Aganezov #AGBT19 Cancer genomes - looking at clonal level for disease drivers, and help Rx. Tech shortcoming on sho… https://t.co/dZihLpN7V2
7:52pm February 28th 2019 via Twitter Web Client
Sergey Aganezov (Johns Hopkins) #AGBT19 Reconstructing haplotype-specific cancer genome karyotypes with multiple sequencing technologies
7:50pm February 28th 2019 via Twitter Web Client
Q: Scalability? Cottrell #AGBT19 They are scaling but interpretation remains a challenge. Refining algorithms but a… https://t.co/7VHVrAc75c
7:49pm February 28th 2019 via Twitter Web Client
Cottrell #AGBT19 Congenital cancer cases among newborns - 3 findings, novel fusions, etc. 59 accepted, 53 consented… https://t.co/C18shWCAcO
7:47pm February 28th 2019 via Twitter Web Client
Cottrell #AGBT19 Case 2. 18yo male, medulloblastoma. Resection, chemo, radiation. Recurrent medulloblastoma after 2… https://t.co/yJg7hWdkh9
7:43pm February 28th 2019 via Twitter Web Client
Cottrell #AGBT19 Also transloc - constitutional. In non-genic region. t(X;16); X-chr, can have inactivation. Put in… https://t.co/U6JYgu4CJI
7:41pm February 28th 2019 via Twitter Web Client
Cottrell #AGBT19 Chose 60x WGS found GNAQ oncogene 'activating', BAP1 tumor suppressor, late event.
7:39pm February 28th 2019 via Twitter Web Client
Cottrell #AGBT19 Stats and breakdown of types of tumors sequenced so far. Case 1: 17yo female, meningeal melanoma,… https://t.co/Ai83WYsmVF
7:38pm February 28th 2019 via Twitter Web Client
Cottrell #AGBT19 n=59, 23 new Dx. Thinking of N of 1 approach - paired tumor/normal WES, RNA-Seq, can also do micr… https://t.co/O16K6aWsBg
7:35pm February 28th 2019 via Twitter Web Client
Cottrell #AGBT19 Comprehensive protocol - to ID targeted Rx, ID clinical trial, make Dx, establish prognosis, det c… https://t.co/18kIXntmCF
7:33pm February 28th 2019 via Twitter Web Client
Catherine Cottrell (Nationwide Children's Hosp) #AGBT19 Design and implementation of a comprehensive genomic profi… https://t.co/pY53h4WEvS
7:30pm February 28th 2019 via Twitter Web Client
Nelson #AGBT19 PTEN, splice variants in Pr ca of the AR receptor readily detected, whether that variant is consiste… https://t.co/joHdFEFEJt
5:21pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Points out that the slides are reusable, a useful thing. Also that these studies were done quickly.
5:20pm February 28th 2019 via Twitter Web Client
Q: Pt mgmt in earlier stage? Nelson #AGBT19 Localized has made progress, but problem is sampling (whether aggressiv… https://t.co/XH5beKeKPt
5:17pm February 28th 2019 via Twitter Web Client
Q: Can vast hetergeneity allow further subsets for Rx? Nelson #AGBT19 First cut will clarify whether it's the same… https://t.co/MD158cmd5S
5:15pm February 28th 2019 via Twitter Web Client
Nelson #AGBT19 Concl - CRPC molecular landscape indicates 'many subtypes with therapeutic implications'. DSP to ass… https://t.co/nAWWSMRGXn
5:13pm February 28th 2019 via Twitter Web Client
Nelson #AGBT19 Shows transition data from AR+/NE-, to different states of genes from different ROI's, illustrating… https://t.co/RlBNbIMwVO
5:08pm February 28th 2019 via Twitter Web Client
Nelson #AGBT19 Series of experiments on 5 FFPE sections: RNA, protein. Reprod between 108-plex and 1412-plex, r2=0.… https://t.co/2AihKnv9Tf
5:04pm February 28th 2019 via Twitter Web Client
Nelson #AGBT19 Prostate ca cell states - double neg look like squamous cells, some molecular classification by gene… https://t.co/wNsVM40YmL
5:01pm February 28th 2019 via Twitter Web Client
Nelson #AGBT19 New Rx - potent pressure on lineage of AR. Prior to 2012 - tumor progressoin on AR+; seeing much mor… https://t.co/TWmDPhVHZE
5:00pm February 28th 2019 via Twitter Web Client
Nelson #AGBT19 Their focus on prostate cancer. 26K deaths in US, due to mPC. Reduce mortality by early det or preve… https://t.co/zChutQQQQj
4:59pm February 28th 2019 via Twitter Web Client
Peter Nelson (Fred Hutch CC) #AGBT19 Mapping the microenvironment composition in metastatic prostate cancer by mul… https://t.co/0uGgksGZAu
4:57pm February 28th 2019 via Twitter Web Client
McPherson #AGBT19 Shows other genes down-reg 'made sense'. Cp melanocytes, epidermis, and immune-rich. Concl: known… https://t.co/makzLT3zzN
4:55pm February 28th 2019 via Twitter Web Client
McPherson #AGBT19 Shows volcano plots - PRAME gene up-regulated. Shows piece of tape - PRAME and LINC00518 by qPCR.… https://t.co/1Eo64Bz89X
4:54pm February 28th 2019 via Twitter Web Client
McPherson #AGBT19 Serial sections of same regions: R2 = 0.96. For technical replicates R2 = 0.98. Melanocytes, staining.
4:51pm February 28th 2019 via Twitter Web Client
McPherson #AGBT19 Four classes (from common nevi to melanoma), and look at 108 genes. Illustrated 200 um ROI's ID'd… https://t.co/YBGffalkkL
4:50pm February 28th 2019 via Twitter Web Client
McPherson #AGBT19 Tissues are small, lots of areas of interest, lots of LCM and trying to sequence. Shows lots of d… https://t.co/YqTs3jxqhk
4:49pm February 28th 2019 via Twitter Web Client
McPherson #AGBT19 Shows KM curve for melanoma, common nevi (moles) are mimics. Molecular tests - IHC. Thought: gene… https://t.co/OBvEWkHjIb
4:48pm February 28th 2019 via Twitter Web Client
John McPherson (UC Davis) #AGBT19 Spatially resolving RNA biomarkers using GeoMx Digital Spatial Profiler for earl… https://t.co/ZAscUNv6pf
4:47pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Hyb&Seq: full-blown, 4096 seq chem working, contract mfr done, much faster, three posters (908...)… https://t.co/bfhwynx
4:45pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Technical details on DSP is poster 514 Friday 440pm; mapping pathways poster 614 also Friday 440pm.… https://t.co/2RmLPGpgwn
4:44pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Molecular profilers and imagers 'live in different worlds' Volcano plots, tSNEs, etc are where the… https://t.co/hq9EkJujDY
4:42pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Poster 514 image: barcoded probes along length of mRNA, and shows 10 data points per xcript. Dropou… https://t.co/y9oc4o0nzR
4:40pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Shows data from Poster 614, the chemokine and cytokine regions are different. Active invasive margin cp to inactive one.
4:38pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Genentech actually wrote up a review '18 https://t.co/TMzHl7ocld before the instrument was launched.
4:36pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 How the UV light is focused: digital micromirrors. Shows CRC; visible wavelength PanCK antibody, gr… https://t.co/OAKkmI8NyF
4:34pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Microcapillary drinks the probes off the tissue in X-Y coordinate space and deposits into a 96-well… https://t.co/VMEIvjMsbD
4:31pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Affinity probes can be FISH for RNA with oligos instead of fluors. Or oligo-labeled antibodies. The… https://t.co/BJyLlESZZu
4:30pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 4y ago in Gordon Mill's office at MD Anderson - want 100K things off a tissue slice. Instead of ass… https://t.co/LRRqUKxwh7
4:28pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 Will update on Hyb & Seq launch 2021. GeoMx DSP focuses on very difficult FFPE samples. Discovery -… https://t.co/NEyMQt
4:27pm February 28th 2019 via Twitter Web Client
Beechem #AGBT19 3D biology - mRNA, proteins, miRNAs, talked about here at AGBT for a few years. Now: as a microscop… https://t.co/7D6y6Xa5TF
4:26pm February 28th 2019 via Twitter Web Client
Joe Beechem (Nanostring) #AGBT19 Emphasis is not on technology of the GeoMx Digital Spatial Profiler, but rather on… https://t.co/pYnj2kaLCH
4:25pm February 28th 2019 via Twitter Web Client
10X Genomics #AGBT19 Introduces Chromium Connect, cells to sequencing library automation in their suite. "I need my… https://t.co/7ulAWsOaLh
12:59pm February 28th 2019 via Twitter Web Client
10X Genomics #AGBT19 Visium Spatial platform available 'H2 2019'.
12:58pm February 28th 2019 via Twitter Web Client
10X Genomics #AGBT19 Improved resolution: 100um spots, 200um center-to-center. Next: denser features and resolution… https://t.co/GTxQW10LTk
12:57pm February 28th 2019 via Twitter Web Client
10X Genomics #AGBT19 Have already shortened (in 3 mos) from 3days down to 9h. Have increased sensitivity >2x; 3x tr… https://t.co/tARBPMc
12:55pm February 28th 2019 via Twitter Web Client
10X Genomics #AGBT19 Spatial is 'coming soon' - end-to-end. Protocols for every step, slide and reagent kits, softw… https://t.co/HghRWvmgNw
12:54pm February 28th 2019 via Twitter Web Client
10X Genomics #ABRF19 Human heart as part of human cell atlas; week 6.5 and 15 cell types, shows t-SNE plot, and det… https://t.co/YjxMgHnw6w
12:51pm February 28th 2019 via Twitter Web Client
10X Genomics #ABRF19 Paper also noted discordances. Biorxiv preprint - looking across multiple slices, and across tumors.
12:49pm February 28th 2019 via Twitter Web Client
10X Genomics #AGBT19 Can start with an image, or start with clustering of genes. In '18 Nature Comm… https://t.co/66424C3Jtd
12:46pm February 28th 2019 via Twitter Web Client
