View
2
Download
0
Category
Preview:
Citation preview
1
Leveraging Spotfire
for Biologics Discovery _____________________
Dave Nakamura Business Capability Manager
Biologics IT (RWC)
2
use.case_datawarehouse_analytics
DATA warehouse
registration DATA- marts
ontology/ taxonomy
ETL
flat files
R server
3
BIOLOGICS DATA AND WORKFLOWS
Background
4
background_biologics.data
Animal Model
Antigen
Fusion/ Cells/ Tissue
Sequence
Engineered Cell
Purified mAb
Hybridoma development
Toxicity
ex vivo studies
in vivo studies
Construct
Modifications
Cell line
Purification
Characterization
Sequence
Lineage
Antigen generation Genotype
Species
Project
Immunization
in vitro screening
Clone selection
Characterization
Analytical
Purification
Hybridoma
Parental material
Bioinformatics Genomics
Structural Biology
5
background_biologics.data.2
Fab Mono-
Fab2
Bispecifc-Fab2
Mini-body
Mono-valent
Syn-mAb
IgG
IgM
IgA
Bi-specifics
ADC alt.
species
6
background_biologics.data.3
METHOD PROS
Hybridoma Fusion of B cells to myeloma cells
Automated, robust
Genetic immortalization mRNA display, YSD Phage display
Comprehensive, orthogonal
B-cell cloning Single B cells for antigen specificity
No fusions, species agnostic
METHOD PROS
PHAGE display Human repertoire on mammalian cells, phage display of synthetic
repertoire
Directed, no in vivo selection
7
organization_BMS
Redwood City
Waltham
Lawrenceville
Cambridge 2018
Seattle
8
organization_BMS
RWC Legacy LIMS
Seattle Legacy LIMS
Waltham Legacy LIMS
NJ Legacy LIMS -small molecule-
RWC-ID
SLE-ID WAL-ID
BMS-ID
RWC-001
SLE-001 SLE-001
SLE-001 SLE-001
SLE-001
BMS-001 BMS-001
BMS-001 BMS-001
BMS-001 BMS-001
WAL-001 WAL-001
WAL-001 WAL-001
WAL-001
9
use.case_datawarehouse_analytics
DATA warehouse
registration DATA- marts
ontology/ taxonomy
ETL
flat files
R server
Biologics Registration.v2 Biologics Reg.v1
Biologics Data Capture
Biologics e-Notebook
Biologics Taxonomy
Spotfire/ Data Analytics
20
16
20
17
20
15
Information Model
Data Model
10
LEVERAGING TOOLS
WORK IN-PROGRESS
11
organization_BMS
RWC Legacy LIMS
Seattle Legacy LIMS
Waltham Legacy LIMS
NJ Legacy LIMS -small molecule-
RWC-ID
SLE-ID WAL-ID
BMS-ID
RWC-001
SLE-001 SLE-001
SLE-001 SLE-001
SLE-001
BMS-001 BMS-001
BMS-001 BMS-001
BMS-001 BMS-001
WAL-001 WAL-001
WAL-001 WAL-001
WAL-001
What’s Dave & Team up to?
12
data_working.group
BCM
SCIENTIST(S)
working GROUP
‘prototype’
deploy solution
13
use.case_NGS
mAb(s) Bioinfo
Analysis
Raw
Seq.
Unique
Seq.
Assay
Data
Seq.
database How do I aggregate my data?
How do I pick?
Seq.db
Have I seen this before?
BB.db
R.server
14
use.case_NGS
Heavy Excel Manipulation
FASTQ CSV
Spotfire
BioInfo tools
time spent: ~3 hrs time saved: 40+hrs
UI prototype for bioinformatics team
project moved forward
15
use.case_NGS
Prototype Enhancements additional xls Manipulation
Update Spotfire template
time spent: ~3 hrs time saved: ~ Additional capabilities
Building Web-UI Spotfire friendly data output
Algorithm development
Spotfire integration
16
use.case_NGS
Open Spotfire Template
Click Button Load Sequence file
Manual workflow: 2-3FTE’s, ~2 weeks Automatied workflow: 1 FTE, <1hr Additional capabilities
Lead Discovery, Discovery IT, Bioinformatics, Genomics.
17
overall_success
Q1 2015- Q3 2016 completed 60+ Spotfire Projects
Spotfire Community of Practice : 100’s of members
Spotfire active usage and demand growing
‘Hackathons’
Lunch n’ Learn: 25+% site attendance
18
THANK YOU RWC SCIENTISTS
Alan Korman
Arvind Rajpal
Pina Cardarelli
Keith Joho
Nathan Siemers
Don Jackson
Rajkumar Balakrishnan
Fei Cao
Jenny Tung
Pallavi Tawde
Rena Bahjat
Vibha Chauhan
MANY MORE!....
DISCOVERY IT
Ramesh Durvasula
Mary Brawner
Sovanda Som
John Charles
Stephen Skwish
Jay Gill
Alice Goshorn
MANY MORE!...
WALTHAM SCIENTISTS
Sharon Cload
Shawn Smith
Luke Turkcheck
Martin Wright
Ginger Rakestraw
MANY MORE!...
Recommended