Affourtit: Showed Rhodococcus palusris data, marked improvement 'Q>30 thru the 400bp read'. 78% - 94% reduction of indel error #IWT14
5:14am September 15th 2014 via Hootsuite
Affourtit: HiQ on PGM now has one kit (200 & 4000). Indel error reduction for better de novo work; equivalent or better for targeted #IW
5:12am September 15th 2014 via Hootsuite
Affourtit: PGM Hi-Q on OT2, TS 4.2.1 now; Hi-Q on Proton on OT2 before end of 2014, TS 4.4; Hi-Q on Ion Chef + PGM before end of year #IWT14
5:10am September 15th 2014 via Hootsuite
Affourtit: Publications review: almost 800; freq publ. topic is targeted DNA (almost 300). 2 focus areas: accuracy & workflow #IWT14
5:08am September 15th 2014 via Hootsuite
Jason Affortit (Thermo Fisher Scientific), @topoisomerase : "State of the art of Ion Torrent™ technology" #IWT14
5:04am September 15th 2014 via Hootsuite
Here at Ion World Berlin, will be live-tweeting under #IWT14 today and tomorrow. First: @topoisomerase of @iontorrent sharing an update talk
4:56am September 15th 2014 via Hootsuite
Don’t Take Your Vitamins | FiveThirtyEight http://t.co/r7eS46z3vJ
4:00am September 15th 2014 via Hootsuite
RT @TeselaGen: Japanese woman is first recipient of next-generation stem cells http://t.co/17DbaPh2TD @Cyranoski http://t.co/jMEf1zssUG
5:01am September 14th 2014 via Hootsuite in reply to
How China’s Great Firewall works http://t.co/p9dLhwQjhV
4:00am September 14th 2014 via Hootsuite
RT @iontorrent: NGS profiling lung cancer FFPE samples shows high concordance with Sanger sequencing, IDs mut & CNVs: http://t.co/ZT93zD
4:00am September 13th 2014 via Hootsuite
RT @drbachinsky: Genomic distribution and possible functions of DNA hydroxymethylation in the brain http://t.co/zsbGHzHhHv
10:00pm September 12th 2014 via Hootsuite
UTSW RT @JohnCFierce: ICYMI: Google's stealthy Calico inks R&D deal for new compounds aimed at neurodegeneration http://t.co/eMxWO84cyq
9:00pm September 12th 2014 via Hootsuite
RT @ryneches: Woah. A woman lived 24 years until someone noticed she was missing her whole cerebellum | New Scientist http://t.co/Kr19eeBKeV
8:00pm September 12th 2014 via Hootsuite
RT @TheEconomist: A study shows that being dyslexic in Chinese is not the same as being dyslexic in English http://t.co/DJe8aPy3t3
6:00pm September 12th 2014 via Hootsuite
Discovery of new natural antibiotics RT @Sciwhat: This bit on the human #microbiome is fascinating: http://t.co/dRXVgk5OgS
5:01pm September 12th 2014 via Hootsuite
RT @NatureNews: NASA to return sample from Earth-bound asteroid http://t.co/EnzykeN0Z1
4:01pm September 12th 2014 via Hootsuite
RT @noordinaryco: Rapid DNA sequencing from a simple laptop and the future of technology | Medium http://t.co/xEINpe6DLt #technology
3:01pm September 12th 2014 via Hootsuite
RT @InSequence: Oxford Nanopore Presents Details on New High-throughput Sequencer, Improvements to MinIon http://t.co/tI5g5xt5Ii
2:01pm September 12th 2014 via Hootsuite
Mt. Sinai to Open NGS Facility, Initially Equip with Ion Torrent Platforms | GenomeWeb http://t.co/kXeifWN4xW
1:05pm September 12th 2014 via Hootsuite
RT @iontorrent: The Ion Proton will be deployed in support of Mount Sinai’s Resilience Project http://t.co/stkqIcoerg http://t.co/wsLSR6zKKi
1:00pm September 12th 2014 via Hootsuite
:o) RT @mdshw5: @notSoJunkDNA @BioMickWatson SNV = one nutcase, SNP = a population frequency of nutcases.
12:01pm September 12th 2014 via Hootsuite
@neilfws: This is really good. "10 simple rules for better figures": http://t.co/6lJBP3k957
11:01am September 12th 2014 via Hootsuite
RT @EricTopol: The velocity of change and impact of mobile devices is striking http://t.co/5l8UGlKttP @TheEconomist http://t.co/eooRb6L4hS
10:01am September 12th 2014 via Hootsuite
NIH Director: China Leads U.S. in Genomic Research | Health Data Management http://t.co/VQpFTFkrgZ
9:01am September 12th 2014 via Hootsuite
Ion World Tour #IWT14 Manchester Day 2: Andy Felton giving an Ion PGM Dx update http://t.co/nhodTTuSrZ
8:07am September 12th 2014 via Hootsuite
RT @DNABARCODE: Angelina Jolie’s Surgery May Have Doubled #Genetic Testing at One Clinic - http://t.co/7X2vsFVmpg
8:01am September 12th 2014 via Hootsuite
Tonge: Plans to not only do bacterial but also fungal metagenomics on these 'green wall' plants for high vs low VOC consuming variety #IWT14
7:19am September 12th 2014 via Hootsuite
Tonge: Green walls "Rhizosphere microbiome" - can detoxify environmental volatiles. Root zone has microbiome #IWT14
7:18am September 12th 2014 via Hootsuite
Tonge: Conclude: qualitative (due to copy number), not a viability test (although work underway) #IWT14
7:16am September 12th 2014 via Hootsuite
Tonge: Now 20 spores, many with very close similarities (same genus). All cases species called #IWT14
7:15am September 12th 2014 via Hootsuite
Tonge: No homopolymer errors affected their OTU assignments; reads are not proportional (due to copy var in underlying genomes) #IWT14
7:13am September 12th 2014 via Hootsuite
Tonge: Operational Taxonomic Units (OTU) sequence info shown - observed that ITS1 got 7/8. #IWT14
7:10am September 12th 2014 via Hootsuite
Tonge: (cont) then cluster. OTU formation: identity of 0.97. Test set not expected 8, it was 24-16 (based upon the IT1/2/LSU region) #IWT14
7:08am September 12th 2014 via Hootsuite
Tonge: Informatics workflow: trim, de-replicate identical sequences, 'denoise' data (if within 1% of each other consider same)... #IWT14
7:05am September 12th 2014 via Hootsuite
Tonge: Ave sequencing quality of Q30, on an early 400bp kit, with V1 314 chips. #IWT14
7:04am September 12th 2014 via Hootsuite
Tonge: 600K-800K reads on a 314 chip; trimmed products to result in 280K-630K final reads; quality graph shown; plans to use Hi-Q #IWT14
7:03am September 12th 2014 via Hootsuite
Tonge: Proof study: 8 pure fungal cultures, spores produced, DNA isolated, equimolar mix. Amplified one at a time, separate 314 chips #IWT14
6:59am September 12th 2014 via Hootsuite
Tonge: Lists bioinformatics tools he uses: FASTQC, CutAdapt, USEARCH, QIIME, Mothur, UPARSE #IWT14
6:58am September 12th 2014 via Hootsuite
Tonge: Compared classical cloning and Sanger sequencing approach "not appropriate"; same-day on PGM. Suitable for env samples #IWT14
6:56am September 12th 2014 via Hootsuite
Tonge: Developed Ion adapter-fusion primers, with P1 and A adapters. But the primers get large - 49 + 43-mers. Added barcodes too #IWT14
6:55am September 12th 2014 via Hootsuite
Tonge: Nuclear ribosomal repeat unit (ITS1/2 and LSU); LSU for distant fungi, ITS1/2 for genus/species level #IWT14
6:53am September 12th 2014 via Hootsuite
Tonge: Recent work published Apr 14 PLOS One http://t.co/w5mfdvrJpY Similar to 16S, amplified specific regions of fungal genome #IWT14
6:51am September 12th 2014 via Hootsuite
Tonge: Started work on SOLiD with personalized medicine and biomarkers; now fungi speciation in a public health context #IWT14
6:50am September 12th 2014 via Hootsuite
Last up: Dan Tonge (Univ Stafford): "Amplicon-driven fungal metagenomics" #IWT14
6:48am September 12th 2014 via Hootsuite
Carli: Discuva has a 1-day conference Sept 24 in Cambridge UK "One Bug One Drug" (PDF) http://t.co/KEr1EB0PJB #IWT14
6:46am September 12th 2014 via Hootsuite
Carli: ID of candidate target via Ion Proton sequencer, to determine mechanism of compound action. SETI method Tn knockouts #IWT14
6:28am September 12th 2014 via Hootsuite
Carli: Selective Antibiotic Target Identification; antibiotic resistance a major problem; focus on bact essential genes #IWT14
6:25am September 12th 2014 via Hootsuite
Natasha Carli, Joana Martins (Discuva Ltd Cambrdige) "Discovery of new antibiotics using transposon-insertion sequencing" #IWT14
6:19am September 12th 2014 via Hootsuite
Murphy: Alex Laird 2013 review "5-hydroxymethylcytosine profiling as an indicator of cellular state" PubMed http://t.co/1TlihucOw4
6:04am September 12th 2014 via Hootsuite
Murphy: #IWT14 Thomson 2013 NAR reference comparing 3 hydroxymethylC sequencing methods http://t.co/fQWYppPhii
5:14am September 12th 2014 via Hootsuite
