Quantitative and Computational Biology @USC.
Joined March 2010
- Tweets 3,410
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- Followers 1,610
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236 Photos and videos
17 Oct 2025
Happy to announce our paper on a new genotyping algorithm, ctyper. nature.com/articles/s41588-0… . This is amazing work by Walfred Ma, someone you will want to keep on your radar for future contributions to science.
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17 Oct 2025
Some highlights of the method are: Walfred developed a novel mathematical model that enables accurate and rapid alignment-free genotyping of pangenome alleles. Benchmarking shows little bias (HWE), accurate trio inheritance, and near-perfect copy-number estimation.
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17 Oct 2025
The method can genotype challenging medically relevant genes like SMN and PTEN as well as produce accurate HLA alleles and CYP2D star-alleles. Finally, we were able to use ctyper genotypes to study relative contributions to gene expression among copy-number variable genes.
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3 Apr 2025
Social media is the cancer of our society - Tadej Pogacar
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11 Nov 2024
I will be hosting an information session for applicants to the USC Computational Biology and Bioinformatics PhD program, discussing research topics and application strategies. If you are registering with a non-institutional e-mail, please let me know
tinyurl.com/cbb-qbio-info
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8 Nov 2024
My first peleton experience was without Bluetooth connection so I assume this dude is trying to sell me on how profitable Bitcoin will be if I buy now
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Mark Chaisson retweeted
6 Nov 2024
#ASHG24 #ASHGtrainees Are you interested in #autism and how #mutations impact the development of the brain? Do you❤️ transcription factors and networks? Want to do all the #omics and live in the beautiful #pnw? DM me to discuss a #postdoc @OHSUSOM 🙏 RT
jobrxiv.org/job/oregon-healt…
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Mark Chaisson retweeted
5 Nov 2024
Thrilled for #ASHG24. Please check out the cool work from our group and collaborations! Lots of exciting methods for large scale analysis of genetic data 😁
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5 Nov 2024
Did an hour of phone banking from LAX. There are still people who need a nudge. For those who are tweeting to their circles about the need to vote, trust me the persuadables didn't see your socials
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4 Nov 2024
To catch up on our lab research at ASHG, you can see Walfred Ma's talk on sequence-resolved CNV genotyping in the Decoding Structural Variation at Scale session Wed 8-9:30 4-season ballroom 1, and Bida Gu's poster on our VNTR motif database 1044T. See you there!
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Mark Chaisson retweeted
4 Nov 2024
Really excited to have this out: a cell type-specific map of the impact of an understudied class of genetic variation (tandem repeats) on gene expression, at serious scale: nearly 1800 people with both WGS and blood scRNA-seq. So much signal!
4 Nov 2024
📢 New preprint alert: We’ve just published a deep dive into the role of tandem repeats (#TRs) in single-cell gene expression across the immune system, using #WGS and #scRNA-seq data from 1,790 individuals and over 5 million blood cells! 🧬
🧵👇 #repeats #SingleCell 1/9
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Going to #ASHG2024 next week? I will be looking forward to talk about science (we have 1 talk and 2 posters), friendship, and my newly posted popgen informatics postdoc position: sbmi.uth.edu/current-student…
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1 Nov 2024
There are plenty of opportunities to make calls this weekend. It's time. Any questions for how? dm. Repost so twitter algo sends out.
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31 Oct 2024
I'm scouring departmental web pages for undergraduate advisor contacts in chemistry, biochemistry, biophysics, cs, and applied math, and it is universally harder to do than I thought.
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Mark Chaisson retweeted
31 Oct 2024
I want to try something new at #ASHG24 this year: I'm going to block some time on Friday afternoon to meet with any trainees who would be interested to chat on any topic.
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30 Oct 2024
Sure, ... is great, but have you ever won over an independent and a Stein voter (who will now get her friends to vote) in the same phone bank?
But seriously, it's time for no regrets- just a half hour here or there making calls can make the difference.
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