single-cell bioinformatics lab focusing on the immune system! PI: @natstann /in {@unccs,@compmedunc}.
Joined February 2021
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9 Photos and videos
Pinned Tweet
27 Jul 2022
Dealing with too many cells across multi-sample single-cell data? We developed a sketching approach based on Kernel Herding to downsample data, specifically optimized to maintain frequencies across all cell-types. Code: github.com/CompCy-lab/Sketchβ¦. Give it a try! β¨ @JoleneRanek
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30 Apr 2024
Congratulations to Sneha for presenting her poster at the celebration for undergraduate research yesterday!
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CompCy Lab @ UNC retweeted
18 Mar 2024
Exciting week! π Next Monday, Sneha will defend her honors thesis 'Deciphering the Microglia Transcriptome: Unraveling the Consequences of Early Life Stress and Aging'. Next Tuesday Haidong will defend his PhD 'Set-based modeling and applications in single-cell bioinformatics'.
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CompCy Lab @ UNC retweeted
16 Feb 2024
Our πͺSATURN method is now out in @naturemethods!
SATURN paves the way for universal cell embeddings, enabling integration of datasets across different species πππ§ππΈ Using protein language models, we encode biological meaning of genes in scRNA-seq datasets.
16 Feb 2024
SATURN performs cross-species integration and analysis using both single-cell gene expression and protein representations generated by protein language models. @jure @YanayRosen @mariabrbic @yusufroohani
nature.com/articles/s41592-0β¦
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8 Nov 2023
Congratulations to our two amazing rotons Luvna and Yu-Chen for great rotations and for getting the neuroimmune and microglia projects going in the lab! π§
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29 Sep 2023
Congratulations @alecplot for winning a best poster award at data science day for work predicting CD8 T-cell fates with @JJMilnerLab :) Truthfully, this a picture from last week, but is the same poster. Great job Alec.
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CompCy Lab @ UNC retweeted
15 May 2023
Super excited to introduce DELVE (github.com/jranek/delve), an unsupervised feature selection method for improving inference of developmental or disease trajectories from noisy single-cell data: biorxiv.org/content/10.1101/β¦ π(1/8)
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13 Sep 2022
Cytocoarsening was accepted at #PSB23. Congratulations Chi-Jane and Emma. Importantly, we are going to Hawaii π :) biorxiv.org/content/10.1101/β¦
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CompCy Lab @ UNC retweeted
5 Sep 2022
Have you ever wondered if you could leverage RNA velocity data to better resolve biological trajectories or disease phenotypes?
Delighted to share that our benchmarking study is out today in @GenomeBiology! Biggest thank you to @natstann @purvislab π
genomebiology.biomedcentral.β¦
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CompCy Lab @ UNC retweeted
5 Sep 2022
Very proud of @JoleneRanek as her task oriented benchmarking study for integrating RNA velocity and gene expression for trajectory inference and outcome prediction is out today in Genome Biology! genomebiology.biomedcentral.β¦ . π₯³
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7 Aug 2022
.@haidyi1 and @JoleneRanek are in Chicago @acm_bcb to present their new papers! ππ
CytoEMD presented by @haidyi1 : dl.acm.org/doi/10.1145/35355β¦
Distribution-preserving sketching presented by @JoleneRanek : dl.acm.org/doi/10.1145/35355β¦
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2 Aug 2022
Congratulations to Chi-Jane who led our new paper on graph coarsening approaches for single-cell data. We show that by shrinking the graph in a principled way, you can achieve similar performance in downstream bioinf tasks as if using the full graph. biorxiv.org/content/10.1101/β¦
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CompCy Lab @ UNC retweeted
5 Jul 2022
Excited to share our new paper (to appear soon in ACM BCB!) about sketching single-cell data. π Specifically, our sketches preserve cell population frequencies and of course rare populations ;), led by Vishal and @JoleneRanek arxiv.org/abs/2207.00584
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1 Jun 2022
Most recent lab photo a few weeks ago π so lucky to work with the best students! π₯°
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CompCy Lab @ UNC retweeted
4 Mar 2022
The influx of single-cell data is staggeringβnot just in volume but in its multiple modalities. How can we optimally combine these modalities to make biologically meaningful predictions? (1/7)
biorxiv.org/content/10.1101/β¦
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20 Jan 2022
Happy to share our new work in collaboration with Junier Oliva and lead by Siyuan Shan on encoding and featurizing cellular landscapes with random Fourier features and kernel mean embeddings! β¨
arxiv.org/abs/2201.07322
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24 Dec 2021
Happy Holidays to all! Grateful for support from students, collaborators, colleagues and mentors in our first 11 months. :) Wishing you lots of CyTOF in 2022.
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25 Nov 2021
Happy thanksgiving! π₯π₯ thankful for students and collaborators, and CyTOF π
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29 Oct 2021
Today is the last day of @alecplot βa rotation with us and @JJMilnerLab . He did a great job and is on the way to becoming both an expert of T-cells and graphs. What a great combo of content π§«π¨βπ» :) thanks for joining us Alec!
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28 Sep 2021
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28 Sep 2021
Been having a great time in my first rotation! Working on CD8 memory T-cell trajectories during infection, using graph alignment of scRNAseq data. Feels like I have already learned so much
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