100%">S.S. Jaiswal</style></author><author><style face="normal" font="default" size="100%">B.E. Ankenman</style></author><author><style face="normal" font="default" size="100%">J.D. Picka</style></author><author><style face="normal" font="default" size="100%">T. Igusa</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Impact of the interfacial transition zone on the chloride permeability of concrete</style></title><secondary-title><style face="normal" font="default" size="100%">Proc. 12th Engrg. Mechanics Conf</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2000</style></year></dates><pages><style face="normal" font="default" size="100%">1134-1137</style></pages><language><style face="normal" font="default" size="100%">eng</style></language></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>17</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">A. F. Karr</style></author><author><style face="normal" font="default" size="100%">S.S. Jaiswal</style></author><author><style face="normal" font="default" size="100%">T. Igusa</style></author><author><style face="normal" font="default" size="100%">J.D. Picka</style></author><author><style face="normal" font="default" size="100%">S. P. Shah</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Quantitative description of coarse aggregate volume fraction gradients</style></title><secondary-title><style face="normal" font="default" size="100%">Cement Concrete and Aggregates</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2000</style></year></dates><volume><style face="normal" font="default" size="100%">22</style></volume><pages><style face="normal" font="default" size="100%">151-159</style></pages><language><style face="normal" font="default" size="100%">eng</style></language><abstract><style face="normal" font="default" size="100%">&lt;p&gt;Within any cast cylinder of concrete, the coarse aggregate will tend to be inhomogeneously distributed. This variability may arise as a result of segregation caused by gravity or as a result of the wall effect that is caused by the inability of the aggregate to penetrate the walls of the mold. Using methods from image analysis, stereology, and statistics, local estimates of aggregate inhomogeniety are defined that quantify phenomena that have been qualitatively described in the past. These methods involve modification of the two-dimensional images to prepare them for analysis, as well as simple diagnostic statistics for determining the presence of a wall effect. While the techniques presented herein are developed specifically for cast cylinders, they can be generalized to other cast or cored concrete specimens.&lt;/p&gt;
</style></abstract></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>17</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">A. F. Karr</style></author><author><style face="normal" font="default" size="100%">S.S. Jaiswal</style></author><author><style face="normal" font="default" size="100%">J.D. Picka</style></author><author><style face="normal" font="default" size="100%">T. Igusa</style></author><author><style face="normal" font="default" size="100%">S. P. Shah</style></author><author><style face="normal" font="default" size="100%">B.E. Ankenman</style></author><author><style face="normal" font="default" size="100%">P. Styer</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Statistical studies of the conductivity of concrete using ASTM C1202?94</style></title><secondary-title><style face="normal" font="default" size="100%">Concrete Science and Engineering</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2000</style></year></dates><volume><style face="normal" font="default" size="100%">2</style></volume><pages><style face="normal" font="default" size="100%">97-105</style></pages><language><style face="normal" font="default" size="100%">eng</style></language></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>47</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">A. F. Karr</style></author><author><style face="normal" font="default" size="100%">C.-M. Aldea</style></author><author><style face="normal" font="default" size="100%">S.S. Jaiswal</style></author><author><style face="normal" font="default" size="100%">B.E. Ankenman</style></author><author><style face="normal" font="default" size="100%">J.D. Picka</style></author><author><style face="normal" font="default" size="100%">T. Igusa</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Water permeability of cracked concrete</style></title><secondary-title><style face="normal" font="default" size="100%">Proc. 12th Engrg. Mechanics Conf</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">2000</style></year></dates><pages><style face="normal" font="default" size="100%">1158?1162</style></pages><language><style face="normal" font="default" size="100%">eng</style></language></record><record><source-app name="Biblio" version="7.x">Drupal-Biblio</source-app><ref-type>47</ref-type><contributors><authors><author><style face="normal" font="default" size="100%">S. Jaiswal</style></author><author><style face="normal" font="default" size="100%">T. Igusa</style></author><author><style face="normal" font="default" size="100%">T. Styer</style></author><author><style face="normal" font="default" size="100%">A. F. Karr</style></author></authors></contributors><titles><title><style face="normal" font="default" size="100%">Influence of microstructure and fracture on the transport properties in cement-based materials</style></title><secondary-title><style face="normal" font="default" size="100%">Brittle Matrix Composites - International Symposium</style></secondary-title></titles><dates><year><style  face="normal" font="default" size="100%">1997</style></year></dates><volume><style face="normal" font="default" size="100%">5</style></volume><pages><style face="normal" font="default" size="100%">199-220</style></pages><language><style face="normal" font="default" size="100%">eng</style></language></record></records></xml>