Corcoran #AGBT19 Lasergen: SBS platform, with a key tech is a lightning terminator. Linker of dye to nt, is also te… https://t.co/zPHHaBpN60
3:15pm March 1st 2019 via Twitter Web Client
Corcoran #AGBT19 Femto pulse - first pulsed-field parallel CE instrument, 12 samples in 1h. New: 4150 TapeStatoin,… https://t.co/lxcFaaON0w
3:14pm March 1st 2019 via Twitter Web Client
Corcoran #AGBT19 AATI now has a high sensitivity femto pulse, as well as the fragment analyzer 288 samples/run.
3:12pm March 1st 2019 via Twitter Web Client
Corcoran #AGBT19 Adv over mechanical shearing is minimize sample loss via sample transfer. Enrichment: all-in-one c… https://t.co/UFoVWp9oYf
3:06pm March 1st 2019 via Twitter Web Client
Corcoran #AGBT19 New Seq tech (in grey) - Lightning Terminator. Sample prep: Oct 18 SureSelect XT HS enzymatic shea… https://t.co/3XttzNIeCW
3:03pm March 1st 2019 via Twitter Web Client
Corcoran #AGBT19 Agilent '05 aCGH, '09 SureSelect; '12 SureFISH and Dako; '19 Advanced Analytics, Lasergen and Genohm.
3:01pm March 1st 2019 via Twitter Web Client
Kevin Corcoran (Agilent) #AGBT19 New developments in NGS from Agilent.
3:00pm March 1st 2019 via Twitter Web Client
Ishii #AGBT19 CpG methylation over ATAC-Seq peaks - violin plots across six types of methods looks very good for EM-Seq.
2:58pm March 1st 2019 via Twitter Web Client
Ishii #AGBT19 Fragment distribution of size across samples https://t.co/TDLPfHKmBV
2:52pm March 1st 2019 via Hootsuite Inc.
Ishii #AGBT19 Picard metrics on HiSeq-X; nine busy bar plots. Accel, SPLAT. Shows 99% conversion rate. Dupl rates d… https://t.co/noEZHvN1oU
2:49pm March 1st 2019 via Twitter Web Client
Ishii #AGBT19 EM-Seq - TET2/Oxidation Enhancer, add glucosyl group. Then made into ssDNA, and treated to APOBEC (de… https://t.co/oT88dlH7NQ
2:46pm March 1st 2019 via Twitter Web Client
Ishii #ABRF19 Illustration of methods - contrast to EM-Seq https://t.co/ZmW6E11QH8
2:45pm March 1st 2019 via Hootsuite Inc.
@00livier Yes the GeoMx from Nanostring is designed around FFPE. They have a service program now, system launches a… https://t.co/Owt2QqO1DC
2:42pm March 1st 2019 via Hootsuite Inc. in reply to 00livier
Ishii #AGBT19 Epigenetics is reversible, established early, DNMT 3a/3b are de novo, CpG context, often in islands around promoter regions.
2:40pm March 1st 2019 via Twitter Web Client
Jennifer Ishii (NY Genome Center) #AGBT19 Advances in whole genome methylation profiling - prelim HS-X data with EM-Seq (sponsored by NEB)
2:39pm March 1st 2019 via Twitter Web Client
Mason #AGBT19 Rank on gene expression and epitope tag. Larger difference in expression of mRNA than protein. mRNA v… https://t.co/k1gl3wSsNa
2:37pm March 1st 2019 via Hootsuite Inc.
Mason #AGBT19 Looking at clinical CAR trials increase in China esp last 18 mos. Looking at markers on BD panels. Yo… https://t.co/l66fhDQ1Nx
2:35pm March 1st 2019 via Twitter Web Client
Mason #AGBT19 Trivial to look at major lineage markers used to ID clusters. Major shift between pre- and post-Rx. N… https://t.co/2eeI58AvW6
2:31pm March 1st 2019 via Twitter Web Client
Chris Mason (Weill Cornell) #AGBT19 T-cell lymphoma clinical samples - 1 pre and 1 post Rx samples, BD Rhapsody, 500 mRNAs, 100 epitopes
2:30pm March 1st 2019 via Twitter Web Client
Blumenstiel #AGBT19 the drive to switch is in the right - 85% at 20x ‘with a lot less sequencing’ (about 50% less f… https://t.co/oNUk1ssiNW
1:20pm March 1st 2019 via Hootsuite Inc.
Blumenstiel #AGBT19 A fold-80 coverage plot showing penalty of coverage - lower is better. https://t.co/MMV8JaVIkk
1:18pm March 1st 2019 via Hootsuite Inc.
Blumenstiel #AGBT19 Sample number, target territory, and third dimension now of depth.
1:11pm March 1st 2019 via Twitter Web Client
Blumenstiel #AGBT19 Automated blood extraction (Q QiaSymphony, 240/week). Also couple with Hamilton easyBlood camer… https://t.co/FNIsJ4wRQj
1:06pm March 1st 2019 via Twitter Web Client
Blumenstiel #AGBT19 Also less than 1 FP per MB of target.
1:03pm March 1st 2019 via Twitter Web Client
Blumenstiel #AGBT19 Wanted a single workflow. Wanted 10's to 100's of genes, sensitivity to 1% or less. Future: MRD… https://t.co/lI2OftZmTF
Blumenstiel #AGBT19 Have to use UMI's, as cfDNA is only about 166bp, reduce duplicates and PCR errors.
1:02pm March 1st 2019 via Twitter Web Client
Blumenstiel #AGBT19 Blood biopsy - WGS ultra low-pass of cfDNA 0.1x to determine healthy or cancer. '18 Nature Comm https://t.co/8NlmKrUwzY
1:01pm March 1st 2019 via Twitter Web Client
Blumenstiel #AGBT19 They generate a WGS equivalent of data every 12 minutes at the Broad. (whew.)
12:59pm March 1st 2019 via Twitter Web Client
Blumenstiel #AGBT19 The Broad genomics platform (research and clinical, tech dev too) and data sciences platform. T… https://t.co/FyoNd5lFez
12:58pm March 1st 2019 via Twitter Web Client
Brendan Blumenstiel (Broad) #AGBT19 Enabling disease specific research using dynamic targeted sequencing
12:57pm March 1st 2019 via Twitter Web Client
Renata Pellegrino da Silva (CHOP) #AGBT19 Twist technology - will not tweet as this is unpublished data.
12:37pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 Evaluating performance of an exome - callability vs. total yield. https://t.co/3zsSAmHgLB
12:34pm March 1st 2019 via Hootsuite Inc.
Lee #AGBT19 Designed separate pools for high and low GC region probes, and it didn't work. Then took mismatch probe… https://t.co/Bl21iduR2F
12:32pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 Showed downsampling experiment and function on # of variants called. At half coverage of V2, same number of variants as V1.
12:29pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 Only 6 months and 3 iterations to production. Evaluation of 290K SNPs, measure performance on imputatio… https://t.co/UDXmYVuOGP
12:28pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 v2 had around 400K custom probes, in addition to the core exome. Shows timeline - first design in April… https://t.co/phviw4RyL1
12:27pm March 1st 2019 via Twitter Web Client
RT @TwistBioscience: @EmilyLeproust touts our 15 min hybridization assay- allowing samples to be sequenced in a single day #AGBT19 #AGBT2019
12:24pm March 1st 2019 via Hootsuite Inc.
Lee #AGBT19 v1 had 5k genes, other genes, ncSNPs 180K. v2 had 600 hi-priority genes, 3600 med priority genes, GWAS/… https://t.co/1eUBLvQ3Ps
12:22pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 99% of targeted bases >10x. Cheaper - less cost/sample. Better - covering more of ROI's more often. Fas… https://t.co/lMk0OTa
12:21pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 Processes documented, traceable, and can be improved. Think of Exome+ as medical-grade, >98.5% targeted… https://t.co/zU8w4Rv
12:19pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 Application partners - Nat'l Geo, Mayo, some 20+ partners. Exome+ 'unlocks over 100 times more data tha… https://t.co/JyONHcy34K
12:17pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 Backed by $320M, genome-as-a-service, consumer ecosystem, on-demand DNA 'pay as you go' with low up-front costs.
12:16pm March 1st 2019 via Twitter Web Client
Lee #AGBT19 Helix has an Exome Plus, Helix wants to 'Empower every person to improve their life through DNA'; one o… https://t.co/5euQ2nSWRJ
12:15pm March 1st 2019 via Twitter Web Client
William Lee (Helix) #AGBT19 Design and optimization of an enhanced medical genome
12:14pm March 1st 2019 via Twitter Web Client
LeProust #AGBT19 Adding covaris mechanical frag. Maximizing efficiency and now least effort. Last: lots of gene synthesis.
LeProust #AGBT19 New universal blockers - one blocking solution for multiple adapter applications. Fast hyb: 16h fo… https://t.co/uGxop8Eo2T
12:11pm March 1st 2019 via Twitter Web Client
LeProust #AGBT19 Adding UDI adapters - last step added thru PCR: maximizing yield cp to Y-adapters. No dimers, high… https://t.co/mvHNgslbtC
12:10pm March 1st 2019 via Twitter Web Client
LeProust #AGBT19 Last year launched them, gene list to pilot in 2-3w. Flexibility - enz frag, combinatorial adapters, enrichment, and beads.
12:09pm March 1st 2019 via Twitter Web Client
LeProust #AGBT19 Goal is to get as even as possible - an average 30x, lowering peaks (wasted sequencing) and raising valleys (dropouts).
12:07pm March 1st 2019 via Twitter Web Client
Emily LeProust (Twist) #AGBT19 Founded on the principle of 'rewriting DNA with the power of silicon'. Benefits: fas… https://t.co/0gmn81XldX
12:06pm March 1st 2019 via Twitter Web Client
