Clark #AGBT19 The cost and batches diagram. https://t.co/CEXL3yHS7C
11:30am February 28th 2019 via Hootsuite Inc.
Clark #AGBT19 Also data from Hudson Alpha, very similar results.
11:29am February 28th 2019 via Twitter Web Client
Tilgner #AGBT19 Plot of Q-scores by position in read form Stanford - well-above 30, until the end. JAX data similar… https://t.co/6EGbuU30ej
11:28am February 28th 2019 via Twitter Web Client
Clark #AGBT19 Same sample on AmpliSeq CHP v2, R2 = 0.992 for expected vs measured AF. Next - cell-free DNA from a transplant pt.
11:24am February 28th 2019 via Twitter Web Client
Clark #AGBT19 Using HDx's HD701 cancer genes at low AF, very good agreement at 1.0%, 2.0%, 3.0%.
11:23am February 28th 2019 via Twitter Web Client
Clark #AGBT19 SNP concordance for NA12878 exome. Very good overlap at 66x GenapSys cp to ILMN 280X coverage. Subst… https://t.co/gFxJYSUJSd
11:22am February 28th 2019 via Twitter Web Client
Clark #AGBT19 Comparison by GC content on GenapSys https://t.co/FQv0T10Gve
11:21am February 28th 2019 via Hootsuite Inc.
Clark #AGBT19 Density - 144M sensor chip. Now onto data: E Coli: 12-15M active sensors, ave readlength 100-150bp. Raw read accuracy >99%.
11:21am February 28th 2019 via Twitter Web Client
Costco #AGBT19 Photo of Readlength distribution and cumulative accuracy. https://t.co/lwvM5XTcLO
11:20am February 28th 2019 via Hootsuite Inc.
Clark #AGBT19 (Even refers to flows, same nomenclature as Ion.) Steady-state signal, can bee summed to give differe… https://t.co/B0xBhrj3tR
11:18am February 28th 2019 via Twitter Web Client
Clark #AGBT19 Start with clonally amplified; incorporation is 'signal or not'. 'Electronic sequencing by synthesis'… https://t.co/3qrCwNylS9
11:16am February 28th 2019 via Twitter Web Client
Clark #AGBT19 Smallest is 1M, middle is 16M, largest is 144M. Box about $10K, per-run is "hundreds of dollars, not thousands".
11:15am February 28th 2019 via Twitter Web Client
Clark #AGBT19 About the size of an iPad. "Proven measurement accuracy of >99%". 3 chips, 3 different sensors (to 14… https://t.co/VFnkEwW
11:14am February 28th 2019 via Twitter Web Client
Clark #AGBT19 (With this slide I feel like I have heard the message of democratization before...) https://t.co/tTCdDk21iA
11:14am February 28th 2019 via Hootsuite Inc.
Tyson Clark (GenapSys) #AGBT19 Electrical detection of single base incorporations enables high accuracy sequencing… https://t.co/SJRqrUNAwq
11:11am February 28th 2019 via Twitter Web Client
Tilgner #AGBT19 Hybrid methods give up single-molecule methods. After short-read correction 1.25% for ONT; PacBio 0… https://t.co/PF0uQsrMUX
11:06am February 28th 2019 via Twitter Web Client
Tilgner #AGBT19 Shows PromethION reads - 31Gb, 31M, 10-15% error rate. Fraction of reads where find barcode: ~40% f… https://t.co/lU3cyT34N4
11:05am February 28th 2019 via Twitter Web Client
Tilgner #AGBT19 PromethION, PacBio's 8M ZMW: shows data 107Gb to 395Gb per SMRT-cell. No of CCS reads - 1.4M to 4.6… https://t.co/7WHqY8Akug
11:04am February 28th 2019 via Twitter Web Client
Tilgner #AGBT19 Introduced errors on-purpose on barcodes, determined 99.99% specificity. https://t.co/dCH2hiAgwb an… https://t.co/LeVhWhz0ee
11:03am February 28th 2019 via Twitter Web Client
Tilgner #AGBT19 ScISOr-Seq - single-cell isoform RNA-Seq '18 NBT https://t.co/8PdGsz7aUG Use 10x up-front, Illumina… https://t.co/r8bsOw7Yjv
10:58am February 28th 2019 via Twitter Web Client
Tilgner #AGBT19 Presents data from this '15 NBT https://t.co/gcKjAhEvw4 and then '18 Genome Res https://t.co/MqzOc3hAj4
10:56am February 28th 2019 via Twitter Web Client
Hagen Tilgner (Weill Cornell) #AGBT19 Isoform sequencing in tissues, cell types and thousands of cells
10:54am February 28th 2019 via Twitter Web Client
New post for #AGBT19 - You can outsource just about anything. Profiling Directed Genomics, @argonaut_ms,… https://t.co/mzDHCs4jar
New post: You can outsource just about anything https://t.co/df93DFMqTx
10:36am February 28th 2019 via WP to TWTR on Yuzuki.org
Regev: #AGBT19 Preprint on DNA Microscopy on bioRxiv https://t.co/7bR6OsULm1
9:33am February 28th 2019 via Twitter Web Client
Regent #AGBT19 Summary of toolbox - and DNA microscopy on BioRxiv https://t.co/m9PbF0aGjF
9:32am February 28th 2019 via Hootsuite Inc.
Regev #AGBT19 Collab with Fei Chen at MIT, shows data that it works, out of time...
9:31am February 28th 2019 via Twitter Web Client
Regev #AGBT19 Method of compression published '17 Cell https://t.co/ovt64eKu4F "It sounds like black magic but it actually works."
9:30am February 28th 2019 via Twitter Web Client
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
