Regev #AGBT19 100 proteins/RNAs - can it be expanded? 'Measure abundance of 'composite genes' that are linearly correlated?'
9:29am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Methods depend on signatures of genes. Can you get more info? Some how get 'compressed sensing' with… https://t.co/QAJFeG1Jwx
9:28am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Trained on 12 pts, tested on 4; shows model CD8 T-cells going with malignant cells, exclusion areas pointed out.
Regev #AGBT19 Looking at spatio-transcriptomics in cold vs hot malignant cells. CD8 T-cell clusters illustrated.
9:27am February 28th 2019 via Twitter Web Client
Regev #AGBT19 To learn intrinsic, extrinsic features: insi2vec method: define a cell by both features. Cell image,… https://t.co/PNXgh9hTS6
Regent #AGBT19 Nice illustrationbof spatial methods available https://t.co/1oe4mwYXUL
9:25am February 28th 2019 via Hootsuite Inc.
Regev #AGBT19 Toolbox - highlights alt approaches; reviews GeoMx DSP from @nanostringtech - selects ROI's of cold and hot niches.
9:23am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Bulk single cell, spatial: great illustration using fruit salad vs fruit individual pieces vs fruit t… https://t.co/CUkDQnZmED
Regev #AGBT19 Multiplex in situ analysis - program char cells in cold niches. Lastly: tools to measure, track, infer and perturb.
9:22am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Validation - resistance program predicts I-O outcome. Now look for drugs that affect gene exp. ID'd v… https://t.co/YcQ8R8LW3e
9:21am February 28th 2019 via Twitter Web Client
Regent #AGBT19 interesting slide showing power of spatial information on cold vs hot niches in melanomas https://t.co/ULhwgdg25g
9:19am February 28th 2019 via Hootsuite Inc.
Regev #AGBT19 Used Ben Izar's method multiplexed immunoflourescence (spatial) 6 celltype markers, 7 resist program members of 19/31 pts.
9:17am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Malignant cells T-cells exclusion down regulated (hot), exclusion up regulated cold. Cold: Myc, CDK4;… https://t.co/wwxOrPpKDN
9:16am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Case 2: I-O response in melanoma. Durable response - about 30% for nivo + ipi. Cold vs hot tumors. 15… https://t.co/wM4VJvjkgH
9:15am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Concl part 1 on UC: >50 subsets of cells; dramatic remodeling; GWAS genes are cell type-specific.
9:14am February 28th 2019 via Twitter Web Client
Regev #AGBT19 That unk gene published '18 Science https://t.co/Zi6lGCFuM7
Regev #AGBT19 Ex. C1orf106 in enterocytes: look at a gene module across all cells, then within enterocytes: co-vari… https://t.co/GOm4Mi93Ti
9:12am February 28th 2019 via Twitter Web Client
Regev #AGBT19 OSMR is a GWAS gene; mapped across 51 cell-types. Plot show cell-type-specific activity in UC. Can pr… https://t.co/GayMwZN4AE
Regev #AGBT19 Looking at a TNF bypass, when TNF is blocked, OSMR allows two cells to continue inflamm response.
9:10am February 28th 2019 via Twitter Web Client
Regev #AGBT19 One gene OSMR in Inflamm fibroblasts. Looking at anti-TNF responder vs non-responders. Chosen from '1… https://t.co/zM8BGqSCXk
9:09am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Between Epithelial, Stroma, Immune cells - Healthy, Non-inflamed, Inflamed cells: bar chart shows clear differences.
9:08am February 28th 2019 via Twitter Web Client
Regev #AGBT19 GWAS highlights new causes: 94 IBD loci fine mapped from 67K individs. With a cell atlas: can see how… https://t.co/jdaBUiFEJl
9:07am February 28th 2019 via Twitter Web Client
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.
