get a scouting report. - cambridgesoft · 0983 4 98 2 9 34 09 0 2 3 4 8 8 08 9 3 24 3 24 8 2 4 0 3...
TRANSCRIPT
Jumpstart frees microarray researchers from time-consuming initialanalysis tasksby providing them with reports, tools andinterpretation of biological data obtained using reliable andrepeatable methods. Jumpstart includes not only a clear, concisescouting report to help you get started , but also thoroughscreenshot-based presentations that demonstrate how your data wasanalyzed, submission of your data to the GEO public data repository(required for publication in many journals), and setup of your data inyour GeneSifter account, prepared for in-depth analysis. WithJumpstart, the initial scouting of the basic data analysis is done foryou, helping you to skip ahead and understand the biology thatyour data represent.
Setup of your data into yourGeneSifter account
Quality assessment usingboxplots and scatterplots
Written summary of statistical analysis and biologicalsignificance
Your choice of RMA, MAS5 or GC-RMA analysis
Filtered gene lists using "R"validated statistical methods
Summary of significantontologies and pathways
Live and recorded WebExpresentations of results
Statistical correction techniques for multiple testing includingboth FDR and FWER methods
Submission to the GEO public data repository
Accessible anywhere, anytime via web-based GeneSifter®
Jumpstart™for Affymetrix® GeneChip®
includes:
Heading into a forest of microarray data analysis?
Get a scouting report.
WebEx Presentations
Written Report
Submission to GEO
Upload to GeneSifter,accessible from anywhere
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Yourmicroarray data
Standard analysis reports are designed to allow scientists to spend more time on the biology of their
research, and less time on statistics, providing basic standardized analysis of biological data obtained
using reliable and repeatable methods. The GeneChip Jumpstart is the only standard analysis report that
h, and less time on statistics, providing basic standardized analysis of biological data obtained using
reliable and repeatable methods. The GeneChip Jumpstart is the only standard analysis report that
includes, not only a clear, consise report that contains the data you need to get started, but also thorough
screenshot-based presentations that demonstrate how the data was analyzed, upload of your data to GEO
to prepare for publication, and upload and systematization of your data in GeneSifter, prepared for in-
depth analysis. With the GeneChip Jumpstart, the mundane burden of basic data analysis is taken off
your shoulders, and you are released to understand the biology that your data represent.
Standard analysis reports are designed to allow scientists to spend more time on the biology of their
research, and less time on statistics, providing basic standardized analysis of biological data obtained
using reliable and repeatable methods. The GeneChip Jumpstart is the only standard analysis report that
includes, not only a clear, consise report that contains the data you need to get started, but also thorough
screenshot-based presentations that demonstrate how the data was analyzed, upload of your data to GEO
to prepare for publication, and upload and systematization of your data in GeneSifter, prepared for in-
depth analysis. With the GeneChip Jumpstart, the mundane burden of basic data analysis is taken off
your shoulders, and you are released to understand the biology that your data represent.Standard analysis
Standard analysis reports are designed to allow scientists to spend more time on the biology of their
research, and less time on statistics, providing basic standardized analysis of biological data obtained
using reliable and repeatable methods. The GeneChip Jumpstart is the only standard analysis report that
h, and less time on statistics, providing basic standardized analysis of biological data obtained using
reliable and repeatable methods. The GeneChip Jumpstart is the only standard analysis report that
includes, not only a clear, consise report that contains the data you need to get started, but also thorough
screenshot-based presentations that demonstrate how the data was analyzed, upload of your data to GEO
to prepare for publication, and upload and systematization of your data in GeneSifter, prepared for in-
depth analysis. With the GeneChip Jumpstart, the mundane burden of basic data analysis is taken off
your shoulders, and you are released to understand the biology that your data represent.
Standard analysis reports are designed to allow scientists to spend more time on the biology of their
research, and less time on statistics, providing basic standardized analysis of biological data obtained
using reliable and repeatable methods. The GeneChip Jumpstart is the only standard analysis report that
includes, not only a clear, consise report that contains the data you need to get started, but also thorough
screenshot-based presentations that demonstrate how the data was analyzed, upload of your data to GEO
to prepare for publication, and upload and systematization of your data in GeneSifter, prepared for in-
depth analysis. With the GeneChip Jumpstart, the mundane burden of basic data analysis is taken off
your shoulders, and you are released to understand the biology that your data represent.Standard analysis
reports are designed to allow scientists to spend more time on the biology of their research, and less
time on statistics, providing basic standardized analysis of biological data obtained using reliable and
repeatable methods. The GeneChip Jumpstart is the only standard analysis report that includes, not only
a clear, consise report that contains the data you need to get started, but also thorough screenshot-based
presentations that demonstrate how the data was analyzed, upload of your data to GEO to prepare for
represent.
All done for you:
Significance SummaryA written summary ofyour data's statisticaland biologicalsignificance.
Submission to GEOYour data formatted forand sent to the GEOpublic data repository,a requirement forpublication in manyjournals.
Quality AssessmentYour data analyzedusing boxplots,scatterplots and otheranalysis tools.
Advanced AnalysisYour data uploadedusing RMA, MAS5 orGC-RMA analysis.
More support availableLive and recorded WebExpresentations of all analysisperformed.
Biological SummariesOntology and pathwaylists provided for yourgene lists.
Comparison StatisticsStatistical analysis usingcomparison statisticsincluding t-test, theWilcoxon rank-sum test,Welch's t-test, ANOVA andothers.
Jumpstart requires the GeneSifter Data Analysis system. Visit www.genesifter.net forsample screens, a complete feature list, descriptions, downloadable user manual, casestudies, demonstrations and a free trial account.
VizX Labs, maker of GeneSifter200 West Mercer Street, Suite 500, Seattle, WA 98119 USAPhone 206.283.4363 Fax 206.283.1606 Email [email protected] 877.WEB.GENE (877.932.4363) Please visit us at www.genesifter.net
GeneSifter's satisfied customers include:Avalon Pharmaceuticals, Novartis, Harvard Medical School, Scripps Research Institute,US Army, Howard Hughes Medical Institute, Seattle Biomedical Research Institute,Veterans Administration, Wake Forest University, Washington State University,Morehouse School of Medicine, Notre Dame, Genome Explorations, Rational Diagnostics,Bioprocessing Technology Institute, PLIVA Research Institute, Cardiff University,University Of Heidelberg, Karolinska Institutet, Université de Montreal, and theUniversities of MI, WA, MA, MN, DE, TX, SC, MS, TN, VT, IA, PA, CA (LA, SD, Irvine& Riverside campuses) plus many more across the U.S. and other countries.
"I was amazed at the ease of use, really,after having spent hours on end with othersoftware programs and not even comingclose to what I achieved with GeneSifter inless than an hour. Thank you!"
Talitha T. Rajah, Ph.D. Indiana University SE
"The GeneSifter science staff gave myresearch the jumpstart it needed, gettingme through the bottleneck of initial dataanalysis quickly and easily."
Milan Fiala, M.D.UCLA School of Medicine
Ontology List Up Down Array z-up z-downcoenzyme and prosthetic group biosynthesis 22 15 7 41 7.49 1.42ATP biosynthesis 12 9 3 19 6.94 0.78nucleoside phosphate metabolism 12 9 3 19 6.94 0.78nucleoside triphosphate biosynthesis 17 11 6 27 6.92 2.03heme biosynthesis 5 5 0 7 6.71 -0.9porphyrin biosynthesis 5 5 0 7 6.71 -0.9purine nucleoside triphosphate biosynthesis 15 10 5 24 6.7 1.69purine ribonucleoside triphosphate biosynthesis 15 10 5 24 6.7 1.69ribonucleoside triphosphate biosynthesis 15 10 5 24 6.7 1.69group transfer coenzyme metabolism 14 10 4 24 6.7 1.02proton transport 14 11 3 29 6.58 0purine ribonucleotide metabolism 20 12 8 34 6.52 2.53ATP metabolism 12 9 3 21 6.48 0.59purine ribonucleotide biosynthesis 19 11 8 30 6.42 2.94nucleoside triphosphate metabolism 18 11 7 30 6.42 2.34ATP hydrolysis coupled proton transport 3 3 0 3 6.34 -0.59energy coupled proton transport, against electrochemical gradient 3 3 0 3 6.34 -0.59ATP synthesis coupled proton transport 9 7 2 14 6.34 0.48energy coupled proton transport, down electrochemical gradient 9 7 2 14 6.34 0.48purine ribonucleoside triphosphate metabolism 15 10 5 26 6.33 1.49ribonucleoside triphosphate metabolism 15 10 5 26 6.33 1.49heme metabolism 6 6 0 11 6.21 -1.13porphyrin metabolism 6 6 0 11 6.21 -1.13purine nucleoside triphosphate metabolism 16 10 6 27 6.16 2.03purine nucleotide metabolism 23 12 11 38 5.99 3.77ribonucleotide metabolism 21 12 9 38 5.99 2.71
Pathway List Up Down Array z-up z-downProteasome 9 1 8 24 -0.88 3.49Citrate cycle (TCA cycle) 7 2 5 12 0.88 3.37Pyrimidine metabolism 13 2 11 40 -0.96 3.35One carbon pool by folate 3 1 2 3 1.43 3.05Selenoamino acid metabolism 3 0 3 6 -0.79 3.03DNA polymerase 6 1 5 14 -0.28 2.94Huntington's disease 6 1 5 14 -0.28 2.94Lysine degradation 10 3 7 24 0.54 2.83Ribosome 1 1 0 53 -1.92 -2.66Butanoate metabolism 7 1 6 25 -0.93 2.06Nucleotide sugars metabolism 3 1 2 5 0.82 2.05
Cluster AnalysisPAM, heirarchical andother clusteringmethods applied toyour data.
Correction for MultipleTestingMultiple testing correction,using Bonferroni, Holm,Benjamini and Hochbergand other methods.