John Charles NASA Johnson Space Center (retired) #AGBT19 “From here to Mars: How the Twins Study and the year-long… https://t.co/K4dy7cjprM
9:32am March 1st 2019 via Twitter Web Client
Q: TADs can't explain tissue-specificity. Bickmore #AGBT19 TADs have 'disturbed me' due to their conservation.
9:31am March 1st 2019 via Twitter Web Client
Q: Why care about TADs? Bickmore #AGBT19 They are conserved, some kind of polymer maintenance mechanism. Keeping things stable over time.
9:29am March 1st 2019 via Twitter Web Client
Q: Can the domains that initiate phase separation be disrupted? Bickmore #AGBT19 Want to interrupt but not prevent… https://t.co/T42OlKy1GG
Bickmore #AGBT19 Phase separation does not require chr looping, direct contact. 'We lack tools to disrupt, modify p… https://t.co/nVYZ4ZAOhh
9:27am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Post-transl mod of protein using PARPI catalytic activity, driving phase separation. '17 Cell… https://t.co/tLVtKub4gz
9:25am March 1st 2019 via Twitter Web Client
RT @mason_lab: Dozens of enhancer-opathies known that influence or cause Mendelian diseases: a great list from Dr. Wendy Bickmore from @Edi…
9:22am March 1st 2019 via Hootsuite Inc.
RT @DCGenomics: Nothing in biology is as simple as we once thought! #agbt19 https://t.co/Uq5Lc2tTfq
Bickmore #AGBT19 Decreased enh-promoter activity during neuronal activation ex-vivo - going apart instead of coming… https://t.co/8MlVMr8DKG
9:21am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Mice are fine, no phenotype whatsoever. Prior correlation - no evidence that Shh TAD req'd for correct long-range gene reg.
9:20am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Breaking the TAD: mutating the borders of CTCF sites using CRISPR. Shows no disruption of looping… https://t.co/fbs8iE4wZQ
9:19am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Used 5C - anterior vs posterior sites: look identical in triangle pattern. Using FISH: probes over… https://t.co/dUv0iXAJqQ
9:16am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 all GOF muts; it makes the enh too good. Adding one additional binding site to the enhancer. 3D or… https://t.co/qXtMqoc5WT
9:14am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Shh locus is an exemplar for long-range gene reg; shows several examples of preaxial polydactyly (… https://t.co/Q101NyypAH
9:13am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 How do the enhancers act from a distance? '15 Trends Genet https://t.co/hBbjFHBNhT Mechanism - coh… https://t.co/g79qwupUkr
9:12am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 These sites where tissue-spec Transcription factors act, and mutations affect function. Shh - many… https://t.co/3N64QbsDXU
9:09am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Also dosage sensitive - duplications of enhancers. Pierre Robin Sequence >1Mb from SOX9 transloc,… https://t.co/nPwKRaDj
9:08am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 De novo events in these areas can cause Mendelian disorders. Long list of diseases (i.e. Syndactyl… https://t.co/4VOs5z1eWl
9:07am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 There are 13 enhancers of Shh - many more expected to be discovered. 1M bp away; still in the co-l… https://t.co/eokNMFf6eE
9:06am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Topologically-Active Domains - triangle-shaped regulatory domains of dev genes. Sonic Hedgehog (S… https://t.co/W8KByrxvTz
9:05am March 1st 2019 via Twitter Web Client
Bickmore #AGBT19 Shows imaging methods from '11 https://t.co/onEqOOPtN8 and Hi-C methods with Chr 2 (active) and Ch 2 (inactive)
9:04am March 1st 2019 via Twitter Web Client
Wendy Bickmore (The University of Edinburgh) #AGBT19 Spatial organization of the human genome
9:03am March 1st 2019 via Twitter Web Client
New post: The early days of spatial genomics at #AGBT19 https://t.co/y0Fzo6IML2
6:55am March 1st 2019 via WP to TWTR on Yuzuki.org
RT @nanostringtech: Special thank you to @DaleYuzuki for attending our #SpatialGenomics Summit yesterday at #AGBT19… https://t.co/wefe3meG0P
6:15am March 1st 2019 via Hootsuite Inc.
New post: NanoString’s Digital Spatial Profiling Microscope at #AGBT18
5:41am March 1st 2019 via WP to TWTR on Yuzuki.org
RT @mason_lab: Aviv Regev showing the cool, emerging landscape and tool box for spatial genomics, including @nanostringtech GeoDx #AGBT19 h…
5:33am March 1st 2019 via Hootsuite Inc.
RT @mason_lab: @hagentilgner getting ~400GB on the new @PacBio 8M ZMW SMRTcell, with 1-5 million CCS cDNA reads and <1% error rate. Lower
5:32am March 1st 2019 via Hootsuite Inc.
RT @tysonaclark: Wow. Apparently I tweeted a lot in 2017. Don’t think I’ll make the list this year at #AGBT19. Go @DaleYuzuki. https://t…
5:02am March 1st 2019 via Hootsuite Inc.
Ragoussis #AGBT19 Cycling cells ID'd by scRNA-seq signature.
9:29pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 Integrate RNA-seq with scCNV data: Shows good correspondence. But CN events in sc assays only in… https://t.co/LDep5rVWBF
9:26pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 One sample - BDGFRA on Chr 4 on the branch, 0.22 allele frequency, other genes 1.0 on the trunk.
9:24pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 Early events in phylogenetic tree: Chr10 deletion, then Chr7 amp. Integrating CNVs - did WGS and… https://t.co/CRmaMz7rvI
9:22pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 Did scDNA CNV with 10X Genomics, also phylogenetic tree construction. Sometimes can find CNAs, others none.
9:20pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 3 mins signatures found by PCA: astrocytic, stem and neuronal genes, with a conserved lineage. An… https://t.co/1nahfkk50C
9:18pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 Find transcriptomic hetergeneity in GBM. Find expected TCGA subtypes (Proneural, neural, classical, one other).
9:16pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 Dissoc 100,000 cells from 30 pts and 20K fetal brain cells, to scRNA-seq. Chose CD31- and CD45- cells, did enrichment.
9:15pm February 28th 2019 via Twitter Web Client
Ragoussis #AGBT19 GBM has mean survival of 14 months with current Rx. Multiforme - hetergeneous. Thus - hierarchy,… https://t.co/qlSQ3FquiU
9:14pm February 28th 2019 via Twitter Web Client
Jiannis Ragoussis (McGill Univ) #AGBT19 Single cell DNA-seq and single cell RNA-seq of 20,000 Glioblastoma cells i… https://t.co/5Xz8CFX9z3
9:13pm February 28th 2019 via Twitter Web Client
Q: can it be turned into cfDNA test? McNamara #AGBT19 Morbidity of cancer treatment, it may be worth it.
9:10pm February 28th 2019 via Twitter Web Client
Q: Can markers be combined into a single metric? McNamara #AGBT19 With immune markers that may be possible with predictive power.
9:09pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 Future: interrogating immune changes w/targeted Rx.
9:08pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 DSP RNA data vs bulk - significant difference with DSP, in bulk signal clearly lost. Concl: archiv… https://t.co/GG1dqUSHqp
9:07pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 Effects of 1 cycle of Rx: tumor prolif decreases from baseline to run-in. Her2 protein also decrea… https://t.co/IEctnnTuM8
9:05pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 The DSP technology - can look at many markers. Coeff of var by protein probe - Her2 varies higher.… https://t.co/PYiwdftemQ
9:03pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 How consistent is Her2 levels from various regions? Staining - mean squared error 0.124 But betwee… https://t.co/kUfreoVmDv
9:02pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 PD-1, PD-L1 access as well as CTLA-4 on the RNA. Q's: what can they learn about spatial heterogene… https://t.co/3urv7DOqeU
8:59pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 Shows image masks, profiled PanCK+ and - regions, chose four regions across three time points. Pro… https://t.co/ltSdMG5G57
8:57pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 Working with archival samples impt. Both protein 43-plex, and RNA 108-plex. ROI's ID'd under flour… https://t.co/B9DHEHS2ed
8:56pm February 28th 2019 via Twitter Web Client
McNamara #AGBT19 Heterogeneity in the tumor and microenvironment in the course of Rx - resp and non-resp. Looking a… https://t.co/yySMhwGSFI
8:54pm February 28th 2019 via Twitter Web Client
Katherine McNamara (Stanford) #AGBT19 Spatial and temporal profiling of protein and RNA in the tumor-immune microe… https://t.co/ysBviPk2Qg
8:51pm February 28th 2019 via Twitter Web Client
