Dadlani: How to translate to improve health; 1960 Rita wrote the first numerical taxonomy program. '85 PCR; '00 NGS; '08 metagenomics#AGBT18
8:09pm February 14th 2018 via Hootsuite
Manoj Dadlani (CosmosID): Precision metagenomics for rapid detection of pathogens and community resistome #AGBT18
8:08pm February 14th 2018 via Hootsuite
Grant: Conclude: obs consistent contacts at multiple SLE GWAS loci. #AGBT18
8:03pm February 14th 2018 via Hootsuite
Grant: GWAS genes list: what pathways work around TFH biology? Using ATAC-seq + promoter-SNP interactome, all of the TFH genes ID'd #AGBT18
8:01pm February 14th 2018 via Hootsuite
Grant:Another 25%; the nearest gene and another distant gene. 50%: far away. One eample: 0.5Mb away. Equates well w/GTex #AGBT18
7:59pm February 14th 2018 via Hootsuite
Grant: Loci from '16 Nature Gen https://t.co/DXzLibRHem In 25% of cases - nearest gene was the gene the proxy SNP interacted #AGBT18
7:58pm February 14th 2018 via Hootsuite
Grant: Like exome seq: custom Agilent to promoters, ncRNA, antisense RNA, snRNA, miRNA, snoRNA, lincRNA 36,691 RNA-baits #AGBT18
7:56pm February 14th 2018 via Hootsuite
Grant: Elected use physical mapping approach. Fraser group, HiChIP from Chang group, Higgs: Hi-C. SPATIal-seq: Capture-C promoters #AGBT18
7:55pm February 14th 2018 via Hootsuite
Take a look at what @nanostringtech is producing on the #AGBT floor. https://t.co/cWgoHaGkRO
7:53pm February 14th 2018 via Hootsuite
Struan Grant (Children's Hosp Phil PA) An ultra-high res. Capture-C promoter ‘interactome’ implicates causal genes at SLE GWAS loci #AGBT18
7:52pm February 14th 2018 via Hootsuite
Levy: Future: to get more donors, esp in healthy individuals (perhaps primates), ATAC-seq with RNA-seq #AGBT18
7:50pm February 14th 2018 via Hootsuite
Levy: alpha cell subpop express proliferation markers; differentially expressed w/key markers. #AGBT18
7:48pm February 14th 2018 via Hootsuite
@coregenomics @NYGCtech No, it's storage. Try Kryder's law. #AGBT18 https://t.co/dMNK8tlI0B #iamsosmart
7:48pm February 14th 2018 via Hootsuite in reply to coregenomics
Levy: Only 8,315 beta cells, now analyzed: as 10 clusters and list of ER stress (protein response in the pancreas). #AGBT18
7:46pm February 14th 2018 via Hootsuite
Levy: Seurat bifx workflow '15 https://t.co/UldkqStMIZ Shows clusters of expression data across 5 cell types #AGBT18
7:43pm February 14th 2018 via Hootsuite
Levy: Check viability, count, replicates, and sc library. 3 donors, all died of stroke. Culturing time ~15-25h. Total: 40K cells #AGBT18
7:41pm February 14th 2018 via Hootsuite
Levy: Wanted to use 10X Chromium, droplets, lysing, sequencing. Islets trypsinized, some cell death; wanted efficient processing #AGBT18
7:39pm February 14th 2018 via Hootsuite
Levy: Shows table of 7 publications of sc studies; 1500 or 8600 cells, and ID of populations. C1 tech mainly #AGBT18
7:38pm February 14th 2018 via Hootsuite
Levy: Points to this '17 https://t.co/JEqVP5Fy87 about beta-cell regeneration. Brissova et al Cell Reports '18 islets in bulk #AGBT18
7:37pm February 14th 2018 via Hootsuite
Levy: Only when 80% of beta-cells are lost=T1D clinical diagnosis. Single-cell: is a study of normal cellular variability in islets #AGBT18
7:35pm February 14th 2018 via Hootsuite
Levy: Pancreas is a 'mixed exocrine and endocrine organ'; beta-cell loss causes T1D. Goal: to find out the pathogenesis, triggers #AGBT18
7:34pm February 14th 2018 via Hootsuite
Shawn Levy (HudsonAlpha AL) Single cell transcriptomics of human pancreatic islets reveals novel cell populations #AGBT18
7:33pm February 14th 2018 via Hootsuite
Malone: Closes with All of Us Precision Medicine Initiative. https://t.co/MCQ8vFmFbU Want to 'expand scope of clinical sequencing' #AGBT18
4:30pm February 14th 2018 via Hootsuite
Malone: Works with David Goldstein at Columbia. IDT xGen Exome: 96-192 /S2 flowcelll. PCR duplicates 15%. #AGBT18
4:18pm February 14th 2018 via Hootsuite
Colin Malone (Columbia MC, NY) Advancing Precision Medicine using Streamlined Genomic Approaches #AGBT18
4:08pm February 14th 2018 via Hootsuite
RT @NYGCtech: Illumina: Nexteta Flex vs Nextera XT: Significant improvement in the coverage uniformity! #AGBT18 https://t.co/BDoNEUtgfh
4:06pm February 14th 2018 via Hootsuite
RT @bioinformer: Optical photodiode CMOS chip design for @Illumina iSeq. #AGBT18 https://t.co/hV1bogfssl
4:03pm February 14th 2018 via Hootsuite
Miller: DNAflex is robust, flexible input gDNA, blood, blood cards, sliva, microbial colony Shows data of b. cereus 5% GC, also 69% #AGBT18
4:02pm February 14th 2018 via Hootsuite
Miller: 4M reads, 1.2Gb, 9-18h runtimes. Claim to have faster SBS on iSeq, and next-gen CMOS to speed things up too #AGBT18
4:00pm February 14th 2018 via Hootsuite
David Miller (Illumina): iSeq is user-installable, as the reagent cartridge is 'dry' - has both consumables and waste, port, valve #AGBT18
3:59pm February 14th 2018 via Hootsuite
RT @NYGCtech: Yaniv Elrich: Why we need to use DNA for data storage? #AGBT18 https://t.co/UxWW1LXc60
3:40pm February 14th 2018 via Hootsuite
Green: Important areas, but out of scope. For NHGRI forefront leading would be rare & common disease; computational genomics #AGBT18
3:29pm February 14th 2018 via Hootsuite
Green: Leadership in certain areas - forefront in some areas will be ceded, such as cancer, microbial, microbiome, to others #AGBT18
3:28pm February 14th 2018 via Hootsuite
@agnieszkaml Hi - they only had 4 mutation's worth of data. Comparing to Swift+MiSeq for same mutations/samples: Pi… https://t.co/bRuQgkxKR0
3:26pm February 14th 2018 via Hootsuite in reply to agnieszkaml
New post: NanoString’s Digital Spatial Profiling Microscope at #AGBT18 - Next Generation Technologist https://t.co/L8Z5lETfCY
3:20pm February 14th 2018 via Hootsuite
Cho: #AGBT18 NIH's announcement of planning process for 2020 here: https://t.co/HKsCyyYqLa
3:18pm February 14th 2018 via Hootsuite
Green: Showed video, pointed to the '11 strategic plan PDF: https://t.co/K7AsU3pC6u #AGBT18
3:15pm February 14th 2018 via Hootsuite
Green: Genomic medicine is 'becoming a reality'. NHGRI no longer major funder of genomics research. What is its place? And vision? #AGBT18
3:10pm February 14th 2018 via Hootsuite
Green: Oct 1 1990 is the 'birthday' of the HGP; 16 Feb 2018 is day 10,000. Substantial changes: growth and maturation of genomics #AGBT18
3:09pm February 14th 2018 via Hootsuite
Eric Green (NHGRI Director NIH) Strategic planning at ‘The Forefront of Genomics #AGBT18
3:07pm February 14th 2018 via Hootsuite
Cho: 3 classes of agents approved in IBD: Anti-TNF ('97), anti-wbc trafficing ('14), anti-IL12/23 ('16) Yet only 40-60% remission #AGBT18
2:54pm February 14th 2018 via Hootsuite
Cho: Via Immuno-Chip:fine-map, 94 loci w/139 indep signals; 45 vars had >50% prob of a single causal var (non-synon) https://t.co/B4p3TnI
2:46pm February 14th 2018 via Hootsuite
Cho: Inflammatory Bowel Disease - '12 Nature https://t.co/YJKVoZutqe shows host-microbe env factors that play key role #AGBT18
2:44pm February 14th 2018 via Hootsuite
Judy Cho (Icahn SOM Mount Sinai) Leveraging population difference in innate immunity: towards precision IBD #AGBT18
2:43pm February 14th 2018 via Hootsuite
RT @erlichya: The slides for my #AGBT18 talk on #dnastorage https://t.co/0pIzdKJ24V
2:40pm February 14th 2018 via Hootsuite
Q: At RT storage, but protection against sth else? Erlich: Another method may be encapsulate or sequester in silica #AGBT18
Q: Does need for adapters limit their method? Erlich: Any 20 nt, even if some is lost, can be reconstructed #AGBT18
2:39pm February 14th 2018 via Hootsuite
A2 Erlich: Existing DNA synthesis is tuned for high accuracy for different purposes. For info, need lower cost #AGBT18
2:38pm February 14th 2018 via Hootsuite
Q: from ex-Western Digital exec Data rate of writing/reading/copying? Erlich: copy is PCR, easy. Reading, much more capacity needed #AGBT18
2:36pm February 14th 2018 via Hootsuite
Erlich: Dilution exp: 10 pg, density is 215PByte per g of DNA. Robustness of the sample; maybe we need less quality, lower cost synt #AGBT18
2:32pm February 14th 2018 via Hootsuite
