Xian Chang

Thanks so much!

22.03.2025 07:07 — 👍 0    🔁 0    💬 0    📌 0

Huge thank you to my incredible advisor @benedictpaten.bsky.social at @ucscgenomics.bsky.social for all his support and guidance, and to my committee David Haussler, @russcd.bsky.social, and @jianma.bsky.social

21.03.2025 23:02 — 👍 4    🔁 0    💬 1    📌 0

I'm very excited to share that I defended my thesis this week! I helped develop algorithms to combat reference #bias and make genomics more #equitable and #representative by incorporating genetic #diversity into genomics pipelines

21.03.2025 23:00 — 👍 9    🔁 1    💬 1    📌 0

Personalized pangenome references - Nature Methods This work introduces a k-mer-based approach to customizing a pangenome reference, making it more relevant to a new sample of interest. This method enhances the accuracy of genotyping small variants an...

We use personalized references with our Giraffe aligner. Each chromosome is partitioned into a sequence of blocks. We sample the most relevant haplotypes in each block using kmer counts. Mapping to this personalized reference improves variant calling accuracy. www.nature.com/articles/s41...

04.03.2025 23:00 — 👍 17    🔁 8    💬 1    📌 0

Welcome to the Bluesky account for Stand Up for Science 2025!

Keep an eye on this space for updates, event information, and ways to get involved. We can't wait to see everyone #standupforscience2025 on March 7th, both in DC and locations nationwide!

#scienceforall #sciencenotsilence

12.02.2025 17:04 — 👍 11587    🔁 5520    💬 292    📌 679

Variation graph representing the names of long read pangenome mappers: MiniGraph, GraphChainer, GraphAligner, PanAligner, and Giraffe

New figure for my thesis showing why Giraffe is the best long read pangenome mapper. No further evidence will be provided.

14.02.2025 19:45 — 👍 4    🔁 1    💬 1    📌 0

Quote: Long read sequencing is likely the next best test for unsolved cases... It can serve as a single diagnostic test, reducing the need for multiple clinical visits and transforming a years-long diagnostic journey into a matter of hours. Shloka Negi, UC Santa Cruz

Researchers at @ucsantacruz.bsky.social have demonstrated how long-read sequencing could improve detection of diseases that have eluded diagnosis, at a fraction of the cost. New clinical tests could be on the way.
🗞 news.ucsc.edu/2025/01/pate...
👏🏼👏🏿👏🏾 @khmiga.bsky.social @benedictpaten.bsky.social

24.01.2025 19:17 — 👍 15    🔁 7    💬 0    📌 1