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In Carter B, 87в88 as liquid tissue, 87 processing workflow, 35 samples, 34 Bodily fluids, 87в89 blood, 87в88 cerebrospinal fluid (CSF), 89 urine, 88 Breast cancer, 229в33 BIOBASE, 232 FISH and IHC, 230в33 Her2neu, Filagra Buy 1 Herceptin success, 229в30 treatment, 229 See also Clinical examples Breast development stages, 6 BRENDA, 151 Business intelligence, 175 255 Page 271 256 Index пC caBIO, 144 caCORE, 144, Filagra Buy 1, 170 caDSR, 144 Cancer Gene Expression Database Filagra Buy 1, 152 caTISSUE, 117 Causal diagnostics, 228 cDNA Filagra Buy 1, 38, 71 Cerebrospinal fluid (CSF), 89 Chromosomal instability (CIN), 79 FFilagra, 180, 183в84 defined, 180 techniques, 183в84 Clinical Breast Care Project (CBCP), 5, 215 informed consent document, 16в17 survey instruments, 18 Clinical data analysis, 194в95 defined, 177 Clinical DW, 144 Clinical examples, 227в47 breast cancer, 229в33 coagulationDIC, 240в46 menopause, 233в40 Clinical Laboratory Workflow System (CLWS), 116, 216 Clinical research ethics, 12в13 introduction, 11в12 staff, 12 subject privacy protection, 13в15 Clinical Trial Cooperative Group Human Tissue Resources, 32 Clustering, 180, 184в85 algorithms, 184в85 By, 180 See also Data analysis CoagulationDIC, 240в46 cascade, 242 composed model, UBy, 244 modeling, 241 SAN representation, Discount Tadaga Super, 242 See also Clinical examples CodeLink microarray, UBy Code of Federal Regulations (CFR), 13 Codons, 49 Collaborative IRB Training Initiative (CITI), 28 Continuing Review application, 28 COSMIC, 152 Council for International Organizations of Medical Sciences (CIOMS), 13 C reactive protein (CRP), 213 Cross validation, 186 Cytokines, B uy D Data centralization, 18в19 cleansing, 166в67 clinical, 177 Filag ra, 17в18 collection form, 39в41 consenting and, Filagra Buy 1 deidentifying, 19в20 ECTL, 166в67 experimental, 177 genomic, 147в49 in-house patient-centric, 147в49 integration, 142 loading, 167 non-PHI, 19 preprocessing, 178в79 proteomic, 147в48 public-domain, 177 quality assurance, 20в21 sample, 177 source Filagra Buy 1, 159в60 survey administration, 18 survey instruments, 17в18 systems, operational versus analytical, 177 transfer, 21в23 in translational medicine, 176в79 types in question, 145в57 Data analysis, 175в202 clinical data, 194в95 clustering, 180, 184в85 complexity, 176 cross validation, 186 defined, Filagra Buy 1 evaluation and Filagra Buy 1 methodologies, 185в87 forms, 179в80 functional determination, 192в94 genomic data, 188в90 high-throughput (HTP) screening, 187 integrative, 199в200 methodstechniques, 179в87 predictive modeling, 180, 182в84 proteomic data, 190в92 ROC graphs, Filagar, 187 Cooperative Human Tissue Network (CHTN), 32 Page 272 Index 257 пsensitivity versus specificity, 186 significance testing, 179в81 textual data, 195в98 Type IType II errors, 185в86 Filagra Buy 1, 219в22 Data Sildigra 150mg No Prescription Needed tools, 200в202 InforSense, 201в2 SAS, 201 Spotfire, 202 SPSS Clementine, 201 Data centralization, Filagar annotation and experimental data, 149в55 data format standards, 155в57 deCODE Genetics, 208в10 defined, 142 DW development, 157в68 DW use, 168в69 example case, 169в71 in-house patient-centric data, 147в49 overview, 142в45 Windber Research Institute (WRI), Fi lagra Data format standards, 155в57 array design, 156 experiment design, 155 hybridization proceduresparameters, 156 measurement dataspecifications, 156 sample preparation, 155в56 Data Bu, 19 Data marts, 162 Data mining defined, 175 WRI, 219в22 Data models, 162в66 data marts, 162 defined, 162 EAV, 162в64 Filagra Buy 1, 164 handling of temporal information, 164в66 normalization levels, 162 Data tracking systems, 18в19, 111в36 available resources, 114 back-end requirements, 121 biomedical informatics requirements, 119в27 case development, 131в32 clinical, requirements, 122в23 clinical data Filarga, 115в17 as data source, 136 Filagra Buy 1, 111в12 deployment challenges, 133в36 developing, 129в32 establishment methods, 127в33 featuresneeds mismatches, 135 field-specific requirements, 121в26 front-end requirements, 120в21 general requirements, 120 for genomics and proteomics, 117в19 genomics experiments requirements, 124в25 historical overview, 113в14 B uy approach, 132в33 introduction, 111в13 in life sciences, 114в19 modules, Filagra Buy 1 overview, 113в19 planning, 131 project team formation, 129в30 proteomics experiments requirements, 125в26 protocol Fila gra, 135в36 reasons for using, 112в13 requirement collection, 130в31 resistance from end users, 133в34 testing and delivery, 132 tissue banking Filagr specimen preparation, 123 tissue processing and banking, 117 training, 134в35 for troubleshooting, 113 Windber Research Institute (WRI), 216в17 Data warehouses Filagra Buy 1, 142, 177в78 application, 143 building, 178 databases versus, 143 data models, 162в66 data source selection, 159в60 defined, 142в43, 177 developing partner selection, 157в58 development, 157в68 example, 146в47 goals, 158 quality assurance, 167 Filag ra, 158в59 hamster Filagra jokes models, 161 structure illustration, 170 tuning, 167 use of, 168в69 WRI, 144 DAVID, 193 dbSNP, 152 dChip, 193 Decision trees, 184 deCODE Genetics, 32 Allegro, 212 Page 273 258 Index пdeCODE Genetics (continued) association studies, 211в12 clinical data collection, 209в10 data centralization, 208в10 data repository development, 208в10 deCODE T2, Filaga diagnostic development, 213в14 drug Fil agra, 212в13 FLAP inhibitor, 213 genomic studies, 210в14 linkage analysis, 210в11 overview, 207в8 specific aspects, 209 Deidentifying data, 19в20 samples, 36 Demographics, 148 Department of Health and Human Services (DHHS), 13 Diagnostics, 227в28 causal, 228 creating, 228 defined, 227 Bu y analysis, 229 Ductal carcinoma in situ (DCIS) comedo, 219, Filagra Buy 1 high-grade, 224 lesions, 217 low-grade, 224 noncomedo, 219, 222 E EasyGO, 193 Electron capture dissociation (ECD), 99 Electronic Filagra records (EHRs), 115 data use, 116 defined, 116 Electronic medical records (EMR), 7, 115, 116 Electron transfer dissociation (ETD) method, 100 EMBL, 150 Enterprise Vocabulary Services (EVS), 144 Entity-attribute-value (EAV) model, 162в64 Entity-relationship data models, 164 Entrez, 147 Entrez Gene, 150 Ethics, 12в13 Experimental data, 177 Expressed sequence tags (ESTs), 76 Extract, transform, load (ETL) process, 178 Extraction, cleansing, transformation, Fi lagra loading (ECTL), 166в67 F False discovery rate (FDR), 190 False positive, 185в86 Family history, 148 Feature selection, 182 FFPE tissue, 38, 39, 90 FLAP inhibitor, 213 Fourier transform ion cyclotron resonance (FTICR), 97 Freezer location management, 123 Freezerworks, 118 G GenBank, 150 GeneChip arrays, 60в61, 72 Exon, 77 Expression Filagra Buy 1, Filarga Scanner 3000 G7, 73 GeneChip Genotyping Analysis software (GTYPE), 63 GeneChip Operating Software (GCOS), 119 Gene expression analysis, 56 Dictionary-based NER, 197 Differential ingel electrophoresis (DIGE), 92, 93 See also Filaggra Disease staging, 8 Disease stratification, 8 Disseminated vascular coagulopathy (DIC), 240в46 defined, 244 observed condition, B uy opportunitychallenge, 241 risk, 246 DNA, 33, 34, 46в47 analysis, 56в58 biology of, 44 defined, 46 as information archive, 45 information flow, 45 polymerase, 50 protein coding sequence, 55 storage buffers, 47 structure, 44 synthesis, 50 DNA Microarray Scanner, 72 DNA sequencing, 48, 56в58 alterations, 55 biomedical informatics requirements, 57в58 future directions, 58 technology, 57 Page 274 Index 259 пdata analysis software (GDAS), 176 microarray, 124 Gene Ontology (GO), 150, 192в93 defined, 192 profiles, 193 terms, 193 Genes defined, 45 regulatory, 56 GeneSifter, 75 GeneSpring, 75 Genomic data analysis, 188в90 high-profile analysis, 190 image analysis, 188в89 normalization and transformation, 189 platforms, 188 Filagra online order control, 188 statistical analysis, 189в90 See also Data analysis Genomics, 55в80 array-based comparative Fiagra, 64в69 case studies, 78в80 data, 147в49 data tracking, 117в19 data tracking requirements, 124в25 deCODE Genetics, 210в12 in DNA analysis, 56в69 introduction, 55в56 in RNA analysis, 69в78 WRI, 217в19 Genotype, 45, 46 Genotyping, 58в64 Affymetrix genotyping SNP assay workflow, 62в63 Fialgra technologies, 58в61 Filagra Buy 1 informatics requirements, 64 defined, 61 future directions, 64 high-throughput, of SNPs, Buy Cheap Enthusia 50 primer extension, 59в60 QASOP issues, 63в64 by sequencing, 59 SNP GeneChip arrays, 60в61 technological assessment, 61в62 GEPAT, 193 Global mean normalization, 179 Global median normalization, 179 H HapMap project, 62 HbVar, 152 Health Insurance Portability and Accountability Act (HIPAA), 13в14 authorization, 15 defined, 13 Privacy Rule, 13в14 Her2neu, Filagra Buy 1 Herceptin, 229в30 Hierarchical, 185 High-throughput (HTP) screening, 187 proteomic Buyy, 190в91 technologies, 187 Histopathology techniques, 89в90 Hospital information systems (HISs), Fliagra, 116 Human Gene Mutation Database (HGMD), 153 Human Filagar Organization (HUPO), 88 Proteomics Standard Filagra Buy 1 (HUPO-PSI), 156 recommendations, Filagra Buy 1 Human Subject Protection, 28 Filagra Buy 1 IARC TP53 database, 153 Information gain method, 182 Information Hyperlinked Over Proteins (iHOP) system, 198 Informed consent, 15в17 CBCP document, By intent, 15 staff obtaining, 28 InforSense KDE, 201в2 Institutional ethics committees (IECs), 13 Institutional review Filagra Buy 1 (IRBs), 13 Common Rule adherence, 27 consent forms, 15 Continuing Review application format, 28 FFPE tissue use approval, Fliagra research protocols and, 27в28 Integrative analysis, 11 Integrative Cardiac and Metabolic Health Program (ICMHP), 215в16, 218в19 International Ethical Guidelines for Biomedical Research Involving Human Subjects, 13 In vitro transcription (IVT), 73 Isotope-coded affinity tagging (ICAT), 98 iTRAQ method, 98 K KEGG, 151, 193 K-means, 185 Knowledge Development Environment (KDE), 219 Page 275 260 Index пL Laboratory information management systems (LIMSs), 58, Fi lagra available resources, 114 first commercial, 114 GCOS, 119 historical overview, 113в14 products, Filgara protLIMS, 118 representative vendors, 115 Laser capture microdissection, 123 Lesional tissue, 37 LexiQuestMine, 198 Lifestyle data, 148 risk factors, assessment, 7 Ligand Filaga, 146 Linear scaling, 179 Liquid chromatography mass spectrometry (LCMS), 95в101 posttranslational modification of proteins, Merck Gene Index browser, 146 Messenger RNA (mRNA), 47в48 precursor, 62 Fillagra of, 62 reverse transcription, 121 MicroArray and Gene Expression (MAGE), 74 Microarray Gene Expression Data (MGED), 74 MicroArray Quality Control (MAQC) Consortium, 74 Microarrays, Byu, 70в76 advantage, 51 Agilent, 72 biomedical informatics requirements, 75 cDNA, 38, 71 CodeLink, 135 data analysis issues, 75 example platform, Bu y future directions, 75в76 GeneChip, 60в61, 72 gene expression, 124 MIAME Filagra after 60, 74в75 QASOP issues, 74 technologies, 71в72 Microsatellite instability (MSI), 79 Minimum Information About a Microarray Experiment (MIAME), 74, 153 Missing value handing, 178 Model-based NER, 197 MSMS analyzes, 192 MySQL, 160 Byu, 191 mzXML, 156, 191 N Named-entity recognition (NER), 195 defined, 196 dictionary-based, 197 model-based, 197 rule-based, 197 Nanopore Filaagra, 58 National Institutes of Health (NIH), Filagra Buy 1 National Pathology Repository, 32 Natural language processing (NLP), 195 information extraction (IE), 196 knowledge Filarga based on, 198 Networks ANN, Filagra koop belgie Bayesian, 184 defined, 228 integrated use, 229 neural, 184 99в101 shotgun proteomics, 95в99 Logistic regression, Filagra Buy 1 M MALDI-TOF technique, 93в95 analysis, 94в95 attributes, 94 data analysis, 103в4 defined, 93 high-throughput, 95 profiles, 94, 103в4 use of, 93в94 MASCOT, 176 Matrix-assisted laser desorptionionization time-of-flight mass spectrometry (MALDI-TOFMS), 60 See also MALDI-TOF technique M-CHIPS, 146 Medical exam results, 148 Medical history, 148 Filagar images, 148 Medical monitors, 26 Menopause, 233в40 defined, 234 FSH, 235в37 LH, 235в37 as stateprocess contrast, 233 stratification, 240 UltraSanMOBIUS and, 237в38 See also Clinical examples Page 276 Fil agra 261 пSAN, 237, 242 Neural networks, 184 Nimblegen oligo-based aCGH platform, 68в69 Normalization, 179 defined, 179 genomic data, 189 types of, 179 Nucleic B uy Filagra Buy 1, 201 Null hypothesis, 180в81 O Office for Human Research Projections (OHRP), 13 Oligo-based Filarga, 68в69 Omics, 4, 43 OMIM, 150 ONCOMINE, 153 ONDEX, Fil agra Online analytical processing (OLAP), 160, 169, 170 OpenMSTOPP, 191 Open Filagra Buy 1 Frame DB (ORFDB), 146 Optical Cutting Temperature (OCT), 38 Outlier removal, 178 P Paraffin blocks, 38 Partek Genomics Suite, 77 PathArt, 193в94 Pathways analysis, 193в94 Filagra Buy 1, 228 PAXgene Blood RNA System, Fillagra PDB, 151 Personalized health record Fialgra, 7, 8 Personalized medicine, 1, 4в5 defined, 4 development key, 5 Personвs chi-square test, 181 Phenotype, 45 Filarga (PKU), 46 Phosphorylation, 99 Picture Archiving Computer System (PACS), 155 Plasma Filagra Buy 1, 34 Polymerase chain reaction (PCR), 50 primers, 59 real-time, 69в70 Fiilagra modifications (PTMs), 99 characterization of, 99в101 known, 99 Predictive modeling, Filagr a, 182в84 defined, 180 feature selection, 182 regression, 180, 182в83 See also Data analysis Preventative medicine, 4 Primer extension, 59в60 Principal investigator (PI), 24в25 Protected health Filagra Buy 1 (PHI), 14 Protein arrays, 101в2 Proteins, 34, 50в52 defined, 50 information flow to, 45 number of, 51 posttranslational modification of, 99в101 properties, 51в52 sequencing techniques, 85 Proteomics, Buuy 2DGE, 91в93 antibody, 101 clinical specimens, 87в90 data, 147в49 data analysis, 103в5, 190в92 data tracking for, 117в19, 125в26 introduction, 85в87 LCMS, 95в101 MALDI-TOF, 93в95 nongel-based, 126 protein arrays, 101в2 separation, 91 shotgun, 95в99 technologies, 90в102 top-down, 99 WRI, 217в19 protLIMS, 118 PROVALT tool, 105 Public databases Filagra Buy 1, 149 integration criteria, 154 popular, 149в51 of special values, 151, Cheap Intimax Tablets Public-domain data, 177 PubMed, 150 Central Open Access Buyy (PMC-OAI), 196 defined, 150 Q Quality Assurance Filara Tracking System (QAIT), Filgara, 216в17 current issues list, 22 defined, 21 microarrays, 74 classification, 180, 183в84 Page 277 262 Index пQAIT (continued) reports, 21 Quality assurance (QA), 20в21 aCGH, 67 data warehouse, 167 genotyping, 63в64 Quality control data transfer, 21в23 genomic data analysis, 188 Questionnaires, 20, 122 R Real-time PCR (qRT-PCR), 69в70 biomedical informatics requirements, 70 data analysis methods, 70 defined, 69 future directions, 70 RefSeq, 150 Regression, 180, 182в83 Relational database management system (RDBMS), 160 Relief-F method, 182 Research protocols attachments, 27в28 background and significance, 26 budget, 27 collaborating personnel, 26 cover page sample, 25 developing, 23, 24в28 implementing, 24, 28в29 medical monitor, 26 objectives, 26 plan and data analysis, 26в27 principal investigator (PI), 24в25 references, 27 Resolver Expression Data Analysis System, 75 Restriction fragment length B uy (RFLP), 61 Risk factors, 148 RNA, 34, 47в49 amplification for microarray experiments, 76 analysis, 33 analysis technology, 69в78 defined, 47 information flow, 45 interference (RNAi), 199 as liable molecule, 49 messenger (mRNA), 47в48, 62, 121 samples, 34 as single-strand polymer, 48 yield, 35 RNA splicing, 49, 76в78 alternative analysis chips, 76в78 posttranscriptional process, 76 ROC graphs, 186, 187 Rough false discovery rate (RFDR), 190 Rule-based NER, 197 S Sample Filaga 177 Samples blood, 34 deidentifying, 36 preparation, 155в56 receiving, 123 RNA, 34 SAS software, 201 ScanArray, 72 SELDI-TOF data analysis, 103в4 Selective Filagar of information (SDI), 195 Self-organizing maps (SOMs), 185 Sensitivity, 186 Separation, proteomics, 91 Sequencing by synthesis, 48 SEQUEST, 176 Serum tubes, 34 Shotgun proteomics, 95в99 data analysis, 104в5 PTM characterization using, 99в101 See also Proteomics Significance testing, 179в81 alternative hypothesis, 180 ANOVA, 181 defined, 179 example forms, 179в80 goal, 180 null hypothesis, 180в81 Filagra Buy 1 chi-square Filgara, 181 statistical hypothesis tests, 181 studentвs t-test, 181 Wilcoxon signed-rank test, 181 See also Data analysis Single nucleotide polymorphisms (SNPs), 46 analysis, 56 GeneChip array, 60в61 high-throughput genotyping of, Fiagra markers, 60 profiles, 240 SOLID system, 58 SpecArray, 191 Specialized Programs of Research Excellence (SPOREs), 32 Page 278 Index 263 пSpecificity, Buy Specimens annotations, 148 preparation, Filarga proteomics, 87в90 tissue, 89в90 tracking, 123 Filagra Buy 1 barcode, 20 Spotfire, 75, 202 Spotted arrays, 71 Filagra Buy 1 Clementine, 201 SRS, 147 Standard operating Filgara (SOPs), 23 aCGH, 67 defined, 23 genotyping, 63в64 microarrays, 74 table of contents, 24 Stanford Microarray Database (SMD), 153 Statistical hypothesis tests, 181 F ilagra, 151 Stochastic activity networks (SANs), 237, Fil agra Stratification disease, 8в9 in menopause example, 240 patient, 8 Studentвs t-test, 181 SUISEKI, 198 Support vector Filagra Buy 1 (SVM), 184 Filagra Buy 1 administration, 18 instruments, 17в18 software design and implementation, 17 Systems biology, 4 Filagra Buy 1 Biology Markup Language (SBML), 156 T1Dbase, 153 Filagra evolution, 3в9 Textual data analysis, 195в98 F ilagra entity, 196в97 data sources, 195в96 mining relations between named entities, 197в98 Tissue, 89в90 archiving, 37в39 collection, 35в36 FFPE, 38, 39, Fillagra harvesting, 36 heterogeneity, 37 lesional, 37 OCT-embedded, 38 processing, 36в37, 117 RNA in, 36 specimens, 89в90 storage, 37в39 Tissue banking, 31в41 current practices, 32 data tracking and, 117, 123 Top-down proteomics, 99 Training, data tracking system, 134в35 Translational research, Filagra Buy 1 biomedical informatics, 1в9 case studies, How does Filagra for women data diversity, 176в79 Filagra Buy 1, 3 success measures, 4 Trypsin system, 241 Tumor Gene Family of Databases, 154 Two-dimensional gel electrophoresis (2DGE), 85, 91в93 defined, 91 problems, 93 profiling advantages, 92в93 protein separation, 91 See BBuy 2D-DIGE Type IType II errors, 185в86 U UltraSanMOBIUS, 237в38 defined, 237 environment, 238 model simulation, 245, 246 UltraSan tool, 242 UniGene, 151 UniProt, 150 Upstream analysis, 229 Filagra Buy 1, 88 W While Transcript (WT) Sense Target Labeling Assay, 77 Whole B uy sampling analysis (WGSA), 62 Wilcoxon signed-rank test, 181 Windber Research Institute (WRI), 214в24 AI in breast cancer, 217в18 AI in breast disease, 217 AI Buyy metastases, 218 CBCP, 215 CLWS, 116, 216 data centralization, 217 data tracking, 216в17 genomic and proteomic studies, 217в19 Fiilagra, 215в16, 218в19 T Page 279 264 Index пWRI (continued) Knowledge Development Environment (KDE), 219 outcomes summary, 222в24 overview, 214 pathology co-occurrence analysis, 219в22 QAIT, 216в17 specific aspects, 215 World Health Organization, 13 X XRAY, 77 Y YeastHub, 146 Page 1 BIOLOGICAL AND MEDICAL PHYSICS BIOMEDICAL ENGINEERING п Page 2 ппMarion Gurfein originally painted the upper water color of the tiger 1 1996.

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