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Axon Laboratory Acuity v4.0.0.49
Full name: Axon.Laboratory.Acuity.v4.0.0.49-AGAiN.nfo
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ÜÜÜ ÜÜÛÛÛ²²²²²²ÜÜÜÜ ÜÜÜ ÜÛ²²ßßßÜ ÜÛßßß ßßßßß²²ÛÜÜ Üßß ßßÜ ß Ü ßÛÛ²Ü ß ßÜÜ ßßßÜÜ ÛÝ ÞÝ sCr! ß²ß ÜÛÜ ßßßÛÜÜÜÜÜÜ Ü Ü ßÛÛÛÛÜÜÜÜÜÜ ßÛÛÜ ÜÛÜÜÜ ÜÛÛ²²²Ü ÜÜÛßßßß Û²ÜÜÜ ßßÜÜÜÜ ßßÜÜÜ ßßßßÛÜÜÜÜ Ü ßßßßÜÜÛÛÛÛÛ²²²²Ü ÜÜÜÛßß ÞÛÛÛÛÛÛÛÜÜÜÜ ßßßßßÜÜÜÜÛßßß ÜÜÜÛß ßßßßÛÜÜÜÜ ßÛÛÛÛÛ²²ß ßßÜÜ ÛÛÛÛ²² ßßßÛÛ²ÜÜÜ ÜÜÜÜÛßßßßÛÛ²² ßÛ²Ü ßÛÛÛßßÛÜÜ ßÛ²ÜÜ ÞÛÛÛßßß ÜÜÜÜÛÛÛ²²ÜÛÛÛÛß ÞÛÛ²ÝÜÜÛÛÛÛÛÛÜÜ ÛÛ²ÝßÛÛÛßÜÜ ÛÛÛÛÛÜÜ ÛÛ²²² ß ÜÜÛÛÛÛßß ßÛÛÛ²²ÛÛ²² ÛÛ²²ÛÛ²ß ßÛÛÛÛ²Ý ÛÛÛÛ²² ÛÛÛ²²ßßÛÛÜ ÛÛÛ²² ÜÛÛÛ²²ß ÛÛÛ²²ÛÛ²² ÞÛÛ²Û²Ý ÞÛÛ²²ÝÞÛÛÛ²²Ý ÛÛÛ²² ßÛÛÛÛ²² ÛÛÛÛ²²² ÛÛÛ²²ÛßÛÛ²Ü ÛÛÛÛ²² ÛÛ²²ß ÛÛÛ²²² ÞÛÛ²²Ý ÞÛÛÛ²² ßÛÛÛÛ²² ßßßßßßßß ßßÛÛ²²ÜÜÜÜÞÛÛÛßÛÛÜÜ ß²²²ÜÜÛÛÛ²²ß ÜÛÛ²²ß ÜÜßÛÛÛ²²Ü ßßÛÛ²²ÜÜÜÜß ßßßßß ÛÛ²² ßßÛÛÛÛÛÛÛÛ²ßßß ÜÜÛ²ßß ßßÛÛßß Üß ßßßß ÜßßßÛÜ ÜÜÛÛÛÛ²²ÜÜ ÛÛ²² Ü ßßßÛÛÜÜÜÛÛßß ßÜ Üß ßÜ Û ÜÜßß ÞÛÛÛÛÛÛ²²ßßßßÛÛÛÛÛÛÛÛÛß ÜÜ ßßßÜÜÜ ÜÜß ÞÝ ÞÝ ßßÜÜÜÜÜßßß ß ÛÛÛÛ²² ÜßßßÜÜ ßßßß ßßÜ ßßßßß ßÜÜ ÜÜß ÜÜ ÛÛÛÛ²²ÞÝ ßßÜÜÜ ÛßßÜÜÜÜß ßßÛÜÜ ß²ÛÛÛÛÛÜÜÜÜ ßßÛÛÛÛÛÜÜÜß ßßßÜÜÜÜÜßß ÜÜ ß²Ü ßßÛÛÜ ßßßßßÛÜÜÜÜÜ ÜÜÜÜÜÜÛÛÛß ÛÛÝ ÜÜ ßÛÜ ßÜÜ ßßßßßßß AGAiN is proud to present.. ßßßßß ÜÛÛß ßÜÜÛÛß ÜÛÛÝ ß²Ü ÛÛÜ ÜÛß ÜÛß ÜÜ ²²ÛÛÛÜ ÞÛÝÛÛÛÝ Acuity v4.0.0.49 ÜÛÛ Ü²ß ÞÛÛÜ ²²²ÛÛÛÛÜÜܲßÜÛÛ²² (c) Axon Laboratory ÞÛÛÛÞÛÝ ÜÛÛÛ²² ßÛÛÛÛÛÛÜÜÜÛß Û²ß ²²ÛÛÜß²ÜÜÜÛÛÛÛ²²² ÜÜÜßßÛÛÛÛßß Üß Cracker...: AGAiN tEAM! ß²Û ßÛÜÜÜÛÛÛÛÛÛß ÛÛÛ ÜÜß Supplier..: AGAiN tEAM! ßÜ ßßÛÛÛÛßßÜÜÜ ÛÛÛÜ ÜÜÛÛß Packager..: AGAiN tEAM! ßÜÜ ÛÛÛ ßÛÛÛßÛÛÛß Tester....: AGAiN tEAM! ßÛÛÜÜ ÜÛÛÛ ÜÛÛß ßÛÛÛßÛÛÛß ÛÛÛ² Protection..: Dongle ßÛÛÜ ßÛÛÜ Size........: 14 x 4.77mb ÜÜß ²ÛÛÛ ßßß Date........: 02/02/2005 ÜÛÛ ÜÛÛß ÜÜÜßßßßßßßÜÜÜÜ ²ÛÛÛÛÛÛÜ Ü Üßß ßßßÛÛÜÜÜ Ü ßÜ ß²²ÛÛÛÛÛÛÛÛß ÜÜÜÛÛÛÛÛÛÛÛÛÛÜÜ ßÛ²ÜÜ ÞÛÜ ßß²²ÛÛßß ÜÜÛÛßßÜÛÛßß ßßßÛÛÜ ßÜßÛßÜÜÜ ÜÜß ßßÜÜ ÜÛÛÛÛÜ ÛÛÛß ÞÛÛ ßÛÜÜ ÞÝ ßÜÜßßÛ²²ÜÜÜÜÜÜÜÜÜÛÛßß ÞÝ ßßßßÜÜÜÜ ß ÜÜßßßÛÛÛÛÜ ßÛÛÜÜ Ü ÜÛß ßß ÜÜß ÛßßÛÜÜßßßßßßßßß Üß ÜÜÜßßß ÜÛÛ ßßÛÛÜÜ ßßÛÛÛÛÜÜÜÜÜÛÛÛÛÛÛÛÛßß ÜÛ ßßÛÜÜÜ ÜÜÜßß ÜÛß ²ÛÛÜ Üß ßßßÛÜÜÜÜÛÛÛ²²²ßßßßß ÜÜßß ßßÜÜ ßßßßßßß ßÛÜ ßßÛÛÛÛÜÜ ÞÛÜÜÜÜßßß ßßßÜÜÜÜ ÜÜß Üß ßÛÛÛ²Ü R e l e a s e I n f o ßßßßßßÜÜÜÜÜÜÜÜÜÜßßß Û² ÛÜÛÛÛÛß ÜÜÜ ßÜ Û² ÛÛÛÛÛÜ Acuity® 4.0 Enterprise Microarray Informatics ßÛÛ ÜÛÛ ßÛÜÜ ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Acuity is a complete microarray database, data mining, ÜÛßß ÜÛÛ ßÛÛ and visualization package that has been designed and Û² ÛÛÛÛÛß ²ÛÛÜ Üß optimized for Windows. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Analysis ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Normalization ßÛÛ ÜÛÛ ßÛÜÜ Acuity's Normalization Wizard can normalize an ßßÜÜÛÛßß ÜÜßßÛÛÜÜ arbitrary number of microarrays with the click of a ÜÛßß ÜÛÛ ßÛÛ button. Choose to normalize on all spots, control Û² ÛÛÛÛÛß ²ÛÛÜ Üß spots, negative controls or any other subset of spots Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ that you can specify with a fully general database ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü query. Normalize groups of microarrays to a time point ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß or a sample. Choose linear ratio-based methods or ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ non-linear lowess methods, including print-tip groups. ßÛÛ ÜÛÛ ßÛÜÜ Normalizations are easy to apply and remove so that ßßÜÜÛÛßß ÜÜßßÛÛÜÜ you can experiment freely with different methods. Once ÜÛßß ÜÛÛ ßÛÛ you are finished, unnormalized and normalized data are Û² ÛÛÛÛÛß ²ÛÛÜ Üß displayed side-by-side in the Normalization Viewer. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Filtering ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß Establishing data quality is paramount in microarray ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ experiments, as unbiological outliers can skew ßÛÛ ÜÛÛ ßÛÜÜ downstream analyses. Acuity has a large number of ßßÜÜÛÛßß ÜÜßßÛÛÜÜ analytical and statistical tools that you can use to ÜÛßß ÜÛÛ ßÛÛ filter out noise from your data: filter on replicate Û² ÛÛÛÛÛß ²ÛÛÜ Üß statistics, on individual spot characteristics or on Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ many other quality measures. ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Once you have identified outliers, update their flag ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß values in the database, or define your own custom flag ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ values. ßÛÛ ÜÛÛ ßÛÜÜ ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Replicate Analysis ÜÛßß ÜÛÛ ßÛÛ Tracking replicate substances and microarrays is Û² ÛÛÛÛÛß ²ÛÛÜ Üß intrinsic to Acuity analyses. Replicate substances are Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ automatically combined, and can be filtered by ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü standard deviation, coefficient of variation and many ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß other measures. Replicate microarrays can be easily ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ combined to construct representative data points from ßÛÛ ÜÛÛ ßÛÜÜ each time or for each tissue in an experiment. ßßÜÜÛÛßß ÜÜßßÛÛÜÜ ÜÛßß ÜÛÛ ßÛÛ Find Matching Expression Û² ÛÛÛÛÛß ²ÛÛÜ Üß Use Acuity's Match Expression function to investigate Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ the behaviour of individual substances in your ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü experiment. Choose from nine different similarity ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß metrics to find the substances that are most highly ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ correlated with a single profile or to an average ßÛÛ ÜÛÛ ßÛÜÜ profile built from a class of substances. ßßÜÜÛÛßß ÜÜßßÛÛÜÜ ÜÛßß ÜÛÛ ßÛÛ Many Clustering Methods Û² ÛÛÛÛÛß ²ÛÛÜ Üß There is no single analysis technique that can be used Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ for all types of data, so Acuity has a suite of ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü advanced analysis methods, among them Hierarchical ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß Clustering, Self-Organizing Maps, K-Means and ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ K-Medians, Gap Statistic, Principal Components ßÛÛ ÜÛÛ ßÛÜÜ Analysis, Gene Shaving and more. Each algorithm offers ßßÜÜÛÛßß ÜÜßßÛÛÜÜ a large choice of similarity metrics, so that you can ÜÛßß ÜÛÛ ßÛÛ use the analysis that is appropriate for your data. Û² ÛÛÛÛÛß ²ÛÛÜ Üß Use the output of one algorithm as input to the next. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ For example, you can optimally order the branches in a ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü dendrogram from a hierarchical cluster, with the order ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß derived from a Self-Organizing Map or a Principal ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Components Analysis. ßÛÛ ÜÛÛ ßÛÜÜ ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Performance Optimization ÜÛßß ÜÛÛ ßÛÛ All Acuity analyses have been optimized for speed and Û² ÛÛÛÛÛß ²ÛÛÜ Üß memory use on very large data sets so that a standard Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ desktop computer can be used to cluster hundreds of ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü microarrays. Clustering and other processor-intensive ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß tasks are implemented as background processes, so that ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ you can queue and execute multiple analysis tasks ßÛÛ ÜÛÛ ßÛÜÜ while continuing to work on other tasks in Acuity. ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Depending on the size of the dataset and the amount of ÜÛßß ÜÛÛ ßÛÛ computer memory available to Acuity, the clustering Û² ÛÛÛÛÛß ²ÛÛÜ Üß algorithms partition the datasets and perform Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ calculations differently, so that Acuity is always ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü working most efficiently. ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Analysis Audit Trail ßÛÛ ÜÛÛ ßÛÜÜ All Acuity analysis operations and results are stored ßßÜÜÛÛßß ÜÜßßÛÛÜÜ sequentially in the database as they are calculated, ÜÛßß ÜÛÛ ßÛÛ so an audit trail is maintained automatically and Û² ÛÛÛÛÛß ²ÛÛÜ Üß displayed in the Acuity project tree for each data Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ set. You can easily reproduce an analysis, or remove ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü data transformations from microarrays or datasets. ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Substance and Microarray Lists (Quicklists) ßÛÛ ÜÛÛ ßÛÜÜ Acuity Quicklists are a powerful method of saving ßßÜÜÛÛßß ÜÜßßÛÛÜÜ lists of interesting substances, microarrays or ÜÛßß ÜÛÛ ßÛÛ annotations. With the click of the mouse you can save Û² ÛÛÛÛÛß ²ÛÛÜ Üß all selected substances as a quicklist, either Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ globally or with a dataset. Each list can be assigned ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü a color. Together with the ability to apply a list to ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß the current view of the data, so that the substances ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ and microarrays are colored appropriately, colored ßÛÛ ÜÛÛ ßÛÜÜ quicklists give you the ability to track multiple sets ßßÜÜÛÛßß ÜÜßßÛÛÜÜ of substances through all Acuity visualizations. ÜÛßß ÜÛÛ ßÛÛ Û² ÛÛÛÛÛß ²ÛÛÜ Üß Reports and Scripting Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ Like GenePix Pro, Acuity supports standard scripting ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü languages such as VBScript and JavaScript, as well as ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß any other scripting languages supported by Internet ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Explorer, such as PerlScript and PythonScript. Extract ßÛÛ ÜÛÛ ßÛÜÜ data via script, write custom analyses through ActiveX ßßÜÜÛÛßß ÜÜßßÛÛÜÜ objects, generate HTML reports: Acuity scripting is ÜÛßß ÜÛÛ ßÛÛ maximally flexible. Û² ÛÛÛÛÛß ²ÛÛÜ Üß Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ Visualizations ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß Clear and Interactive ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Acuity's clear and interactive display of analyzed ßÛÛ ÜÛÛ ßÛÜÜ data can reveal subtle structure and relationships in ßßÜÜÛÛßß ÜÜßßÛÛÜÜ the data that are not apparent from less elegant ÜÛßß ÜÛÛ ßÛÛ visualizations. Acuity displays clustering results in Û² ÛÛÛÛÛß ²ÛÛÜ Üß many different ways, uses smooth interactive 3-D plots Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ of principal components data (exportable as AVI ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü animations), and synchronizes all views so that ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß substances and their annotations selected in one view ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ are automatically grouped in all other views. ßÛÛ ÜÛÛ ßÛÜÜ ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Color Tables ÜÛßß ÜÛÛ ßÛÛ The Color Table is the central data view in Acuity. Û² ÛÛÛÛÛß ²ÛÛÜ Üß Microarrays are organized into columns, with Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ substances in rows. The table is colored automatically ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü based on user-specified thresholds, and these colors ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß are propagated throughout Acuity. ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ ßÛÛ ÜÛÛ ßÛÜÜ Expression Profiles ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Clusters and other color-based visualizations do not ÜÛßß ÜÛÛ ßÛÛ always demonstrate the co-expression of a set of Û² ÛÛÛÛÛß ²ÛÛÜ Üß substances as effectively as a simple line plot. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ Examine the expression profiles of groups of ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü substances easily with the Acuity Graph tab. ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ 3D Scatter Plots ßÛÛ ÜÛÛ ßÛÜÜ Some analyses, such as Principal Components Analysis, ßßÜÜÛÛßß ÜÜßßÛÛÜÜ are best displayed in three dimensions. Acuity's 3D ÜÛßß ÜÛÛ ßÛÛ display is fast, smooth and fully interactive, so that Û² ÛÛÛÛÛß ²ÛÛÜ Üß you can easily rotate, zoom and select points of Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ interest. You can also export rotating animations as ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü AVI for display on web sites. ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Microarray and Substance Summaries ßÛÛ ÜÛÛ ßÛÜÜ Display dataset, microarray or substance summaries at ßßÜÜÛÛßß ÜÜßßÛÛÜÜ any time. ÜÛßß ÜÛÛ ßÛÛ Û² ÛÛÛÛÛß ²ÛÛÜ Üß Single Microarray View Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ You always have access to your original raw data in ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Acuity, including GenePix analysis images. View your ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß raw data at any time, linked to images, and draw ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ scatter plots of raw data columns. This is an ßÛÛ ÜÛÛ ßÛÜÜ essential tool for microarray quality control. ßßÜÜÛÛßß ÜÜßßÛÛÜÜ ÜÛßß ÜÛÛ ßÛÛ Web Links Û² ÛÛÛÛÛß ²ÛÛÜ Üß With Acuity's web links functionality you are only Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ ever a click away from looking up a substance in any ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü web-based database. Define as many web links as you ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß like, and look up substances based on any identifier. ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ ßÛÛ ÜÛÛ ßÛÜÜ Pathways ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Link directly to web-based pathway sites such as KEGG, ÜÛßß ÜÛÛ ßÛÛ SPA or BioCarta and display and interact with them in Û² ÛÛÛÛÛß ²ÛÛÜ Üß the Acuity interface. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Save As PDF ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß Easily generate publication-quality graphics in ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Portable Document Format (PDF) from all your Acuity ßÛÛ ÜÛÛ ßÛÜÜ analysis visualizations. PDF files are compact enough ßßÜÜÛÛßß ÜÜßßÛÛÜÜ to send as email attachments but retain layout and ÜÛßß ÜÛÛ ßÛÛ font information, as well as preserving the resolution Û² ÛÛÛÛÛß ²ÛÛÜ Üß and quality of graphs and images. PDF files are text Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ searchable and seamlessly import into publishing ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü software packages such as Adobe Photoshop or ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß Illustrator as vector graphics, so that they can be ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ resized without loss of quality. ßÛÛ ÜÛÛ ßÛÜÜ ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Data Management ÜÛßß ÜÛÛ ßÛÛ Û² ÛÛÛÛÛß ²ÛÛÜ Üß A Scaleable Relational Database Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ Data management is the essence of bioinformatics: it ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü is pointless having good data if you cannot store it, ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß access it and share it with colleagues and ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ collaborators. Central to Acuity is its powerful and ßÛÛ ÜÛÛ ßÛÜÜ scaleable relational database that can effortlessly ßßÜÜÛÛßß ÜÜßßÛÛÜÜ store and retrieve terabytes of data. Acuity users can ÜÛßß ÜÛÛ ßÛÛ connect to a central Acuity server from home, from Û² ÛÛÛÛÛß ²ÛÛÜ Üß another lab or from the other side of the world. All Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ configurations are as simple as double-clicking on the ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Acuity icon. ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Manage Multiple Users ßÛÛ ÜÛÛ ßÛÜÜ Acuity now has additional tools for managing multiple ßßÜÜÛÛßß ÜÜßßÛÛÜÜ users at the enterprise level: set permissions for ÜÛßß ÜÛÛ ßÛÛ users and groups on a folder-by-folder basis, show and Û² ÛÛÛÛÛß ²ÛÛÜ Üß hide folders from users and groups. Enterprise Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ microarray informatics has never been easier or more ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü affordable. ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Full Integration with GenePix Pro ßÛÛ ÜÛÛ ßÛÜÜ GenePix scanners, GenePix Pro and Acuity form a ßßÜÜÛÛßß ÜÜßßÛÛÜÜ single, integrated system. Perform acquisition, ÜÛßß ÜÛÛ ßÛÛ first-pass analysis and advanced analysis all within Û² ÛÛÛÛÛß ²ÛÛÜ Üß the one environment. Save your data directly from Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ GenePix Pro to the Acuity database with the GenePix ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Pro "Save To Acuity" command. At the enterprise level, ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß use the Acuity database as a centralized repository ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ for GenePix data. ßÛÛ ÜÛÛ ßÛÜÜ Acuity imports normalized GenePix Pro files in their ßßÜÜÛÛßß ÜÜßßÛÛÜÜ normalized state, so that they can be unnormalized or ÜÛßß ÜÛÛ ßÛÛ renormalized in Acuity using the same normalization Û² ÛÛÛÛÛß ²ÛÛÜ Üß method that was used in GenePix Pro. Acuity recognizes Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ GenePix Pro flagged features, so that when you select ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü features on the image in the Acuity Results tab, the ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß GenePix flags are displayed (see below). ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ ßÛÛ ÜÛÛ ßÛÜÜ Familiar Interface ßßÜÜÛÛßß ÜÜßßÛÛÜÜ The Acuity Project Tree is a high-level view of the ÜÛßß ÜÛÛ ßÛÛ Acuity database. Import thousands of microarrays and Û² ÛÛÛÛÛß ²ÛÛÜ Üß organize them with a Windows Explorer-like tree. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ The Tree behaves like any other Windows tree. You can ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü cut, copy, paste, drag and drop, rename and delete ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß microarrays, folders, datasets and quicklists in the ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ familiar way, as well as assigning access and ßÛÛ ÜÛÛ ßÛÜÜ permissions to users. ßßÜÜÛÛßß ÜÜßßÛÛÜÜ ÜÛßß ÜÛÛ ßÛÛ Full Database Queries Û² ÛÛÛÛÛß ²ÛÛÜ Üß Construct datasets with fully general queries across Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ the entire database with the Query Wizard. The Query ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Wizard allows you to build complex database queries by ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß combining a series of simple, step-by-step conditions. ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ ßÛÛ ÜÛÛ ßÛÜÜ MAGE-ML Export ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Export microarrays in MAGE-ML format for upload to ÜÛßß ÜÛÛ ßÛÛ web-based databases such as ArrayExpress. A growing Û² ÛÛÛÛÛß ²ÛÛÜ Üß number of journals, such as Nature, are requiring that Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ microarray data is made available in MAGE-ML format as ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü part of publication. Acuity gives you the ability to ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß export data in this format. Acuity has on-the-fly ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ compression during export to minimize file sizes. ßÛÛ ÜÛÛ ßÛÜÜ ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Track Microarrays ÜÛßß ÜÛÛ ßÛÛ Manage all the properties of your microarrays, from Û² ÛÛÛÛÛß ²ÛÛÜ Üß slide production through scanning and analysis, and Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ store them in the database, where they can be searched ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü or used to filter data. Acuity can be an indispensable ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß part of your laboratory information management system, ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ as all your microarray experimental data is recorded, ßÛÛ ÜÛÛ ßÛÜÜ stored, analyzed and displayed in the one place. ßßÜÜÛÛßß ÜÜßßÛÛÜÜ ÜÛßß ÜÛÛ ßÛÛ Annotation Management Û² ÛÛÛÛÛß ²ÛÛÜ Üß The Acuity database manages annotations automatically. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ Once annotations are imported, they are displayed ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü whenever a substance is displayed. You can annotate ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß substances using an unlimited number of properties, ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ and link directly to an unlimited number of ßÛÛ ÜÛÛ ßÛÜÜ web-accessible databases. Acuity includes a tool to ßßÜÜÛÛßß ÜÜßßÛÛÜÜ build standard ontologies (biological process, ÜÛßß ÜÛÛ ßÛÛ cellular component, molecular function) automatically Û² ÛÛÛÛÛß ²ÛÛÜ Üß from your annotations. Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü Universal Text File Import ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß Acuity imports tab-delimited text files from any ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ source, including Affymetrix CHP files. Import ßÛÛ ÜÛÛ ßÛÜÜ microarray data files, experiment descriptions, ßßÜÜÛÛßß ÜÜßßÛÛÜÜ substance annotations or any other data in ÜÛßß ÜÛÛ ßÛÛ tab-delimited files. Û² ÛÛÛÛÛß ²ÛÛÜ Üß Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ Advanced Database Management Tools ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü As well as tools to manage users, groups and ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß permissions, Acuity has advanced tools to manage your ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ database at a very low level. Add and delete fields, ßÛÛ ÜÛÛ ßÛÜÜ re-build table indexes to optimise database ßßÜÜÛÛßß ÜÜßßÛÛÜÜ performance, and create new ODBC connections all from ÜÛßß ÜÛÛ ßÛÛ the Acuity client. Û² ÛÛÛÛÛß ²ÛÛÜ Üß Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ Easy To Use ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß Acuity makes enterprise microarray informatics ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ accessible to everyone. From installing and ßÛÛ ÜÛÛ ßÛÜÜ maintaining the database, to managing users and groups ßßÜÜÛÛßß ÜÜßßÛÛÜÜ through to filtering and analyzing your data, Axon has ÜÛßß ÜÛÛ ßÛÛ put every effort into giving Acuity an intuitive Û² ÛÛÛÛÛß ²ÛÛÜ Üß interface. Common tasks are all accessible through Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ small wizards on a toolbar, so that novices can get ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü started on real work quickly. ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ Optimized for Windows ßÛÛ ÜÛÛ ßÛÜÜ ßßÜÜÛÛßß ÜÜßßÛÛÜÜ Microarray datasets are large, and are only going to ÜÛßß ÜÛÛ ßÛÛ get larger. Because Acuity has been designed and Û² ÛÛÛÛÛß ²ÛÛÜ Üß optimized for Windows, it effortlessly manages large Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ datasets, many simultaneous users, and multiple ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü concurrent analyses and visualizations. There are no ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß bottlenecks to accessing, searching, filtering or ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ analyzing your data. If you work on Windows platforms, ßÛÛ ÜÛÛ ßÛÜÜ it makes sense to use software that has been designed ßßÜÜÛÛßß ÜÜßßÛÛÜÜ and optimized for Windows. ÜÛßß ÜÛÛ ßÛÛ Û² ÛÛÛÛÛß ²ÛÛÜ Üß Û² ÛßÛÛÛÛÜ ßßÛÛÛÛÜÜ ßÜ ÜÛÛÛ²ß Üß ßÛÛÛ²Ü ÜÜÛÛÛÛßß Û² ÛÜÛÛÛÛß ²ÛÛß ßÜ Û² ÛÛÛÛÛÜ ßÛÛ ÜÛÛ ßÛÛÜÜ ßßÜÜÛÛßß ßÜÛÛßÛÜÜÜÜ ÜÛßß ßßßÜÜÜÜßßßßßßßßÜÜÜÜÜÜ Û² ÜÜÜ Üß ßßßßßßÜÜÜÜÜÜ ßßßßßÜÜ ÜÜÛßßßÛÜÜ ÜÜÜ Û² ß ßßÜ Û² ßßßßßÜÜ ßÜ ÛÛÛÛÛ²²²²²Û ÜÛÛß ÜÛß ßÜ ÞÝ Û² I n s t a l l I n f o Û Üß ÛÛÛÛÛÛÛ²²²Û ÛÛÛ ÛßÛ ÜÜß ßßÜÜÜÜß ßÛÜÜ ÜÜÛßß ßßÛÛÛÛÛßß ßÛÛÜÜ ÜÜß ßßßß Üß ÜÜßßÛÛÜÜ ßßßß Û² ÛÛÛÛÛß ÜÛÛ ßÛÛ Unzip, unrar and install the application. Û² ÛßÛÛÛÛÜ ²ÛÛÜ Üß Extract the included patch into your app''s dir and ßÜ ÜÛÛÛ²ß ßßÛÛÛÛÜÜ run it. ÜÜÛÛÛÛßß Üß ßÛÛÛ²Ü Note that you need to have Microsoft SQL/MSDE or ²ÛÛß ßÜ Û² ÛÜÛÛÛÛß Oracle 9 installed, or have remote access to it, in ßÛÛ ÜÛÛ Û² ÛÛÛÛÛÜ order to use Acuity's database features. ßßÜÜÛÛßß ßÛÜÜ ÜÛßß ÜÜßßÛÛÜÜ Enjoy. Û² ÛÛÛÛÛß ÜÛÛ ßÛÛ Û² ÛßÛÛÛÛÜ ²ÛÛÜ Üß ßÜ ÜÛÛÛ²ß ßßÛÛÛÛÜÜ ÜÜÛÛÛÛßß Üß ßÛÛÛ²Ü ²ÛÛß ßÜ Û² ÛÜÛÛÛÛß Ü ßÛÛ ÜÛÛ Û² ÛÛÛÛÛÜ ÛÜÜ ßÜÜÜ ßßÜÜÛÛßß ßÛÜÜ ßÜÜ Üß ßßÜ ßÜßßÜÜ ÜÜÛÛÜÜ ÜÜ ÜÜÜÛÛ²²²²ÜÜÜ ÜÛßß ÜÜßßÛÛÜÜ ßßß Üß Û ßßÜ ß ßÛÜ ß²²ß ß ßßÜ Û² ÛÛÛÛÛß ÜÛÛ ßÛÛ ßßßÜÜÜÜß ÞÝ ÛÛ ßÛ² ÛßÛÛÛÛÜ ²ÛÛÜ Üß ÜÜß ÜÛß - J o i n U s ! - ßÜ ÜÛÛÛ²ß ßßÛÛÛÛÜÜ ßßÜÜÜÜÜÛßß ÜÜÛÛÛÛßß Üß ßÛÛÛ²Ü ²ÛÛß ßÜ Û² ÛÜÛÛÛÛß Here we are AGAiN! Our team is based on talented and ßÛÛ ÜÛÛ Û² ÛÛÛÛÛÜ experienced people from different known groups which ßßÜÜÛÛßß ßÛÜÜ capabilities connected together can do something ÜÛßß ÜÜßßÛÛÜÜ outstanding. If you are interested in joining Û² ÛÛÛÛÛß ÜÛÛ ßÛÛ us and if you think we might need you then get in Û² ÛßÛÛÛÛÜ ²ÛÛÜ Üß touch with us at: team-again@hush.com ßÜ ÜÛÛÛ²ß ßßÛÛÛÛÜÜ ÜÜÛÛÛÛßß Üß ßÛÛÛ²Ü Experienced crackers, coders, software/hardware ²ÛÛß ßÜ Û² ÛÜÛÛÛÛß suppliers, shell owners, are currently the ones we are ßÛÛ ÜÛÛ Û² ÛÛÛÛÛÜ mostly looking for. ßßÜÜÛÛßß ßÛÜÜ ÜÜÜÜß ÜÜÜÜ ÜÛßß ÜÜßßÛÛÜÜ ÜÜÜßßßßßßßßÜÜ Üßß Üß ßÜ ßßÜ ÜÜßßßßßßßßÜÜÜ Û² ÛÛÛÛÛß ÜÛÛ ßÛÛßßÜÜÜÜÜÜÜÜ ßÜß ßÜ Üß ßÜß ÜÜÜÜÜÜÜÜßßÛ² ÛßÛÛÛÛÜ ²ÛÛÜ ÜßÜßß ßÛÛÛ Üß ßÛÜÜÜÜÜÛß ßÜ ÛÛÛß ßßÜßÜ ÜÛÛÛ²ß ßßÛÛÛÛÜÜ ÜÛÛÜÜÜßß ßßß ßßÜÜÜÛÛÜ ÜÜÛÛÛÛßß Üß ßÛÛÛ²Ü G r e e t i n g s ²ÛÛß ßÜ Û² ÛÜÛÛÛÛß ßÛÛ ÜÛÛ Û² ÛÛÛÛÛÜ VRL - ORiON - EAT - TSZ - SAC - LND - TDA - SSG - ECL ßßÜÜÛÛßß Û² ܲÛß ßÜ ßÜ ßÜ ßÜ ²²Û ßÜÜ ßßßßßßßßßßßßßßßßßßßßßßßßß ÛÛßßßßßßßßßßßßßßßß ÛÛßßßßßßßßßß Ûßß ²ÛÛ ßßßÛÛÛ ßßÛÜÜÜ Üß ßßÜÜ Üß ßÜÜÜ ÜÜß ßÛÛÜÜÛÛÛß ßßßÛÛÜÜÜÜ ÜÜÜÜßß ßßßßÜÜÜÜÜÜßß ßßßßß ßßß ßßßßßßßßßß Ü ÜßßÛÛÜ Ü ÜÜÜÜßß ÛÛÛ Ü²Ü ÜÜÛÛÛÛßß ÜÛÛß ßÜÛÛÛÛÜÜÜÛ²²²ß ÜÜÜÜÜÜ ÜÜßß ÜÜÜÜ sCr/strick9! ßßß ßßßÛÛÛÛÛÛÜÜÜ ÜÜÜßßßß ÜÜÛßß ßßßÜÜ ÜÜÛÛÛÛÜ ²²²² ßßÛÛÛÜ Üßß ÜÛßÛÛÜ ÜÛÛÜÜ Üß ßÛÛÛÛ ßÛÛÛ ÛÛÛ ÞÝ ßÜ ÜÛÛÝ ÛÛÝ ÜÜÜÜÜÜÜÜ ÞÛÛßÞÛÛ ÞÝ ÜÛßß ßÛÛÜ ÛÛÛ ßÜ ÜÛ ÛÛ ÛÛÛ ÜÛÛßß ÞÛÛÝ ÞÛÛ ÛÛÝ ÜÛÜÛÛÛ ß ÞÛÛÜ ßßÞÛÛÝ ßÛÛÛß ÞÛÝ ÞÛÛÜÞÛÛÛ ÜÛÛÛ ÜÛÛÝ ÞÛÛ ß ÞÛÛÝ ÛÛÛÛÜ ÛÛÛ ßßÜÜ ßÜÜ ÜÛÛÜÜßßÛÛÝ ßÛÛÛÛßÞÛÛÝ ÛÛÝßßÜÛÛÛÜ ÛÛÛ ÞÛÛÝßÛÛ ÛÛÛ ÛÛÛÜ ßÛÛÜÜÜÜÛÛßß ÜÛÛÛÜ ÜÛÛß ÞÛÛÜÜÜ ßßßÛÜÜÜ ÜÜÛÛß ßÛÜÞÛÛÝ ÛÛÛÛ ßßßß ßÛßßÛÛÛÛßß ÜÛß ßÛÜ ÜÜÜßßßß ßÛÛÛÛÝ ÜÜÛÛßß ßÜÜ ÜÜßß ÜÛß ÛÛÛÜ Ü²Ü ßÛÛÛÛßßß Ascii Header ßßßßß ÜßßßßßÛÜÜ ßßÛÛÛÛÜÛÜÜ ÜÜÜ and layout by Scour/SAC 2003. ßÛÛÜ ßßßÛÛÛÛÛÛÜÛÛÛß Ascii footer by Scour and Strick9. 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