Govindan: Sampling a tumor with a fine needle - versus looking at the entire hetergeneous mix in the bloodstream. #PMWC17
6:01pm January 23rd 2017 via Hootsuite
Govindan: Tumor heterogeneity - a single biopsy may be misleading - as different areas will have different subclone derived cells #PMWC17
6:00pm January 23rd 2017 via Hootsuite
Govindan: JAMA '16 https://t.co/wV8HetlSKa prospectively comparing ctDNA vs tissue - 3 weeks longer for tissue #PMWC17
5:58pm January 23rd 2017 via Hootsuite
Govindan: Showed data from this Roche cobas clinical trial ref '15 https://t.co/OeBcDfLtWk #PMWC17
5:56pm January 23rd 2017 via Hootsuite
Govindan: EGFR mutant drugs (erlotinib) K-M curve: 10.4mos vs 5.1mos. New drug osimertinib, mut-spec, plasma comparable to tissue #PMWC17
5:54pm January 23rd 2017 via Hootsuite
Govindan: With these pts - getting biopsy is very hard. Will talk about ctDNA and Rx for EGFR mutant NSCLC; tumor het; and prognosis #PMWC17
5:52pm January 23rd 2017 via Hootsuite
Govindan: Have seen 50 nodules disappear in a week; ROS1+ NSCLC image; a few weeks almost completely cleared. #PMWC17
5:51pm January 23rd 2017 via Hootsuite
Govindan: mNSCLC before/after erlotinib: dramatic difference, in mutant EGFR mutant disease. Higher % in Asia (40%) due to smoking #PMWC17
5:50pm January 23rd 2017 via Hootsuite
Ramaswamy Govindan (WashU SOM) ctDNA in the treatment of lung cancer #PMWC17
5:49pm January 23rd 2017 via Hootsuite
Rosenfeld: Showed sensitivity data, >95% at 0.1% now. Can envision pt-specific panels to characterize changes over time during Rx #PMWC17
5:47pm January 23rd 2017 via Hootsuite
Rosenfeld: Inivata has now raised $45M series A and opened up NAm presence. Showed 10-fold increase in sensitivity #AACR15 #PMWC17
5:44pm January 23rd 2017 via Hootsuite
Rosenfeld: '12 ref of method: https://t.co/JdKeyDirMf first discovery of mutation from plasma alone - confirmed EGFR in tissue #PMWC17
5:43pm January 23rd 2017 via Hootsuite
Rosenfeld:Amplicon - for smaller panels, better sens. Hybrid capture - has experience loss of sensitivity. Their method TAm-Seq #PMWC17
5:42pm January 23rd 2017 via Hootsuite
Rosenfeld: Distinguishes PCR-based vs NGS-based methods. Shows fig from '13 ref https://t.co/FqJlQ4n3W6 and the case for monitoring #PMWC17
5:40pm January 23rd 2017 via Hootsuite
Rosenfeld: Single analyte via dPCR (high sens) up to WGS (high coverage) and in-between - targeted, and capture #PMWC17
5:37pm January 23rd 2017 via Hootsuite
Rosenfeld: Shows fig from Bettegowda STM '14 paper, illustrating spread of allele fractions, increasing w/cancer progression #PMWC17
5:36pm January 23rd 2017 via Hootsuite
Nitzan Rosenfeld (Inivata) Targeted deep sequencing of circulating tumor DNA #PMWC17
5:35pm January 23rd 2017 via Hootsuite
Morris: ctDNA is used for: Earlier Dx; select Rx; monitor disease; molecular profiling #PMWC17
5:34pm January 23rd 2017 via Hootsuite
Clive Morris (Inivata) Clinical applications of ctDNA in cancer management. Intro list of company logos (resolution bio, saga, TMO) #PMWC17
5:33pm January 23rd 2017 via Hootsuite
Pal: What happens when dirty data meets data liquidity? There has to be some kind of hygiene - to clean it up, like wastewater #PMWC17
5:31pm January 23rd 2017 via Hootsuite
Pal: Individual to device to medical record and normalized for care. Now working with Pharma for pt-oriented clinical trials #PMWC17
5:30pm January 23rd 2017 via Hootsuite
Pal: Data of all types: family history, pt-reported device data; social, env data; medical and financial claims. Holistic view of pt #PMWC17
5:28pm January 23rd 2017 via Hootsuite
Pal: Need for intramural collaboration (extramural too); where to put the data, access to IT resources. Basically $ and people #PMWC17
5:26pm January 23rd 2017 via Hootsuite
Pal: He works with a lot of heathcare systems worldwide; there are two main challenges: Acquisition of data, Utilization of data #PMWC17
5:25pm January 23rd 2017 via Hootsuite
Pal:And greater expansion of applicable uses - where people are at risk, what to do about it. And greater utililization #PMWC17
5:20pm January 23rd 2017 via Hootsuite
Pal: PM 'is not new'. Innovation relates to scale - greater pace and volume of discovery, access to clin insight, testing #PMWC17
5:19pm January 23rd 2017 via Hootsuite
Summerpal Kahlon (Oracle) Intelligent care: translating data into insight #PMWC17 Starts with a photo of a small community hospital.
5:17pm January 23rd 2017 via Hootsuite
Kollu: Privacy; data ownership; incentives; infrastructure; standardization. ACMG statement: https://t.co/BbLgGk3SyL #PMWC17
5:13pm January 23rd 2017 via Hootsuite
Kollu: Needs automated interpretation, and brief human review (15 min). Depends on data sharing - plenty of barriers #PMWC17
5:11pm January 23rd 2017 via Hootsuite
Kollu: Estimates $10B has been spent on WGS/WES interpretation; makes the case that cost of interpretation needs to drop like seq #PMWC17
5:10pm January 23rd 2017 via Hootsuite
Kollu: Points to two references - Monroe et al, effectiveness of WES https://t.co/R2UuoQS1jr ; Soden et al 50% cases changes care #PMWC17
5:09pm January 23rd 2017 via Hootsuite
Kollu: Shows large chart of Dx yeidl from '13 through '16: from 22% and rising to as high as 55%-66% depending on condition #PMWC17
5:07pm January 23rd 2017 via Hootsuite
Kollu: Kingsmore's '12 STM ref https://t.co/tgESJZi8oB Dx of neonates offers closure for the parents #PMWC17
5:06pm January 23rd 2017 via Hootsuite
Kollu:20M in the US are affected by rare disease; 30% are dead in 5y. Cumbersome to diagnose. 7.6y to Dx in US. NICU is $8K/day #PMWC17
5:04pm January 23rd 2017 via Hootsuite
Gautum Kollu (Illumina) Whole genome sequencing: the final frontier #PMWC17 Today's talk - undiagnosed and rare disease. 1/200K or less freq
5:03pm January 23rd 2017 via Hootsuite
LeProust: Competitor analysis at CSHL via NGS of the pools of sgRNAs. Can make site saturation libraries; showed representation data #PMWC17
4:58pm January 23rd 2017 via Hootsuite
LeProust: Do oligo pools; can do genome-wide CRISPR, with Desktop Genetics for designs. 98% of sgRNAs w/1 mismatch: lost act. #PMWC17
4:55pm January 23rd 2017 via Hootsuite
LeProust: Believe they have the largest capacity; 9c/base (cp to 20c - 25c/base). >70K gene capacity in '16. Scaling 12-fold '17 #PMWC17
4:54pm January 23rd 2017 via Hootsuite
LeProust: >1M oligos on a single silicon chip. 121 unique oligos/nanowell. Able to go up to 1.8kb - for drug dev, gene editing #PMWC17
4:52pm January 23rd 2017 via Hootsuite
LeProust: Reviews some applications of synthetic biology for sustainability - method for malaria Rx, NK reprogramming #PMWC17
4:49pm January 23rd 2017 via Hootsuite
Emily LeProust (Twist Biosciences) Rewriting DNA synthesis. More (synthetic) genes, faster, cheaper. #PMWC17
4:48pm January 23rd 2017 via Hootsuite
Q: Magic wand, what to change? Chen: Getting better alignment of incentives and interests. Mega: How to show value to individuals #PMWC17
3:29pm January 23rd 2017 via Hootsuite
Utiramerur: Another case - cerebellar ataxia, datasharing efforts impt as all datasets are not equal #PMWC17
3:26pm January 23rd 2017 via Hootsuite
Utiramerur: (Prior case in Euan Ashley's intro, where chronic heart condition suspected genetic defect but sequencing missed) #PMWC18
3:25pm January 23rd 2017 via Hootsuite
Utiramerur: Long-read sequencing: sequencing is not a solved problem. 2kb heterozygous del in PRKAR1A gene, Roche Sequel picked up #PMWC17
3:24pm January 23rd 2017 via Hootsuite
Utiramerur: loom is their cloud workflow engeine - multi-step distributed workflows. Separates analysis from execution of methods #PMWC17
3:23pm January 23rd 2017 via Hootsuite
Utiramerur: Mechanisms for reprod and traceability: a Genome Information Mgmt System - abstracts away the HW layer. GIMS cloud-run #PMWC17
3:22pm January 23rd 2017 via Hootsuite
Utiramerur: Dx yield is about 30%: how to improve? Clinical: repeatable, traceable. Shows all instruments, methods, sources.#PMWC17
3:20pm January 23rd 2017 via Hootsuite
Sowmi Utiramerur (Stanford Healthcare) Genomics-assisted precision medicine Promises and Challenges #PMWC17
3:19pm January 23rd 2017 via Hootsuite
Mega: Concludes with Nightscout, an individual who hacked glucose data measurements for benefit of other pts https://t.co/bmWfqtmSeZ #PMWC17
3:18pm January 23rd 2017 via Hootsuite
