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annizlab.bsky.social
AnniZLab: [🦠, 🧬 , ✨]
@annizlab.bsky.social
250 followers 230 following 89 posts
A microbiologist 🦠& bioinformatician 🧬 uncovering diverse microbial mechanisms via AI ✨. A rising assistant professor @NTU Singapore. With data in the cloud, the sky is the limit! Check out our lab website :) https://genomiverse.net/
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annizlab.bsky.social
After hours of sitting in the office, a standing desk feels like a life savor! why not upgrade meeting and classrooms with standing desks? What else could make our work more healthful (and fun)? 🧘‍♀️🧪
October 17, 2025 at 3:16 AM
annizlab.bsky.social
A little touch of science to personalize my office (DNA + lab pens) 🧬 - any new idea would be appreciated! Curious, what makes your office feels like yours? 🧪
September 23, 2025 at 7:12 AM
annizlab.bsky.social
X-Mapper 🦠🧬🧪 - a sequence aligner developed for microbes, now on Bioconda! 🚀
• 11–24× fewer suboptimal alignments (same for human genome)
• 3–579× lower inconsistency
• improves on ~30% of reads aligned to non-target species
github.com/mathjeff/map...
bioconda.github.io/recipes/x-ma...
#microsky
Alignment algorithms represent a balance between speed and accuracy. We evaluated this balance across aligners, with accuracy measured by suboptimal alignments. We found that the relationship between alignment time (with 30 threads) and suboptimal alignment rates exhibits diminishing returns, where X-Mapper stands out as an outlier, offering the highest accuracy with competitive speed.
September 15, 2025 at 2:32 AM
annizlab.bsky.social
My gift to the lab (a claw machine with science ideas) and lab's gift to me 🤣 You can tell who are the grown-ups here!👶🎁
September 11, 2025 at 2:49 AM
annizlab.bsky.social
A plasmid golden ratio? 🧬
Plasmid copy number ≈ 2.5% of chromosome size—consistent across bacterial species!
pmc.ncbi.nlm.nih.gov/articles/PMC... @jerorb.bsky.social
🧪 #microbesky
a Scatter plots showing the correlation between plasmid size (x-axis) and PCN (y-axis) for the analysed genera. Each point represents the median PCN and plasmid size for each PTU, and error bars indicate the standard deviation from the median. Grey lines represent ordinary least squares regression, with the surrounding shaded area indicating 95% confidence intervals. The scaling factor or slope, k, is indicated on each panel. b Distribution of total DNA load per plasmid (x-axis) relative to chromosome size per genus (y-axis). The DNA load of each plasmid is calculated by multiplying the plasmid size by the copy number and then expressed as a proportion relative to the chromosome size. The point inside the box marks the median. The upper and lower hinges correspond to the 25th and 75th percentiles, and whiskers extend to 1.5 times the interquartile range. Only Escherichia and Salmonella significantly differ from All; Kruskal–Wallis test followed by Dunn’s test for pairwise multiple comparisons p < 10−4; effect size = 0.006. c Relative plasmid DNA load observed (%) (x-axis) and expected (y-axis) per cell. The y-axis indicates the expected plasmid DNA load (%) inside a cell when it contains one plasmid (1n), two plasmids (2n), and so on. This expected data has been calculated by generating a sequence from 1 to 9 multiplied by the median of the DNA load per plasmid (2.49%). Each green point represents a single genome, and the black points are the median for each category. Shading indicates interquartile ranges. Pearson’s p value and coefficient are shown for the correlation between expected and observed plasmid DNA.
September 9, 2025 at 3:54 AM
annizlab.bsky.social
Bugs-as-Buds 🍽️ Day 1 menu!
September 8, 2025 at 12:53 PM
annizlab.bsky.social
September 8, 2025 at 12:52 PM
annizlab.bsky.social
I implemented my own rotation system (inviting candidates as RA first). We ended up taking 2 of the 4 candidates. Yet I was warned to have a too high turn over rate in the lab...
September 7, 2025 at 1:27 AM
annizlab.bsky.social
Advice for interviews💡? Some candidates communicated way better in zoom interviews than in real life... Why?
September 7, 2025 at 1:25 AM
annizlab.bsky.social
3D toys to showcase phage recombination Φ🔀 at the SCELSE open house! @scelse.bsky.social
PS: anyone got good bacteria 🦠 3D models? #Microbiomesky #Microsky #Phagesky
August 31, 2025 at 1:19 AM