Schlappi: Future - multiplex both spp and ABX, CDC urgent threats (gonorrea may grow more slowly) #NGDx17

3:35pm August 18th 2017 via Hootsuite

Schlappi: With >50 samples, AUC 0.956 able to go from urine cup in <30 min. Can do 15 min E coli quick ID. #NGDx17

3:33pm August 18th 2017 via Hootsuite

Schlappi: Now just take treated and control w/ABX, shows difference in amplification. Shows ratio of 1.6x #NGDx17

3:31pm August 18th 2017 via Hootsuite

Schlappi: '14 rev https://t.co/ZVefT54cMc Have a single-molecule amplification in <15' w/optimized LAMP #NGDx17

3:30pm August 18th 2017 via Hootsuite

Schlappi: Another adorable video - the readout in a black showbox, taking a photo with a phone. #NGDx17

3:28pm August 18th 2017 via Hootsuite

Schlappi: Adorable video - 'so simple a kid can use it'. Shows blood sample filling by capillary flow. Slip = 'and now its done' #NGDx17

3:27pm August 18th 2017 via Hootsuite

Schlappi: SlipChip is 1000's of compartments, 2 glass slides. Load in a long channel, slip in 90 deg orientation #NGDx17

3:26pm August 18th 2017 via Hootsuite

Schlappi: Shows add'l organisms don't affect signal. W/51 samples, AUC = 0.985. So used LAMP (isothermal). Got signal in 5' #NGDx17

3:24pm August 18th 2017 via Hootsuite

Schlappi: qPCR is about a ratio of 2; dPCR is a 1.2 ratio. Need to resolve 1.4x within 20 min. Clin samples may have commensals #NGDx17

3:22pm August 18th 2017 via Hootsuite

Schlappi: Prior work still needed culture, plus 2h for ddPCR. Shows cartoon of submitted manuscript: UTI urine, +/- ABX, use a 1.1x #NGDx17

3:21pm August 18th 2017 via Hootsuite

Schlappi: 15 min exposure of antibiotics (ABX), shows 15 and 30 min difference w/dPCR. '16 ref https://t.co/FuEm2ZhyAW #NGDx17

3:18pm August 18th 2017 via Hootsuite

Schlappi: For UTI's: 10M visits/yr. Limited number of pathogens - 70% are E.coli, and four classes of antibiotics. #NGDx17

3:16pm August 18th 2017 via Hootsuite

Schlappi: Digital PCR: limited by pipetting accuracy. qPCR 1.3x in conc is 0.4 cT. vs. ddPCR to get quant #NGDx17

3:15pm August 18th 2017 via Hootsuite

Schlappi: Look at r23S as a proxy for growth. Problem w/real-time qPCR: not quantitative enough #NGDx17

3:14pm August 18th 2017 via Hootsuite

Schlappi: Need culture for phenotype and fast. DNA replication as organism grows. Treated: no replication. Copy number after 20 min? #NGDx17

3:13pm August 18th 2017 via Hootsuite

Schlappi: There are about 1000 genes for beta-lactamases ID to-date. Need 30-60 minute Dx for antibiotic susceptibility #NGDx17

3:12pm August 18th 2017 via Hootsuite

Schlappi: Many methods to tackle this - rapid Dx with POC. Traditional culture too slow. 'Dx uncertaintly drives irrational use' #NGDx17

3:11pm August 18th 2017 via Hootsuite

Schlappi: Reviews threat of antibiotic resistance (AR), spread of resistance. AMR est to cause 10M deaths (cancer is 8.2M) #NGDx17

3:09pm August 18th 2017 via Hootsuite

Travis Schlappi (CalTech CA) Minue pathogen-specific phenotypic antibiotic susceptibility test using digital LAMP Quantification #NGDx17

3:08pm August 18th 2017 via Hootsuite

Mirmira: Is all DNA created equal? Looking at DNA methylation may come up with panels that reflect disease pathogenesis #NGDx17

3:01pm August 18th 2017 via Hootsuite

Mirmira: Concl: Children w/obesity, exhibit heightened beta-cell death. Could be with systemic inflammation. ddPCR 'critical tech' #NGDx17

3:00pm August 18th 2017 via Hootsuite

Mirmira: Hypothesis: less resistant beta-cells die off, and then you do not have anything left. Now in human: longitudinal #NGDx17

2:57pm August 18th 2017 via Hootsuite

Mirmira: High-fat diet (HFD), mouse model where beta-cells can be killed. Shows methylation marker (unpubl) #NGDx17

2:56pm August 18th 2017 via Hootsuite

Raghu Mirmira (Indiana Univ) Digital PCR as a platform for the next generation of diabetes biomarkers #NGDx17

2:54pm August 18th 2017 via Hootsuite

Manne: Lots of focus on validation of biomarkers. Show busy chart from 2005 - where CDx comes in at the end, assisting physicians #NGDx17

2:47pm August 18th 2017 via Hootsuite

Manne: Biomarkers need relevant outcomes, and demonstrate clinical utility in different cohorts https://t.co/ifStfc1C8Y #NGDx17

2:44pm August 18th 2017 via Hootsuite

Upender Manne (Univ AL Birmingham) miRNAs as biomarkers of colorectal cancer disparity: current status and perspective #NGDx17

2:41pm August 18th 2017 via Hootsuite

Fabbri: #NGDx17 A few reviews he's written: https://t.co/ehhfVUgM6j And this one looks interesting: https://t.co/07novdj3fQ

2:32pm August 18th 2017 via Hootsuite

Fabbri: For neuroblastoma, MYC-N ampl is stratifying. Shows data of MYC up-reg in NB-TAM co-cultures despite MYC-N status #NGDx17

2:27pm August 18th 2017 via Hootsuite

Fabbri: 1^o neuroblastoma samples able to be divided into high/low CD163 expr, and co-culture how TERP1 in tumor assoc'd macrophages #NGDx17

2:26pm August 18th 2017 via Hootsuite

Fabbri: miR-21 is transferred from neuroblastoma to monocytes via exosomes. Co-cultured cells' supernatant - plenty of data #NGDx17

2:23pm August 18th 2017 via Hootsuite

Fabbri: Thought the immune cells were helping eradicate cancer, instead induce secretion of cytokines promotiong tumorigenesis #NGDx17

2:17pm August 18th 2017 via Hootsuite

Fabbri: Illustrates with miR-21/29a, taken in macrophage, activation of TLR8 which is NF-kB promoting tumor growth, met potential #NGDx17

2:16pm August 18th 2017 via Hootsuite

Fabbri: Shows co-localization experiment results, showing in NSCLC the interaction between TLR and mIR in endosome, in macrophages #NGDx17

2:15pm August 18th 2017 via Hootsuite

Fabbri: (What is fun about this presentation is he's asking the research question, and then walks you through the answer.) #NGDx17

2:13pm August 18th 2017 via Hootsuite

Fabbri: Exo miR-21 and -29a bind to Toll Like Receptor 7/8, what if they bind to uRNA in the endosome where the receptor is located #NGDx17

2:12pm August 18th 2017 via Hootsuite

Fabbri: Isolated vesicles, uRNAchar via @nanostringtech and 9 candidates, validated via qPCR ended w/4. mIR-16/21/27b/29a #NGDx17

2:10pm August 18th 2017 via Hootsuite

Fabbri: Think of microRNAs as hormones: then what receptor and downstream signaling is utilized? #NGDx17

2:09pm August 18th 2017 via Hootsuite

Fabbri: Shown that supernatants from one cell target can target a second cell type affecting the distant cell's GEX, like hormones #NGDx17

2:08pm August 18th 2017 via Hootsuite

Fabbri: And specific markers assoc'd with each. His work started with EVs and miRNAs, released by NSCLC cell lines #NGDx17

2:06pm August 18th 2017 via Hootsuite

Fabbri: 3 types - exosomes, microvesicles, apoptotic bodies: 40-120nm, 50-1000nm, 500-2000nm in size #NGDx17

2:05pm August 18th 2017 via Hootsuite

Fabbri: Long list of historical naming of EVs: Ectosomes Microparticles Prostatosome Cardiosomes Vexosomes Texosomes Oncosomes #NGDx17

2:04pm August 18th 2017 via Hootsuite

Muller Fabbri (Univ Southern CA) Exosomal microRNAs regulate the biology of the tumor microenvironment #NGDx17

2:03pm August 18th 2017 via Hootsuite

Rosenbaum: Shows chart cp FFPE FISH, IHC, NGS: TAT is days, hours to days, and weeks. Pluses and minuses covered #NGDx17

12:22pm August 18th 2017 via Hootsuite

Rosenbaum: And shows significant survival differences. 3 cases w/inter-assay discordance and/or complex rearr's #NGDx17

12:20pm August 18th 2017 via Hootsuite

Rosenbaum: The issue: do pts respond to Rx. Shows n=20 OS for ALK FISH+, and others w/non-canonical or no evidence of rearr #NGDx17

12:19pm August 18th 2017 via Hootsuite

Rosenbaum: 2/4 novel: "Non-productive rearrs": ALK is inverted. #NGDx17

12:14pm August 18th 2017 via Hootsuite

Rosenbaum: 21/33 had EML4/ALK, 64% (similar to 60% radiographic response rate). 1 case of KIF5B/ALK, 1 of PRKAR1A/ALK, 4 novel #NGDx17

12:12pm August 18th 2017 via Hootsuite

Rosenbaum: Shows split reads and unmatched pairs in IGV, and EML4 rearr. WashU and Univ WA provided 33 NSCLC as FISH+ also NGS #NGDx17

12:11pm August 18th 2017 via Hootsuite

Rosenbaum: Use Paired-Ends, able to look for mis-matched pair. Illustrates unmapped cognate pairs, where split reads occur #NGDx17

12:10pm August 18th 2017 via Hootsuite