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A00-250 test Format | A00-250 Course Contents | A00-250 Course Outline | A00-250 test Syllabus | A00-250 test Objectives

Exam Name SAS Certified Platform Administrator for SAS 9
Exam Code A00-250
Exam Duration 110 minutes
Exam Questions 70 multiple-choice and short-answer questions
Passing Score 70%

Successful candidates should be able to:
Secure the SAS configuration on each server machine.
Check status and operate servers.
Monitor server activity and administer logging.
Establish formal, regularly scheduled backup processes.
Add users and manage their access.
Establish connectivity to data sources.
Set up and secure metadata folder structures.
Administer repositories and move metadata.

Exam Contents
Securing the SAS configuration
Secure a SAS platform configuration.
Update SAS Software
Monitoring the Status and Operation of SAS Metadata Servers
Manage metadata repositories.
Identify the properties and functionality of SAS servers.
Configure a SAS Metadata server cluster.
Monitoring, Logging, and Troubleshooting SAS Servers
Monitor SAS servers.
Administer SAS server logging and modify logging configurations.
Troubleshoot basic SAS server issues such as server availability.
Backing Up the SAS Environment
Backup and restore the SAS environment.
Administering Users
Manage connection profiles.
Manage roles.
Register users and groups in the metadata.
Give users access to processing servers and data servers.
Determine when to store passwords in the metadata.
Manage internal SAS accounts.
Identify SAS server authentication mechanisms.
Administering Data Access
Register libraries and tables in the metadata.
Update table metadata.
Pre-assign a library.
Troubleshoot data access problems.
Use the metadata LIBNAME engine.
Managing Metadata
Identify how the metadata authorization layer interacts with other security layers.
Identify where, how, and to whom metadata permissions are assigned.
Determine the outcome of metadata authorization decisions.
Use metadata permissions to secure metadata.
Create and use Access Control Templates.
Promote metadata and associated content.

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SNPing Away at Genome-large sickness affiliation reviews | A00-250 cheat sheet and Study Guide

August 8, 2007 | This yr has seen a torrent of experiences in scientific journals and mainstream media saying the effects of reports linking a gene variant to an elevated risk for typical illnesses — diabetes, Alzheimer’s disease, and heart sickness, as an instance. as the big apple instances cited lately, “The sudden spate of latest genes marks an acceleration, and maybe a turning point, within the skill to locate sickness genes.”

recent breakthroughs encompass the discovery of varied genetic versions linked to type 2 diabetes, because of genome-vast association (GWA) efforts through consortia led via the extensive Institute’s David Altshuler (Science 316,1331-1336; 2007), Michigan’s Michael Boehnke (Science 316,1341-1345; 2007), and Oxford school’s Mark McCarthy ( Science, 316,1336-1341; 2007), as well as by means of deCODE Genetics. The Icelandic company changed into additionally the supply of a July file in Nature (doi:10.1038/nature06007) linking two variations to chance of atrial fibrillation, probably the most ordinary coronary heart arrhythmia. interestingly, the mutations lie adjacent to a gene widespread to be thinking in coronary heart construction. And in June, deCODE mentioned that a standard variant on chromosome 9 influences the chance of myocardial infarction (Science 316,1491-1493; 2007).

Alzheimer’s disease has been one other focal aspect for GWA reviews. A joint effort with the aid of the Phoenix-based Translational Genomics analysis Institute and other Arizona Alzheimer’s groups surveyed more than 500,000 SNPs and identified six variants in the GRB-associated binding protein 2 (GAB2) gene associated with late-onset Alzheimer’s ailment (Neuron fifty four, 713-720; 2007). an additional trade-academia collaboration with PGxHealth (New Haven, CT) getting to know schizophrenia used 500,000 markers to pinpoint a couple of novel rare mutations in a cytokine receptor gene (Molec Psych 12, 572-580; 2007). The community concluded that this candidate gene might help clarify epidemiologic facts suggesting an improved possibility for schizophrenia in individuals with autoimmune disorders, prenatal an infection, and familial leukemia.

In may additionally, reports in Nature (447,1087-1093; 2007) and Nature Genetics (39, 870-874; 2007 and 39, 865-869; 2007) recognized up to five standard genetic variations that confer an extended chance of breast melanoma. These findings emanated from a consortium led by using Doug Easton (melanoma research UK), David hunger (Harvard school of Public health), and deCODE.

Mapping sickness-related genes and SNPs marks the starting of a brand new genomic revolution with the intention to see the convergence of sequencing records, genotyping information, differential gene expression records, pedigree and population information, old/archived information, and scientific facts to allow the assessment of disorder possibility, book screening efforts, and pave the style for ailment prevention innovations, early analysis, safer and more positive treatments, and more desirable prognostic equipment.

a few factors are using the dramatic discovery of these gene-disease associations, chiefly exponential advancements in hardware and utility that enable tremendous-scale GWA experiences. And contributing to the ease of implementation of this evolving know-how base is the cooperative effort among the many vendor neighborhood to maximise compatibility of the hardware and utility.

Hardware and software suppliers rightfully claim a contributory function in accelerating the lengthy-awaited consequences of significant-scale GWA reviews. although it is the synergism between microarray systems, software, and consumer abilities and comments that represents the premiere spark igniting the latest firestorm of SNP/ailment associations, carriers want to tout their contributions. for example, Affymetrix would like you to understand that its know-how changed into used through the Wellcome believe Case handle Consortium for a tremendous analyze of 14,000 circumstances of seven common ailments (Nature 447, 661-678, 2007; see p. 6). And Illumina expertise was on the coronary heart of contemporary GWA reviews of prostate cancer and amyotrophic lateral sclerosis.

The Affymetrix Genome-broad Human SNP Array 6.0 GeneChip, introduced in can also, contains basically one million probes for detecting single nucleotide polymorphisms (SNPs) and duplicate quantity variants (CNV) (See “including CNVs to the combine”). In June, Illumina launched a greater than 1-million SNP chip — the Human1M DNA analysis BeadChip — that additionally comprises about 50,000 probes targeted to genomic hotspots for CNVs.

These two microarray rivals are sarcastically furthering collaboration across trade and academia by way of advancing significant-scale genotyping efforts. Affymetrix has a GeneChip Consortia program and the Affymetrix developers’ network, a discussion board for software developers. The Illumina-connect bioinformatics application partnership, launched in may, includes companies reminiscent of Biocomputing systems, GenoLogics, GeneData, GeneSifter, Golden Helix, InforSense, Ingenuity programs, Partek Genomics, Rosetta BioSoftware, Sapio Sciences, and SAS/JMP Genomics. associate businesses create personalized plug-ins that facilitate integration of their algorithms and facts programs with the statistics generated on Illumina or Affymetrix structures and application.

“Our companions naturally ... recognize that no single software answer will meet the wants of all researchers,” says Omoshile Clement, Illumina’s senior product supervisor of systems. “The purpose is to shorten the time and enhance the best of information evaluation, ensure that the informatics component of GWA is not a bottleneck, and permit a seamless transfer of facts from the microarray platform to diverse computational applications.” In June, Illumina initiated iControlDB, a genotyping handle repository for use by means of researchers conducting case-handle GWA reviews. The intention is to deliver access to a collection of genotypes from just about 10,000 handle samples.

A Turning PointA host of latest computational thoughts and equipment are increasing the pace and breadth of facts analysis and the statistical power of GWA reviews. they are additionally riding advancements within the QA/QC of genotyping projects and galvanizing sparkling self assurance within the value of disorder association reviews. here is a must-have as researchers move beyond the low hanging fruit, or extra intuitive sickness-gene linkages, and begin discovering diversifications in genes that don't seem to be always energetic in pathways or regarding ordinary disorder strategies.

“it is crucial to construct into the application avoidance of flaws and statistical error, so clients aren't producing spurious affiliation outcomes,” says Andy Ferrin, VP of sales and advertising at Golden Helix. as with all experimental technique, GWA comes with noise and limitations. All too often, researchers do not avail themselves of the knowledge of statisticians when designing an experiment, says Brian Gilman, president of Panther Informatics and SciLink. The leading statistical problem in GWA experiences issues the “skills for inherent flaws, primarily when combining experimental structures,” says Gilman. An example might possibly be inspecting case-handle records from an Affymetrix or Illumina platform with a extra focused SNP evaluation the use of the Sequenom platform.

“The biggest use of application techniques in giant-scale genotyping tasks these days is for performing QC and QA” — laboratory counsel administration kinds of purposes, says Gilman. organizations deserve to consider the raw statistics and check the quality of the pattern spotting, the superb and poor controls, the quality of the chips, and the records output.

Gilman says the enhancing working relationship between business and tutorial companions represents an important alternate, enabling corporations to admire early on the obstacles of their application systems, permitting speedy advancements to commercial products. “I feel individuals now improved consider the use and obstacles of a platform for a particular form of study,” says Gilman, thereby contributing to the glut of contemporary GWA wins.

tracking a ailment-connected SNP is one thing, however researchers desire “to be aware the organic context and importance of the statistical association,” says Megan Laurance, senior scientist at Ingenuity systems. indeed, many experts see a shift from primary genetic confirmation — copy of an association in a 2nd inhabitants — to systematic purposeful confirmation stories, which validate the outcomes via contemplating the biological context of the adaptation in selected genes.

Ingenuity’s flagship product, Ingenuity Pathways evaluation, takes experimentally derived gene lists and plugs them into the application to identify which pathways, mobile techniques, ailment phenotypes, and molecular interactions are implicated for a specific set of genes.

“The problem on the application facet is to supply a fluid workflow,” says Laurance. as an instance, the UC-Santa Cruz “Golden route” Genome Browser is a popular portal for selecting SNPs and mapping genes. Ingenuity ensures that its utility helps analysis workflows from the browser, permitting clients to extract and plug genes into Ingenuity utility and put them right into a biological context. Laurance provides that, “for pharma corporations that usually have gigantic bioinformatics/computational teams and should be would becould very well be forward of public mapping efforts, they give programmatic equipment that facilitate a seamless link to their purposes.”

Commenting on the value of compatibility with the leading microarray systems, Kevin Cramer, CEO of utility producer Sapio Sciences, builders of Exemplar LIMS and Exemplar Analytics for genotyping statistics,  says, “Ninety percent of the problem is not in running the utility however fairly within the upfront loading and formatting of the statistics.” information input must be as seamless as possible and accommodate researchers the use of a variety of public area and vendor equipment, every with their own abnormal or proprietary data formats.

Illumina’s Clement identifies a number of key challenges, including the need for greater statistical energy to mine gigantic datasets and achieve P values that yield at least an eighty% self belief interval. Ideally, novel computational and records analysis methods might enhance statistical vigour without the deserve to stream to bigger demo sizes, by way of maximizing the sign-to-noise ratio of GWA studies. “The crown jewel can be the means to resequence a selected SNP/gene and validate it as a biologically crucial marker for a specific disorder,” says Clement.

tendencies and TrajectoriesThe incorporation of more and more distinctive styles of statistics in GWA reviews, similar to analyses of methylation patterns, is pressuring application firms to Strengthen loads of solutions. a further precedence within the evolution of GWA application is to make it more purchasable to a broader latitude of end-users, together with clinicians who can be making use of the consequences to affected person populations to guide screening, diagnostic, prognostic, and remedy planning selections.

“With the rate of genotyping plummeting, the density of chips expanding,” and the variety of GWA stories international soaring, “it isn't any longer purposeful for all of the facts analysis to be finished with the aid of statistical geneticists at colossal institutions,” says Ferrin of Golden Helix. The secret's to strike a stability between proposing powerful functionality in an intuitive yet bendy workflow that may also be without difficulty applied with the aid of non-programmers and non-statisticians.

As agencies are increasingly fitting overloaded with uncooked microarray statistics, application companies are relocating towards novel information administration solutions. These will also have an important function in helping conclusion-clients leverage historic datasets to perform tremendous comparative, population-primarily based reports. “there is a strong should take legacy information and merge it with the information being generated nowadays,” says Sasha Paegle, senior product supervisor at Rosetta BioSoftware.

Recognizing the “intimate relationship” between statistical geneticists, clinicians, and genotyping core agencies, Rosetta designed its Syllego system to provide a assignment workspace for organizing genotype and reference information, to provide context to the analysis results and provide a way to share the consequences. Says Paegle: “The intention is to permit scientists to resolve their scientific question using computational methods or equipment of their deciding upon.”

“Genetics is an ‘historic’ container,” says Paegle, “and as a end result there are many different file formats, which introduces some friction between collaborators,” who want to share each raw facts and analysis effects. “there's at the moment no consistent method to share information,” Paegle provides.

Partek’s GS software “combines effective statistical evaluation, interactive visualization, is clever in regards to the human genome, and has a person interface designed to be used by means of the scientist — putting the evaluation into the palms of the medical researcher,” says Partek president and CEO, Tom Downey.

transferring the BottleneckThe transforming into number of GWA information facets is mind-blowing, with 1-million SNP microarrays and GWA studies comprising up to 20,000 patient samples. Some agencies are even deliberating reviews as much as 100,000 sufferers, says Christophe Lambert, president and CEO of Golden Helix. The boom in genotyping chip density is even exceeding Moore’s law, up some tenfold in the past 18 months, estimates Lambert. “if you happen to believe the two gigabyte restrict of 32-bit structure processors, we’re beginning to hit a wall,” he says.

These expanding numbers have compelled corporations to conform. four years ago, Sapio Sciences took root in the days when state-of-the-paintings technology changed into the Affymetrix 10K Array, recalls CEO Cramer. over the years the enterprise has brought clustering, haplotype analysis, quantitative trait analysis, gene ontology mapping, and, most currently, covariate analysis modules to its Exemplar evaluation Suite. Cramer says Sapio’s latest product liberate can utterly make the most of three GB of reminiscence (utilizing a three-GB swap within the boot file of home windows XP professional or Server) enabling users to manner 50% more samples than with a normal 2-GB equipment.

however the standard view that hardware, primarily memory potential, limits the analysis of enormous datasets is “a big fallacy within the business,” says Gilman of SciLink. Bioinformaticians are customarily now not computing device scientists, nor are they educated in a way to use memory efficiently and how to tweak a device or algorithm to maximize computing device performance.

BC/SNPmax is Finland’s Biocomputing systems’ scaleable database administration system for GWA that allows the collection and integration of genotype and phenotype information and the interface with downstream statistics evaluation equipment. “We center of attention on the workflows in a study and [by creating a user-defined interface] make it viable to cut up an issue into small items, run these in parallel in a laptop cluster, and hyperlink to distinct analytical equipment,” says Timo Kanninen, Biocomputing’s founder and know-how director.

The genome work pioneered in colossal genome facilities is spreading to smaller groups that typically lack the tools or skills to create their personal application environments for managing records. From a funding viewpoint, Pekka Mäkelä, managing director of Biocomputing systems, observes that whereas furnish funds has been quite simply available to Strengthen GWA hardware, funding companies “now need to see a smartly-developed plan to control and analyze the statistics” and are more inclined to provide funds to aid bioinformatics wants.

One may debate the relative deserves of disbursed or grid computing ideas for sharing the load of particularly data-intensive analyses throughout distinctive processors found either inside a computer or throughout tens, tons of, or heaps of CPUs. inspite of the real method, grid computing offers a possible solution to the need for expanded speed and reminiscence potential for GWA experiences. varied computers can independently analyze small packets of information, corresponding to discrete ranges of SNPs, and the accrued data can then be mixed, interpreted, and presented to the consumer.

Golden Helix has developed a GWA grid solution that can manage the statistics produced by means of the next generation of GWA systems the use of chips with more than a million SNPs and tens of thousands of patient samples. in comparison to the open supply ideas regularly developed in academia to tackle GWA records in batch jobs, Lambert says that this product can “interactively video display the progress of these batch jobs in the context of their user interface.” That interface supports both the Condor Pool (a grid equipment developed at the tuition of Wisconsin) and United equipment’s Grid MP frameworks.

For now, even though, in keeping with Josh Forsythe, advertising director at Golden Helix, the enterprise’s HelixTree application can function interactive GWA stories on a standard computing device in an inexpensive time. for example, HelixTree software become deployed in a fresh study that identified a schizophrenia susceptibility locus conducted in several hundred sufferers the usage of the Affymetrix 500K Array (Molec Psychiatry 12, 572-580; 2007). Forsythe provides that HelixTree has been efficaciously used internally in conjunction with the Affymetrix SNP GeneChip 6.0 Array.

In an identical vein, Agilent’s computing device tool, GeneSpring GT, has been used to analyze high volume, high density genotyping statistics in combination with GeneSpring GX for gene expression facts evaluation to look at schizophrenia and bipolar sickness.

Prepping for personalized MedicineIn may additionally, SAS Institute hosted the FDA-led MicroArray nice handle Consortium (MAQC), which is conducting a look at of microarray know-how. MAQC individuals from SAS were using the company’s JMP Genomics  application to investigate the MAQC datasets and monitor consequences in a graphical format. The consortium recently shaped a subgroup a good way to focus on GWA stories, proof of the becoming interest in the usage of microarray statistics to foretell ailment risk and scientific results as part of the vogue against customized drugs.

JMP Genomics is a device for importing, analyzing, and visualizing SNP, expression, and proteomics records. Designed for users with confined programming capabilities, it allows for them to access advanced SAS genetic analysis tools. Russ Wolfinger, SAS’ director of scientific discovery and genomics, says the company’s software can also be used to visualize genotyping information, plotting P values alongside a illustration of a chromosome, with peaks revealing hotspots of association. “From this excessive level visual field of the statistics, the software allows you to highlight essentially the most significant outcomes and ‘drill down’” to focal point on these gene regions, says Wolfinger.

JMP Genomics can perform most important accessories evaluation of genetics information to seek population substructures or family relationships. most important add-ons evaluation is one among several dimension reduction suggestions that can be used to identify patterns or developments in information.

InforSense’s analytical workflow platform goals translational analysis projects and is designed to support medical hypothesis technology. “Researchers use the business’s ClinicalSense product, which allows you to slice and dice through massive datasets, to generate affected person subpopulations reminiscent of responders versus non-responders,” explains CSO Jonathan Sheldon.

Describing that as a “logical entry factor into a personalized medicine examine,” Sheldon says that combining ClinicalSense with the more moderen GenSense genome-extensive genetic analysis software equipment helps establish the genetic foundation for these adjustments.

“the way you interpret the statistical outcomes and share them with the wider user community is a problem for the GWA field,” says Sheldon, describing the interactive portal approach InforSense took in designing GenSense, which “allows for non-statisticians to make biological feel of genetic studies carried out at the whole genome scale.”

Panther’s Gilman predicts that the next evolution of GWA technology should be to make use of the haplotype map as a tool for stratifying patient populations for clinical trial and pharmacogenomic functions.

In Spring 2007, Washington school’s Genome Sequencing middle (GSC) acquired a $156 million, four-yr furnish from the countrywide Human Genome research Institute (NHGRI). “we are relocating more and more to a medicinal focus, re-sequencing areas of the human genome and targeting genes of interest for diverse diseases,” says GSC assistant director David Dooling. “we are the usage of expression array and assistance on [CNVs] and lack of heterozygosity to inform selections on which regions [of the genome] to re-sequence.”

For now, entire genome SNP and CNV evaluation are assisting to map areas of hobby for scientific sequencing, however Dooling predicts, “entire-genome sequence is not too a ways off, making genome-large analysis at the sequence degree viable.”

Genizon BioScience’s John Raelson concurs that entire-genome sequencing expertise will doubtless dominate the genome analysis landscape within the subsequent 5 years. “The real future [for GWA studies] might be in pharmacogenomics, incorporating a whole genome affiliation analyze into a clinical trial to identify genes affecting response to a drug,” says Raelson.

Sidebar: Genizon Horizon

The Montreal firm Genizon BioSciences leverages its access to DNA samples from greater than 50,000 Topics in the Quebec French Canadian founder population to study the genetic foundation of 25 ailments (See “The Galileo Code,” Bio•IT World, Feb. 2005). The business has accomplished ten entire genome scans, including Crohn’s disorder, asthma, Alzheimer’s ailment, schizophrenia, and a focus deficit hyperactivity disorder.

Genizon’s IT infrastructure contains an FDA-compliant LabVantage Sapphire LIMS, an eResearch technology clinical Database management gadget with digital information seize and signature capabilities, a 32-terabyte storage enviornment network, and a 288-CPU computing grid for statistics analysis.

Borivoj (Bora) Stojkovic, Genizon’s software architecture chief, describes the company’s proactive strategy to the inexorable growth in SNP densities and GWA pattern sizes. Genizon simulates enormous datasets to determine and strengthen strategies aimed toward preempting current bottlenecks. with the aid of experimenting with compressed models of the datasets, “we will load them into reminiscence and nonetheless have access to all of the records with out chewing up all of their reminiscence,” says Stojkovic. “We must decompose the area in an effort to converge to a smaller dataset,” partitioning the information into smaller blocks and then processing individual blocks the use of diverse CPUs.

Stojkovic says Genizon’s latest compression thoughts will reduce the firm’s file storage footprint “by a factor of up to 20.” At quite a few compute-intensive ranges of an evaluation, Genizon may additionally partition its databases among grids and clusters built-in into its pipeline. The company’s internal grid automatically distributes the records amongst lots of CPUs in a cluster. To manipulate several types of records, Genizon standardizes on its own inner information format, funneling facts from exterior sources via conversion filters.

Stojkovic emphasizes, besides the fact that children, that whereas counting on quite a lot of tactics to disbursed or grid computing presents particular benefits, the primary aim should be to streamline and optimize the computational notion approaches and the algorithmic fluency, enhancing integration and hyperlinks, and to tighten and refine the language and stream.

Subscribe to Bio-IT World  journal.

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