Husband & wife PhD duo working on single-cell epigenomics at Oregon Health & Science University with @acadey80. Ruth maintains the account.
Portland, OR
Joined May 2020
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- Following107
- Followers73
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Ruth V. Nichols & Brendan L. O'Connell retweeted
Atlas-scale Single-cell DNA Methylation Profiling with sciMETv3 biorxiv.org/cgi/content/shor… #biorxiv_genetic
Ruth V. Nichols & Brendan L. O'Connell retweeted
Single-cell DNA methylation analysis tool Amethyst reveals distinct noncanonical methylation patterns in human glial cells biorxiv.org/cgi/content/shor… #biorxiv_neursci
Ruth V. Nichols & Brendan L. O'Connell retweeted
New preprint! sciMET-cap, where we use hybrid capture to reduce the sequencing burden of scMethylation and show ~6,000 cell preps are possible using a benchtop sequencer! Led by S. Acharya and @oconnellphds with @DrTedPBraun & @L_Rylaarsdam. biorxiv.org/content/10.1101/…
Ruth V. Nichols & Brendan L. O'Connell retweeted
Summary of our latest two papers on GenomeWeb! Thanks for the coverage - we are excited about both of these techniques regarding how they can improve the scale of single-cell epigenomic studies; both led by @oconnellphds! @OHSUSOM #singlecell #epigenetics
OHSU Researchers Push Throughput, Accessibility for Single-Cell Epigenetic Assays. An improved sample prep workflow for single-cell methylation analysis offers the prospect of commercialization, which could be readily taken up in cancer genomics. ow.ly/6NBa104wCnV
Ruth V. Nichols & Brendan L. O'Connell retweeted
Excited to have our work using the @TakaraBioUSA iCell8 instrument with single-cell combinatorial indexing to achieve high-throughput scATAC out in early access in @genomeresearch led by @oconnellphds! #singlecell @OHSUSOM @OHSUNews @OHSUBrain (1/4)
genome.cshlp.org/content/ear…
Ruth V. Nichols & Brendan L. O'Connell retweeted
A high-throughput method for generating single-cell DNA methylomes with high coverage @acadey80 @oconnellphds
go.nature.com/3WsKkGl
Ruth V. Nichols & Brendan L. O'Connell retweeted
Happy fifth birthday to Maple! Her team threw a party with branches, otters and Filbert, who took a cookie to go.
Ruth V. Nichols & Brendan L. O'Connell retweeted
Interested in single-cell genomics but need help keeping up with a rapidly changing field? Check out our free #singlecellgenomicsday workshop, starting in a few minutes! Full agenda and livestream at satijalab.org/scgd, or follow along below:
youtube.com/watch?v=lX4d12nT…
Ruth V. Nichols & Brendan L. O'Connell retweeted
Nice article discussing some of the complexities of variants found by @OregonCovidSeq team of scientists. @BenBimber @acadey80 @BenBimber @SallyGrindstaff @oconnellphds @snchry Kayla Carter.
So, we’ve all been hearing about the arrival of these COVID ✨variants✨
Is it time for us to go out and panic? @TheRealDrOLab says no. But it’s a bit complicated, and he very kindly explained the situation to me — check out the story @Oregonian ⬇️⬇️⬇️
oregonlive.com/coronavirus/2…
Ruth V. Nichols & Brendan L. O'Connell retweeted
@OregonCovidSeq has been busy the past ~month w/ 572 new genomes now in @GISAID. +5 complete #VOC #B117. As just reported by @apoorva_nyc, worryingly, one of these #B117 samples also contains the spike #E484K, which is a key mutation in #P1 & #B1351 #VOC 🧵1/10 on these & others
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Ruth V. Nichols & Brendan L. O'Connell retweeted
Congratulations to Dr. Ryan Mulqueen for successfully defending his thesis titled “Novel Single-cell omics assays of corticogenesis” today! Jointly mentored by @TheRealDrOLab & @acadey80. #Proud #PhD #RealDr #birder #singlecell #Genomics
Ruth V. Nichols & Brendan L. O'Connell retweeted
Ending #2020 with >1,500 #SARSCoV2 genomes sequenced was a tremendous achievement for the team. @BenBimber @acadey80 @PDXdengue @oconnellphds @SallyGrindstaff KaylaCarter and our partners at OHSU MM lab @donnahanselOHSU, Daniel Streblow, Alec Hirsch, Guang Fan, &@XuanXuanqin. 6/7
Ruth V. Nichols & Brendan L. O'Connell retweeted
Important genomic updates on #SARSCoV2 in #Oregon from @OregonCovidSeq team from our latest data release including #B117 /#501YV1 and #L452R spike mutation. Now over 1500 genomes sequenced @OHSUSOM from #2020. @nextstrain @OHSUnews content.govdelivery.com/acco… A short thread 1/7
Ruth V. Nichols & Brendan L. O'Connell retweeted
Four years' work, 178 billion sequencing reads, and nearly 5 million cells went into constructing atlases of gene expression and chromatin accessibility in human development, out now.
Ruth V. Nichols & Brendan L. O'Connell retweeted
New preprint! In work led by Ryan Mulqueen, we describe “s3”, a technology that improves the coverage of single-cell assays including s3-ATAC, s3-WGS, and s3-GCC (WGS+HiC)! #singlecell
High-content single-cell combinatorial indexing biorxiv.org/content/10.1101/…
Ruth V. Nichols & Brendan L. O'Connell retweeted
Read about latest work from our team sequencing #SARSCoV2 in #Oregon @BenBimber @oconnellphds @acadey80 @PDXdengue @OHSUSOM
Our 3nd released of 155 new #SARSCoV2 genomes to @GISAID w/ metadata and now available in today's @nextstrain release. 149 #Oregon and 6 #SWWA. This brings the number of #Oregon viral genomes available to over 400! @OHSUNews @OHSUSOM #COVID19
xitter.cf/nextstrain/status/1291…
👇1/n
Ruth V. Nichols & Brendan L. O'Connell retweeted
Everyone needs to understand that the decline of SARS-CoV-2 Abs after the peak of infection is normal. This is basic immunology. If our immune system did not contract after viral infections, we would all be walking around with gigantic lymph nodes. SARS-CoV-2 Abs look good!
A new @NEJM report on rapid decay of #SARCoV2 antibodies in people with mild infections
nejm.org/doi/full/10.1056/NE…
For context of this finding, @DKThomp took it on yesterday
nejm.org/doi/full/10.1056/NE… @TheAtlantic
and
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