Cognitive Information Processing

Contains reports on six research projects.National Institutes of Health (Grant 5 PO1 GM14940-03)National Institutes of Health (Grant 5 PO1 GM15006-03)Joint Services Electronics Programs (U. S. Army, U. S. Navy, and U.S. Air Force) under Contract DA 28-043-AMC-02536(E)National Institutes of Health (Grant 5 TO1 GM01555-03

Cognitive Information Processing

Contains research objectives, summary of research and reports on four research projects.National Institutes of Health (Grant 5 PO1 GM14940-02)National Institutes of Health (Grant 5 P01 GM15006-03)Joint Services Electronics Programs (U. S. Army, U. S. Navy, and U. S. Air Force) under Contract DA 28-043-AMC-02536(E)National Institutes of Health (Grant 5 T01 GM01555-03

A Comprehensive and Universal Method for Assessing the Performance of Differential Gene Expression Analyses

The number of methods for pre-processing and analysis of gene expression data continues to increase, often making it difficult to select the most appropriate approach. We present a simple procedure for comparative estimation of a variety of methods for microarray data pre-processing and analysis. Our approach is based on the use of real microarray data in which controlled fold changes are introduced into 20% of the data to provide a metric for comparison with the unmodified data. The data modifications can be easily applied to raw data measured with any technological platform and retains all the complex structures and statistical characteristics of the real-world data. The power of the method is illustrated by its application to the quantitative comparison of different methods of normalization and analysis of microarray data. Our results demonstrate that the method of controlled modifications of real experimental data provides a simple tool for assessing the performance of data preprocessing and analysis methods

Observation and Mass Measurement of the Baryon Ξb−\Xi^-_b

We report the observation and measurement of the mass of the bottom, strange baryon $\Xi^-_b$ through the decay chain $\Xi^-_b \to J/\psi \Xi^-$, where $J/\psi \to \mu^+ \mu^-$, $\Xi^- \to \Lambda \pi^-$, and $\Lambda \to p \pi^-$. Evidence for observation is based on a signal whose probability of arising from the estimated background is 6.6 x 10^{-15}, or 7.7 Gaussian standard deviations. The $\Xi^-_b$ mass is measured to be $5792.9\pm 2.5$ (stat.) $\pm 1.7$ (syst.) MeV/$c^2$.Comment: Minor text changes for the second version. Accepted by Phys. Rev. Let

Polarizations of J/psi and psi(2S) Mesons Produced in ppbar Collisions at 1.96 TeV

We have measured the polarizations of \jpsi and \psiprime mesons as functions of their transverse momentum \pt when they are produced promptly in the rapidity range $|y|<0.6$ with \pt \geq 5 \pgev. The analysis is performed using a data sample with an integrated luminosity of about 800 \ipb collected by the CDF II detector. For both vector mesons, we find that the polarizations become increasingly longitudinal as \pt increases from 5 to 30 \pgev. These results are compared to the predictions of nonrelativistic quantum chromodynamics and other contemporary models. The effective polarizations of \jpsi and \psiprime mesons from $B$-hadron decays are also reported.Comment: 8 pages, 7 figures, published in Physical Review Letter

Evidence for t\bar{t}\gamma Production and Measurement of \sigma_t\bar{t}\gamma / \sigma_t\bar{t}

Using data corresponding to 6.0/fb of ppbar collisions at sqrt(s) = 1.96 TeV collected by the CDF II detector, we present a cross section measurement of top-quark pair production with an additional radiated photon. The events are selected by looking for a lepton, a photon, significant transverse momentum imbalance, large total transverse energy, and three or more jets, with at least one identified as containing a b quark. The ttbar+photon sample requires the photon to have 10 GeV or more of transverse energy, and to be in the central region. Using an event selection optimized for the ttbar+photon candidate sample we measure the production cross section of, and the ratio of cross sections of the two samples. Control samples in the dilepton+photon and lepton+photon+\met, channels are constructed to aid in decay product identification and background measurements. We observe 30 ttbar+photon candidate events compared to the standard model expectation of 26.9 +/- 3.4 events. We measure the ttbar+photon cross section to be 0.18+0.08 pb, and the ratio of the cross section of ttbar+photon to ttbar to be 0.024 +/- 0.009. Assuming no ttbar+photon production, we observe a probability of 0.0015 of the background events alone producing 30 events or more, corresponding to 3.0 standard deviations.Comment: 9 pages, 3 figure

Searches for Direct Pair Production of Supersymmetric Top and Supersymmetric Bottom Quarks in p-pbar Collisions at sqrt(s)=1.96 TeV

We search for direct pair production of supersymmetric top quarks and supersymmetric bottom quarks in proton-antiproton collisions at sqrt(s)=1.96 TeV, using 295 pb^-1 of data recorded by the Collider Detector at Fermilab (CDF II) experiment. The supersymmetric top (supersymmetric bottom) quarks are selected by reconstructing their decay into a charm (bottom) quark and a neutralino, which is assumed to be the lightest supersymmetric particle. The signature of such processes is two energetic heavy-flavor jets and missing transverse energy. The number of events that pass our selection for each search process is consistent with the expected standard model background. By comparing our results to the theoretical production cross sections of the supersymmetric top and supersymmetric bottom quarks in the minimal supersymmetric standard model, we exclude, at a 95% confidence level in the frame of that model, a supersymmetric top quark mass up to 132 GeV/c^2 for a neutralino mass of 48 GeV/c^2, and a supersymmetric bottom quark mass up to 193 GeV/c^2 for a neutralino mass of 40 GeV/c^2.Comment: 12 pages, 5 figures, submitted to Phys. Rev.

Search for New Particles Leading to Z+jets Final States in ppˉp\bar{p} Collisions at s=1.96\sqrt{s}=1.96 TeV

We present the results of a search for new particles that lead to a \Z boson plus jets in $p\bar{p}$ collisions at $\sqrt{s}=1.96$ TeV using the Collider Detector at Fermilab (CDF II). A data sample with a luminosity of 1.06 \ifb\ collected using \Z boson decays to $ee$ and $\mu\mu$ is used. We describe a completely data-based method to predict the dominant background from standard-model \Z+jet events. This method can be similarly applied to other analyses requiring background predictions in multi-jet environments, as shown when validating the method by predicting the background from $W$+jets in \ttbar production. No significant excess above the background prediction is observed, and a limit is set using a fourth generation quark model to quantify the acceptance. Assuming $BR(b' \to b\Z) = 100$ and using a leading-order calculation of the $b'$ cross section, $b'$ quark masses below 268 \gev/c^2 are excluded at 95% confidence level.Comment: To be submitted to PR

First Measurement of the W Boson Mass in Run II of the Tevatron

We present a measurement of the W boson mass using 200/pb of data collected in pbar p collisions at sqrt(s) = 1.96 TeV by the CDF II detector at Run II of the Fermilab Tevatron. With a sample of 63964 W -> e nu candidates and 51128 W -> mu nu candidates, we measure M_W = (80413 +- 34 (stat) +- 34 (syst) = 80413 +- 48) MeV/c^2. This is the most precise single measurement of the W boson mass to date.Comment: published version in PR