Regev #AGBT19 Where do disease risk genes act? Which cells disrupted? Two stories: ulcerative colitis and resistance to I-O Rx in melanoma.
9:05am February 28th 2019 via Twitter Web Client
Aviv Regev (Broad Inst) #AGBT19 Cell atlases as road maps to human disease
9:04am February 28th 2019 via Twitter Web Client
A $100 Genome Within Reach, Illumina CEO Asks If World Is Ready | Bloomberg https://t.co/ivIasfxRKj
7:21am February 28th 2019 via Buffer
Good morning #AGBT19 - what a lot of fun at the reception last night! (Let the jealous glares begin for everybody e… https://t.co/GOLEc2pI0L
6:59am February 28th 2019 via Hootsuite Inc.
RT @antonioregalado: In upcoming test of Alzheimer's gene therapy, patients will be given "low risk" version of the… https://t.co/sqc1QGav0T
10:50pm February 27th 2019 via Hootsuite Inc.
RT @EricTopol: A masterful review of smartphones for infectious disease diagnoses and outbreaks… https://t.co/yu5npkUMuH
9:20pm February 27th 2019 via Hootsuite Inc.
Q: If a year earlier, does benefit take into account longer life? Cohen #AGBT19 Colonoscopy is definite benefit, other screening.
7:01pm February 27th 2019 via Hootsuite Inc.
Q: What if only protein alone is used? Cohen #AGBT19 Hard to directly answer - 50% sens. Clin test: much more stringent protein thresholds.
6:59pm February 27th 2019 via Hootsuite Inc.
Q: What's next? Cohen #AGBT19 Retrospective; now have ongoing clinical trial of 50K healthy individuals. Q: follow-… https://t.co/gzq0wZQIIy
6:58pm February 27th 2019 via Hootsuite Inc.
Cohen #AGBT19 Spec >99%, sensitivity is stage dependent (40% for Stg I, 70% for Stg II, 80% for Stg III). Detection… https://t.co/vsx16x1
6:54pm February 27th 2019 via Hootsuite Inc.
Cohen #AGBT19 Shows waterfall plots for the multi-analyte screening test. No individual marker is perfect. Used log… https://t.co/EpzihStGu0
6:52pm February 27th 2019 via Hootsuite Inc.
@h2so4hurts She did do a shoutout to the original BeadArray development team at #AGBT19 - man that brings back lots… https://t.co/DDTklUCcHO
6:50pm February 27th 2019 via Hootsuite Inc. in reply to h2so4hurts
Cohen #AGBT19 Uses Olivier Elemento's preprint chart https://t.co/TAA0NIjfDk illustrating the sampling problem. 66/… https://t.co/JC0xMojfr8
6:48pm February 27th 2019 via Hootsuite Inc.
Cohen #AGBT19 At 50-60 amplicons diminishing returns. Two multiplex reactions, total 61. 16 genes, 1933 distinct po… https://t.co/XtOSeRZ2Yn
6:47pm February 27th 2019 via Hootsuite Inc.
Cohen #AGBT19 Amplify - looking at PCR replicates as UID families. Balancing act - how many <80bp amplicons, what r… https://t.co/y8Ve0Fj
6:43pm February 27th 2019 via Hootsuite Inc.
Cohen #AGBT19 Safe-Sequencing system (Safe-SeqS) and explains method '11 PNAS https://t.co/9UQ2Osj2Zq Followup work… https://t.co/wNuF7VT3dj
6:40pm February 27th 2019 via Hootsuite Inc.
Cohen #AGBT19 Illustrates the need for dPCR to find that needle in a haystack; lays out the problem with error rate… https://t.co/7k0A4GP1nw
6:37pm February 27th 2019 via Hootsuite Inc.
Cohen #AGBT19 Starts with this impt slide - early detection is paramount. (Something I've been saying now at Single… https://t.co/HqqOgctr80
6:36pm February 27th 2019 via Hootsuite Inc.
Joshua Cohen (Johns Hopkins) #AGBT19 Detection and localization of surgically resectable cancers with a multi-analyte blood test
6:33pm February 27th 2019 via Hootsuite Inc.
Q: Colon microbiome vs. their approach Vickovic #AGBT19 Did that and not significantly different.
Vickovic #AGBT19 Acknowledges early data is sparse; able to recapitulate what is already known about spatial mouse gene expression.
6:31pm February 27th 2019 via Hootsuite Inc.
Vickovic #AGBT19 Now down to HDST: 2um features on beads; onto slides with wells. Hex pattern, have to decode ID of… https://t.co/crDDb7z2Tl
6:30pm February 27th 2019 via Hootsuite Inc.
Vickovic #AGBT19 Host-microbiome - took 18m to permeabilize bacteria and keep spatial info intact. 16S and spatial… https://t.co/pkPnEpDoTa
6:25pm February 27th 2019 via Hootsuite Inc.
Vickovic #AGBT19 Perform cDNA synthesis (RT), cleave, do second strand synthesis and NGS. Did 1900 sections of spin… https://t.co/VyC028DxOD
6:22pm February 27th 2019 via Hootsuite Inc.
Vickovic #AGBT19 Reviews the idea around Spatial Transcriptomics in Stockholm years ago - from TMAs and look at it… https://t.co/YPEou8RKgJ
6:19pm February 27th 2019 via Hootsuite Inc.
Sanja Vickovic (Broad) #AGBT19 Spatial mapping of host-microbiome interactions in the gut
6:17pm February 27th 2019 via Hootsuite Inc.
@Genomics_Guy Thank you for the kind word, Gary! #AGBT19
6:09pm February 27th 2019 via Hootsuite Inc. in reply to Genomics_Guy
Raphael #AGBT19 With scRNA-seq data, use network regularized cell clustering netNMF-sc Preprint… https://t.co/nJ1VnM0mvN
6:07pm February 27th 2019 via Hootsuite Inc.
RT @frapaport: BR : mirrored subclonal CNAs (some cells have 2 copies of 1 allele, 1 or the other, while it’s flipped in another population…
6:06pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 Single-cell technology - 10X for CNA: using HATCHet-sc, copy number, allele-specific.
6:05pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 Able to get integer copy number data across samples. Preprint https://t.co/LJACguYoMg HATCHet tool… https://t.co/FpaTQFapfF
5:58pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 Every method for CNA - looks locally across the genome, and read-depth frequencies, indiv for each… https://t.co/iE0tKfVWx6
5:53pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 In Pancreatic Cancer, the opposite (10 samples, zero CNA) https://t.co/LhAx6QCLzV
5:52pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 Most of cancer sequencing is bulk. '15 Nature ref https://t.co/xY8s4YkJsF 50 samples, subclonal CNS, shared CNAs in 50/50.
5:50pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 Copy number Tree Mixutre deconvolution - fractional copy number data. '18 ref… https://t.co/5ElydyhE2p
5:48pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 Infer the past, reconst phylogenetic trees. SNVs easy to analyse. But CNAs? Multiple locations '17… https://t.co/KJITI7TQ5z
5:45pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 CNA's and WG duplications are ubiquitous - WGD 30% in advanced cancers. The past: in an individ. tu… https://t.co/waD8bPDESr
5:43pm February 27th 2019 via Hootsuite Inc.
Raphael #AGBT19 From SNVs to WG duplications and everything in-between - Nature Gen '03 https://t.co/Ksrr325hjq
5:42pm February 27th 2019 via Hootsuite Inc.
Ben Raphael (Princeton) #AGBT19 Copy number aberratoins in cancer: past, present and future
5:40pm February 27th 2019 via Hootsuite Inc.
Q: What function does this gene have via KO's? Kenstis #AGBT19 Mental disorders, dev disorders. Expressed only in n… https://t.co/4DiMxei1to
5:37pm February 27th 2019 via Hootsuite Inc.
Kenstis #AGBT19Childhood cancer 'as a disorder of developmental somatic DNA rearrangements'. '18 ref… https://t.co/8Q1SMcoULQ
5:35pm February 27th 2019 via Hootsuite Inc.
Kenstis #AGBT19 Shows Circos plot from '16 ref https://t.co/mAYZQXf2NW '17 ref https://t.co/NkziOaSl7c Targeting m… https://t.co/9neOxdWhZj
5:31pm February 27th 2019 via Hootsuite Inc.
Kenstis #AGBT19 WGS of these tumors: Two different methods (local assembly, and different k-mers) found translocati… https://t.co/hxxngcrcVn
5:23pm February 27th 2019 via Hootsuite Inc.
Kenstis #AGBT19 '15 eLife ref https://t.co/uSuaxx00vS A developmental mutator hypothesis. '17 Nature Gen… https://t.co/krhKxf1aXE
5:20pm February 27th 2019 via Hootsuite Inc.
Kenstis #AGBT19 PGBD5: BiggyBac Transposable Element 5; shows ears of corn; and now 1/2 of the human genome have SI… https://t.co/OhICbtvFWv
5:17pm February 27th 2019 via Hootsuite Inc.
Kenstis #AGBT19 Clue from lymphoblastic leukemias - chr translocations of a DNA recombinase RAG1/2. Unexplained fea… https://t.co/q84GnltVcH
5:14pm February 27th 2019 via Hootsuite Inc.
Kenstis #AGBT19 Subtitle: Domesticated DNA transposase PGBD5 and other developmental oncogenic mutations.
5:11pm February 27th 2019 via Hootsuite Inc.
Alex Kentsis (Memorial Sloan Kettering Cancer Center) #AGBT19 Why do young people get cancer?
5:10pm February 27th 2019 via Hootsuite Inc.
Vickovic #AGBT19 Another driver (for adoption) will be ease-of-use.
3:44pm February 27th 2019 via Hootsuite Inc.
Moffitt #AGBT19 Showing the biological worth of these measurements; other aspects are critical: benchmarking against other techniques.
3:43pm February 27th 2019 via Hootsuite Inc.
