NML Bioinformatics ServiceLicensed Bioinformatics Tools Highthroughput Data Analysis
NML Bioinformatics Service—Licensed Bioinformatics Tools High-throughput Data Analysis Vector NTI Advance® Literature Study Data Mining Functional Genomics Analysis
Cumulative Annual Registered Users of NML Licensed Commercial Bioinformatics Resources Software License type License number Open Access 2013 2014 Unlimited 15 24 Annual/Floating 6 42 68 Nextbio Annual/Site Unlimited 230 278 318 333 BIOBASE Annual/Site Unlimited 154 226 289 316 Oncomine* Annual/Named 1 40 53 56 63 Golden Helix SVS 7** Annual/Floating 1 7 18 24 Genevestigator Annual/Named 10 17 19 21 28 Partek Genomics Suite Annual/Floating 2 61 78 101 137 165 204 225 Ingenuity Pathway Analysis Annual/Floating 3 102 131 243 308 401 498 553 Perpetual/Floating 2 33 67 79 88 103 115 242 411 972 1248 1570 1725 Galaxy Partek Flow Vector NTI Advance Total Annual Registered Users 2008 163 2009 2010 2011 2012 * Oncomine was downsized to 2 named users starting FY 2014, user growth in 2014 represent the number of consultation requests ** Golden Helix SVS 7 was downsized from 1 floating license to 1 fixed license starting FY 2014 and discontinued in FY 2015
Centralized Licensing Model Delivers Dramatic Cost Saving Licensing cost comparison of IPA licensing based on 170 active USC users in 2014 University license Individual license $65, 000 $1, 870, 000
Ingenuity Pathway Analysis Usage @ USC (Jan. 2012 -Dec. 2014) 700 800 Average monthly sessions = 314 Average monthly hours = 323 hr 600 500 400 300 200 100 4 ноя -1 -14 сен -14 июл -14 май 4 мар -1 -14 янв 3 ноя -1 -13 сен -13 июл -13 май 3 мар -1 -13 янв 2 ноя -1 -12 сен -12 июл -12 май мар -1 янв 2 0 -12 0 Number of Hours 600 500 Number of Sessions 700
Ingenuity Pathway Analysis Monthly Denied Sessions (Jan. 2013 -Nov. 2014) 300 Average monthly denied sessions = 117 250 200 150 100 50 4. 1 11 4. 1 09 4. 1 07 4. 1 05 4. 1 03 4. 1 01 3. 1 11 3. 1 09 3. 1 07 3. 1 05 3. 1 03 01 . 1 3 0
Bioinformatics Computing Resources at Norris Medical Library Computer Workstations in Norris Medical Library Hardware: Four Dell Precision T 3550/T 3660 workstations with 6 -core Intel Xeon processors, 2432 GB memory Software: Partek Flow, Galaxy, Cistrome, annovar R& Bioconductor, CAP-mi. RSeq Total Storage: 62 TB (May 2015) Custom Computing Cluster in USC High. Performance Computing Hardware: One head node and 9 worker nodes*. Each with dual processor 6/8 -core AMD Opteron 6176 or Intel E 5 -2650, 48 -64 GB memory. Software: Partek Flow, Galaxy, Cistrome, R& Bioconductor Total Storage: 4 TB transfe File r HPC file system Log on HPC You HPC-NML head node Sub mit jo bs HPC-NML custom condo
2014 Next Generation Sequencing (NGS) Data Analysis at NML Bioinformatics Service Partek Flow From To # Users # Projects # Data Files Total Raw File Size (GB) Total Run Time (day) 1/1/2014 12/31/2014 46 236 2608 9901 549. 5 Galaxy From To # Users # Projects # Data Files Total Raw File Size (GB) Estimated Run Time (day) 1/1/2014 12/31/2014 10 30 338 454 38
NGS Growth in Biomedical Research 50000 2500 45000 40000 2000 35000 30000 1500 25000 20000 15000 10000 5000 0 0 2011 2012 2013 2014 GEO - "high throughput sequencing"[Platform Technology Type] - Samples Pubmed - "High-Throughput Nucleotide Sequencing"[Mesh]
Computing Storage Growth at NML Bioinformatics Service Total Storage (TB) 70 62 60 50 38 40 30 22 20 10 4 0 2012 2013 2014 2015
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