Kornelia Polyak (Dana Farber MA) Advances in technologies (wrap-up / review) #AACR17
12:19pm April 5th 2017 via Hootsuite
Zhang: Searching for novel genome editing tech - due to accumulation of microbial genome data 'unprecedented opps for discovery' #AACR17
11:49am April 5th 2017 via Hootsuite
Zhang: Showing EGFR L858R 'as little as 0.1%', more optimization being done. Affordable, quick, sensitive method. #AACR17
11:48am April 5th 2017 via Hootsuite
Zhang: Shows attomolar detection with C2c2 detection w/fluorescence. Also shows ability to detect ctDNA (37C 2h via RPA) (unpubl) #AACR17
11:47am April 5th 2017 via Hootsuite
Zhang: C2c2 is very stable, can be freeze-dried on paper, for RNA-based viruses. Lentiviral Zika, thermal lysis, RT-RPA w/T7... #AACR17
11:45am April 5th 2017 via Hootsuite
Zhang: C2c2 switches also into nonspecific RNAse state after RNA recognition. 'Collateral RNA' degradation #AACR17
11:41am April 5th 2017 via Hootsuite
Zhang: Natural target is MS2, manipulate in ssRNA MS2 phage genome, clone and determine target site. #AACR17
11:40am April 5th 2017 via Hootsuite
Zhang: '17 rev https://t.co/6ag2aoOf9N 2 DNA-targeting, 1 RNA-targeting. Shows one RNA-target effector C2C2 https://t.co/XYBzO3WAob #AACR17
11:39am April 5th 2017 via Hootsuite
Zhang: Looking for novel CRISPR effectors https://t.co/LB9B3VXGT7 Single-component (simpler) #AACR17
11:37am April 5th 2017 via Hootsuite
Zhang: Did selective antisense KO for MOB3B / EMICERI modules; showed transcription is linked. #AACR17
11:35am April 5th 2017 via Hootsuite
Zhang: ID'd six lncRNA candidates that confer increased drug res in melanoma. Zeroing in on one, TCONS_00015940 (EMICERI) #AACR17
11:32am April 5th 2017 via Hootsuite
Zhang: Most enriched hits - carried DNA-binding motifs. Studying lncRNAs, multiple guides targeting TSS promoter upstream of lncRNAs #AACR17
11:31am April 5th 2017 via Hootsuite
Zhang: Look at BRAF V600E mutant cells, and look at ncDNA element bashing on CUL3 gene - found 7% of sgDNA enriched after drug sel #AACR17
11:29am April 5th 2017 via Hootsuite
Zhang: Non-coding targeting 100kb up and downstream of genes '16 Science https://t.co/OpzNaydJIu #AACR17
11:28am April 5th 2017 via Hootsuite
Zhang: '15 rev of CRISPR https://t.co/ZqmenHC5oT able to do high-throughput. What about non-coding elements? Shows BRAF V600E recurr #AACR17
11:26am April 5th 2017 via Hootsuite
Zhang: Looking at two stories today - high-throughput genetic analysis, and exploring bacterial diversity #AACR17
11:25am April 5th 2017 via Hootsuite
Feng Zhang (MIT MA) Genetic screening using CRISPR-Cas systems, and beyond #AACR17
11:24am April 5th 2017 via Hootsuite
Bhatia: Onto inhalable protease nanosesor diagnostics, pooled urine, utility of multiple marker appraoch. #AACR17
8:54am April 5th 2017 via Hootsuite
Bhatia: Uses MS/MS for readout, different heavy aa's. For lung ca - look to TCGA, determine top 20 extracellular endoproteases #AACR17
8:51am April 5th 2017 via Hootsuite
Bhatia: About a 14-fold increase in-vivo. Getting better specificity - multiplexing the analytes. Look for multiple reporters #AACR17
8:50am April 5th 2017 via Hootsuite
Bhatia: 3rd gen, increase rate of peptide cutting, in press Nature BME, optimized linker, targeting ligand to accumulate to tumor #AACR17
8:48am April 5th 2017 via Hootsuite
Bhatia: 2nd-gen PEG-based, 8-arms (reporters ligated) per particle, for 1cm mass in urine, found at 1h 80x cp to blood CEA #AACR17
8:47am April 5th 2017 via Hootsuite
Bhatia: Urine detector, shows data w/hi cells, 0.94 AUC. For lo CEA cells, not detectable in blood, but day 13 found in urine #AACR17
8:45am April 5th 2017 via Hootsuite
Bhatia: #AACR17 Can find MMP9 in extracellular space '14 ref https://t.co/dQGmH6LNIg CEA-excreted cell lines (hi/lo) to test their system
8:44am April 5th 2017 via Hootsuite
Bhatia: shows whole-mouse staining where fluor is concentrated (bladder lights up). A urinary reporter, MMP9 and CRC next #AACR17
8:42am April 5th 2017 via Hootsuite
Bhatia: 1st gen material '13 Nature biotech https://t.co/gjlPQjUflK Fluor quenching; thrombin-sens peptide #AACR17
8:41am April 5th 2017 via Hootsuite
Bhatia: 100-1000 peptides can be cleaved/h. 2nm peptides filtered by kidney (5nm filter organ). Concentration in urine #AACR17
8:40am April 5th 2017 via Hootsuite
Bhatia: Targeting 566 endoproteases. Role throughout growth '07 rev https://t.co/jyBP7TSTyb Shows cool video of nanomaterials 100nm #AACR17
8:39am April 5th 2017 via Hootsuite
Bhatia: A synthetic biomarker; 500 enzymes in the genome it can be designed against (multiplexing); can be shed in urine (conc) #AACR17
8:37am April 5th 2017 via Hootsuite
Bhatia: Idea - administer an exogenous probe, measure enz activity, amplify the signal upon encountering enz, shed analyte #AACR17
Bhatia: Intrigued by a math problem '11 ref https://t.co/UlNgFyaRQ3 CA125 as a poor diagnostic biomarker - lack of sensitivity #AACR17
8:35am April 5th 2017 via Hootsuite
Sangeeta Bhatia (MIT MA) Activity-based biomarkers for non-invasive cancer detection #AACR17
8:33am April 5th 2017 via Hootsuite
Balasubrumanian: #AACR17 Work on synthetic lethality '13 ref https://t.co/wDkdkzdsdy Room for agents w/Rx properties. Clin trials starting
8:30am April 5th 2017 via Hootsuite
Balasubrumanian: Data suggest G4 mark transcription activation. '14 PLOS https://t.co/fLOWoLWVHw elevated in liver, gastric ca #AACR17
8:29am April 5th 2017 via Hootsuite
Balasubrumanian: Using NHEK vs HaCaT cells and G4 ChIP, shows data linking structures to promoter transcription #AACR17
8:26am April 5th 2017 via Hootsuite
Balasubrumanian: HDAC inhibitor - stimulates open chromatin, and quadruplex formation. #AACR17
8:25am April 5th 2017 via Hootsuite
Balasubrumanian: #AACR17 Recent '16 Nature Genet https://t.co/K23DTTKhmp shows G4 in open chromatin using ATAC-Seq. Upregulation
8:23am April 5th 2017 via Hootsuite
Balasubrumanian: #AACR17 High density of these sites where gene amplification occurs '15 Nature Biotech https://t.co/qbnO9qNeUE
8:20am April 5th 2017 via Hootsuite
Balasubrumanian: Able to do differential G4 sequencing (either stabilized or not); found 500K. Reg role https://t.co/bUlrJxADiQ #AACR17
8:19am April 5th 2017 via Hootsuite
Balasubrumanian: PDS causes transcription and replication dependent DNA damage at G4 sites. '14 ref https://t.co/9P3K9dPvSt #AACR17
8:16am April 5th 2017 via Hootsuite
Balasubrumanian: Visualizing in human cells via cell cycle, shows G0/G1, G1/S and S phases, correlating with presence of ssDNA #AACR17
8:10am April 5th 2017 via Hootsuite
Balasubrumanian: #AACR17 Able to stabilize via pyridostatin and scAb called BG4 '13 ref https://t.co/BKaCgsqUBZ
8:09am April 5th 2017 via Hootsuite
Balasubrumanian: Enriched in upstream promoters and first introns, transcription end-sites, gene bodies, telomeric repeats #AACR17
8:06am April 5th 2017 via Hootsuite
Balasubrumanian: K+ > NH4+ > Na+ > Li+ and predicted quadruplex sequence. G3-6N1-7G3-6N1-7G3-6N1-7G3-6 >300K in the genome #AACR
8:05am April 5th 2017 via Hootsuite
Balasubrumanian: Shows a figure of DNA folded back on itself, with a cation. 'A well-organized knot by single-stranded DNA' #AACR17
8:04am April 5th 2017 via Hootsuite
Shankar Balasubrumanian (Cancer Research UK) G-quadruplexes and DNA dynamics #AACR17
8:02am April 5th 2017 via Hootsuite
ICYMI at #AACR17 AstraZeneca's poster of 4 different ctDNA service providers across dozens of pt samples https://t.co/Wi2tVavWwF
7:50am April 5th 2017 via Hootsuite
Lacey A2: Then a word-substitution - Participants, not Customers. Samples, not sales for transactions. #AACR17
7:40am April 5th 2017 via Hootsuite
Q: How did you come up with SFDC CRM? Lacey: By chance. Collaborator was married to a VC, connected to SFDC. #AACR17
Q: EMR integration? Lacey: Misperception of EMR/EHR - need other ecosystem for research, working now on it #AACR17
7:39am April 5th 2017 via Hootsuite
