Author: timp0

Isac is presenting his NanoNOMe work at the CSHL Nuclear Organization and Function Meeting in the Emerging Technologies to Explore Genome Organization session.  His talk on “Detecting methylation and chromatin accessibility on long DNA sequences” is available here: 180501_CSHL_nanoNOMe_v6post.

Our detailed protocol for high molecular weight extraction of *clean* DNA from sequoias for long read sequencing is up on Nature Protocols Exchange: https://www.nature.com/protocolexchange/protocols/6785#/acknowledgements

Winston is giving a talk today at ABRF in the Metagenomics session on bacterial genome sequencing/assembly and DNA modifications at ABRF.  Slides are available here: 180425_timp_abrf.

Winston is giving at talk today at 11:30 at the JAX Long-read Sequencing Workshop (Farmington, CT).  Slides are available here: timp_jax_180423b.

Rachael is giving a talk on HMW DNA Extraction at the ABRF workshop.  Her slides are available here: 180422_ABRF_workman_redwood.

Our preprint describing our work with the Sears lab on BFT (B. fragillis toxin) on HT-29 cells and the effect on the transcriptome and epigenome (chromatin accessibility is out.  Find it here: https://www.biorxiv.org/content/early/2018/04/18/301374.

Our paper with the Simner lab in JAC is out “Antibiotic pressure on the acquisition and loss of antibiotic resistance genes in Klebsiella pneumoniae”.  It’s a case study of a single patient who had two different K. pneumo strains in them, one HMV and one XDR.  Using nanopore and illumina sequencing for genome assemblies. PDF

Our *other* paper with the Simner lab and Dr. Tamma on a Burkholderia cepacia case study is also out in AAC: Pubmed.

 

Rachael presented her work on HMW sequoia DNA extraction – her talk is available here: 180322_workman_redwood_b.  Winston presented on the direct RNA sequencing work on GM12878 as part of the RNA Consortia – his talk is available here:  180321_curiousb .

Rachael presented her work on Sequoia DNA isolation at AGBT – poster here: 180215_agbtredwood_wta.  Winston presented the lab’s (Yunfan and Isac) work on nanopore methylation and chromatin characterization (nanoNOMe) – poster here: 180215_nanonome_wta.

Rachael presented the Nanopore Consortia work on GM12878 – this was a joint effort between 6 labs (UCSC, JHU, OICR, UBC, UNottingham, UBirmingham). From our lab, Winston, Rachael, Norah and Tim contributed. Her slides are here (180213_Workman_dRNA). The data release is here.