Bass: EBV+ 'King' of hypermethylation (of all types of cancers TCGA has analyzed to-date) #AACR14
7:45pm April 8th 2014 via Hootsuite
Bass: Looking at methylation profiling for EBV+ and MSI+ gastric ca: across 1315 CpG sites, clear differences #AACR14
7:44pm April 8th 2014 via Hootsuite
Bass: Four types: EBV, MSI, 'Stable', Aneuploid. Stable - mainly diffuse. EBV - mostly fundus body #AACR14
7:42pm April 8th 2014 via Hootsuite
Bass: Four groups: eBV #AACR14
7:41pm April 8th 2014 via Hootsuite
Bass: Cp to other TCGA, gastric took it from an unbiased classification approach. Det 4 subtypes via unsupervised clustering #AACR14
Bass: TCGA 295 gastric ca's - including GEJ. Goal: better classification; ID key pathways; ID targets/biomarkers #AACR14
7:39pm April 8th 2014 via Hootsuite
Bass: For gastric / esophageal adenocarcinoma - histological, anatomic, geographic, molecular differences. #AACR14
Bass: Reviewed types of somatic alterations: mutations, amplifications, deletions, translocations #AACR14
7:37pm April 8th 2014 via Hootsuite
Next: Adam Bass, Dana-Farber Cancer Inst. "Emerging insights from the TCGA study of gastric cancer" #AACR14
7:34pm April 8th 2014 via Hootsuite
Fox: Conclude: intestinal helminths can attenuate gastric disease. (Showed some data from Columbia, South Am.) #AACR14
7:32pm April 8th 2014 via Hootsuite
,@splon That is quite a coincidence indeed!
7:30pm April 8th 2014 via Hootsuite in reply to
Fox: Now in INS-GAS-FVP mice, now with H. polygyrus: reduced dysplasia, increase of FOXP3 regulatory cells #AACR14
7:27pm April 8th 2014 via Hootsuite
Fox: Looking at helminths (Heligmosomoides polygyrus), a natural mouse parasite and its effect with H. felis alone #AACR14
7:26pm April 8th 2014 via Hootsuite
Fox: Defined 'Altered Schaedler's Flora', looked at non-Hp bacteria 2014 Lertpiriyapong et al Gut ref. http://t.co/S7kD06Kx8R #AACR14
7:23pm April 8th 2014 via Hootsuite
Fox: Germ-free ctrl vs. Hp in these models? Attenuated gastritis, delayed gastric ca. 2011 Lofgren et al http://t.co/igiaUZzf9e #AACR14
7:21pm April 8th 2014 via Hootsuite
Fox: Looked at mouse colonies: 88% from academic inst. were colonized with enterohepatic Helicobacer spp. #AACR14
7:17pm April 8th 2014 via Hootsuite
Fox: Rolig et al 2013 http://t.co/wBq27MYdAO showed two different mice responses from difference sources (i.e. Taconic vs. JAX) #AACR14
7:16pm April 8th 2014 via Hootsuite
Fox: 2008 Lee et al Cancer Res paper http://t.co/MJnCxiNP88 showed eradication of Hp prevents progression to gastric ca #AACR14
7:14pm April 8th 2014 via Hootsuite
Fox: Developed INS-GAS FVP mice, 2000 Gastroenterology paper http://t.co/Oig44Wa7cR What role of antibiotics for gastric ca prev? #AACR14
7:13pm April 8th 2014 via Hootsuite
Fox: In mice, Hp not native; anatomy different; mice are coprophagic also (more transient microbes) #AACR14
7:11pm April 8th 2014 via Hootsuite
Fox: Sheh Fox in Gut Microbe 2013 paper: http://t.co/avEzpHZl8z Pylori outcompetes other phyla; in mice, lose Hp in gastritis #AACR14
7:10pm April 8th 2014 via Hootsuite
Fox: Gastric microbiota shows considerable variability. "The stomach is no longer sterile"; H pylori infects 50% of the population #AACR14
7:08pm April 8th 2014 via Hootsuite
Fox: Modifies the model from Blaser Moss Nat Clin Pract Onc 2005 paper on inflammation http://t.co/OwgN4FUktx #AACR14
7:07pm April 8th 2014 via Hootsuite
Next: James Fox, MIT. "The gastric cancer connection: Helicobacter pylori, helminths, and the intestinal microbiome" #AACR14
7:05pm April 8th 2014 via Hootsuite
.@comprendia @scientre A very pleasant surprise to see you both! Social media is such a facilitator for IRL relationships.
6:57pm April 8th 2014 via Hootsuite in reply to
Harris: Looked at mIR-21 in lung ca, cross-cohorts & exposures. 2006 Yanaihara Cancer Cell http://t.co/QRDHqWTlaD #AACR14
6:39pm April 8th 2014 via Hootsuite
Harris: Lung cancer in never-smokers: 2nd-hand smoke - 2009 Olivo-Marston et al http://t.co/FMkWWq1xR5 Inc esp. with MBL-2 haplotype #AACR14
6:21pm April 8th 2014 via Hootsuite
Harris: 18% of human cancers - 1.8M - related to infection acc to World Cancer Report. 'Definitely an underestimate' #AACR14
6:16pm April 8th 2014 via Hootsuite
Harris: p53 tumor supp is at the 'crossroads of the exposome and cancer genome' #AACR14
6:13pm April 8th 2014 via Hootsuite
Next: Curt Harris, NCI. "Integration of cancer epidemiology and biomarkers in precision cancer medicine" #AACR14
6:11pm April 8th 2014 via Hootsuite
Next: 23rd annual AACR/ACS Award for Research Excellence in Cancer Epidemiology and Prevention: Curtis Harris, NCI
6:10pm April 8th 2014 via Hootsuite
Kinzler: Looked further and did WES on these neoplastic pancreatic cysts, ID'd 4 classes of genes http://t.co/PiLmU0rNvm #AACR14
5:20pm April 8th 2014 via Hootsuite
Kinzler: Several types of pancreatic cystic lesions; looking at cyst fluid from Wu et al Sci Trans Med 2011 http://t.co/xeDPBjJCSa #AACR14
5:19pm April 8th 2014 via Hootsuite
Kinzler: CTC vs ctDNA compared: no CTC's were detected in 13/16 cases #AACR14
5:12pm April 8th 2014 via Hootsuite
Kinzler: Freq of cases increases with stage (40% at S.I, 80% at S.IV) Metastatic disease ranged from 89-100%; localized from 40-60% #AACR14
Kinzler: Survey of ctDNA in human cancer, Bettegowda et al Sci Trans Med http://t.co/IhvU0e1RMJ Compared tumor to plasma ctDNA #AACR14
5:10pm April 8th 2014 via Hootsuite
Kinzler: Safe-SeqS - the NGS equivalent, 2011 PNAS http://t.co/YXb3qUDOGj #AACR14
5:08pm April 8th 2014 via Hootsuite
Kinzler: Focus on small muts in somatic. 'Digital genomics' - their approach for digital PCR in 1999 PNAS http://t.co/FtkuIeZ604 #AACR14
5:07pm April 8th 2014 via Hootsuite
Kinzler: Challenge - tumor vs normal DNA: small intragenic somatic muts, methylated DNA, transloc / rearr's. #AACR14
5:04pm April 8th 2014 via Hootsuite
Kinzler: Where DNA appears from panc ca: blood (ctDNA), cyst fluid (cfDNA), pancreatic juice, possibly stool #AACR14
Kinzler: As tumors grow some DNA is released; for example a CR ca, some into stool, some into circulation (ctDNA) #AACR14
5:03pm April 8th 2014 via Hootsuite
Kinzler: 2013 Cure rates: 87% of melanoma, 63% of CR, only 5% of pancreatic cancer. Likely due to ability to screen, detect early #AACR14
5:01pm April 8th 2014 via Hootsuite
Kinzler: Introducing the concept of 'escaped tumor DNA' (etDNA) and its application. #AACR14
Next: Kenneth Kinzler, Johns Hopkins. "Developing new diagnostics for pancreatic cancer" #AACR14
4:59pm April 8th 2014 via Hootsuite
Bardeesy:Q: What happens when autophagy shuts down? A: Cytostatic response in-vitro, there are good ideas to drive to cell death #AACR14
4:53pm April 8th 2014 via Hootsuite
Bardeesy: When TFE3 knocked-down, entire autophagy-lysosome gene signature knocked down as well. #AACR14
4:45pm April 8th 2014 via Hootsuite
Bardeesy: TFEB drives expression of lysosomal and autophagic genes. Settembre Nat Cell Biol 2013 http://t.co/7cZem06rgx #AACR14
4:41pm April 8th 2014 via Hootsuite
Bardeesy: PDA have expanded autophagosome-lysosome compartment; selected a gene set (~100?) from MS, ChIP, interactome data #AACR14
4:39pm April 8th 2014 via Hootsuite
Bardeesy: Reviewed autophagy and metabolism. Science 2010 review: http://t.co/fqM7QY61vj LC3 autophagy marker #AACR14
4:36pm April 8th 2014 via Hootsuite
Bardeesy: Many papers about metabolic progr. in PDA. Rosenfeldt 2013: http://t.co/5Jo7BS813d DePiho PNAS http://t.co/csWwdyRlpQ #AACR14
4:34pm April 8th 2014 via Hootsuite
