Show me your neighbors and I'll tell you who you are - the single cell transcriptomics edition. Statistician, postdoc @broadinstitute, @MIA_at_Broad, @TheHDSR
Joined September 2020
- Tweets 39
- Following 592
- Followers 269
- Likes 325
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Aleks Goeva retweeted
29 Jan 2024
We can often reconstruct a certain layer of information from single-cell data, like their spatial configuration or trajectory, but what can we learn when we peel that layer off? What else is encoded? SiFT is out @NatureComms, Led by @zoe_piran
nature.com/articles/s41467-0…
@HebrewU
29 Jan 2024
Interested in uncovering biological processes in single-cell data? Check out SiFT, featured in @NatureComms. SiFT peels off layers of known variability and allows studying previously unexplored bio signals. Try it yourself: sift-sc.readthedocs.io. w/ @mor_nitzan
Artwork: Reo F.
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Aleks Goeva retweeted
29 Jan 2024
Interested in uncovering biological processes in single-cell data? Check out SiFT, featured in @NatureComms. SiFT peels off layers of known variability and allows studying previously unexplored bio signals. Try it yourself: sift-sc.readthedocs.io. w/ @mor_nitzan
Artwork: Reo F.
26 Jan 2024
Cells simultaneously encode multiple signals, some overshadowed. @mor_nitzan @zoe_piran introduce SiFT (Signal FilTering), a kernel-based projection method, revealing underlying biological processes in single-cell data. @NatureComms #BiotechNatureComms
nature.com/articles/s41467-0…
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Aleks Goeva retweeted
15 Jan 2024
Consider submitting your work to the Machine Learning for Genomics Explorations (MLGenX) workshop at @iclr_conf ! Join us to unite the worlds of #MachineLearning & #Genomics 🧬
⏰Submission deadline: February 4, 2024 (AOE).
7 Jan 2024
📢🚨 Excited to announce the Machine Learning for Genomics Explorations (MLGenX) workshop at @iclr_conf 2024.
⏰ Submission deadline: February 4, 2024 (AOE).
🔗 Call for papers: mlgenx.github.io
🗓️ Date: May 11, 2024.
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Aleks Goeva retweeted
MIA Spring ‘23 Speaker Series
⏰ April 5, 9AM EST
💬 Lucy Colwell, Benjamin Sanchez-Lengeling @beangoben
💡Primer: Intro to machine learning for molecules
💡Seminar: ML to predict protein function from sequence ...
📬 Join our mailing list to get the talk link!
#BroadMIA
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Aleks Goeva retweeted
Join my group at Genentech and follow your passion for single-cell tumor dynamics!
Both experimental and computational positions available.
Apply below:
Cancer Single-Cell Genomics: lnkd.in/eR2eCqPd
Computational Biology: lnkd.in/e7TeHsXg
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15 Nov 2022
So excited for @oana__ursu and @_bunnech’s talks this Wednesday at #BroadMIA! Tune in at 9AM EST to learn about computational approaches to study single-cell state transitions and responses to perturbation!
📢 Nov 16
⏰ 9AM EST
💬 Oana Ursu @oana__ursu
💡 Primer: Analytical challenges and opportunities for studying cell state transitions at single cell level
⏰ 10AM EST
💬 Charlotte Bunne @_bunnech
💡 Neural Optimal Transport for Inferring Single-Cell Responses to Perturbations
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27 Sep 2022
The submission deadline for @lmrl_bio at #NeurIPS2022 is this Friday, Sept 30th! Submit your 1 to 4-page abstract at openreview.net/group?id=Neur…! More info lmrl.org/. RT appreciated!
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27 Sep 2022
Organizing committee: @adjiboussodieng @AleksGoeva @anshulkundaje @chang_c_liu @deboramarks @eboyden3 @EliWeinstein6 @lizbwood @lorin_crawford @mor_nitzan @RBoiarsky @_romain_lopez_ @thouis @stephenrra @ta_broderick @WouterBoomsmaDK @yixinwang_
Aleks Goeva retweeted
21 Sep 2022
Looking forward to my @MIA_at_Broad talk tomorrow, and honoured to be featured alongside @drklly . Thanks for hosting, @AleksGoeva !
📢 MIA Fall ‘22 Speaker Series
⏰ Sept 21, 9AM EST
💬 David Kelley @drklly
💡 Primer: Gene expression prediction from DNA sequences
⏰ Sept 21, 10AM EST
💬 Carl de Boer @CarldeBoerPhD
💡 Using deep learning regulatory models and random DNA for evolutionary inference
#BroadMIA
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19 Sep 2022
So excited for this Wednesday’s #BroadMIA when @drklly and @CarldeBoerPhD will tells us what’s new in using #DeepLearning to understand #GeneRegulation!
📢 MIA Fall ‘22 Speaker Series
⏰ Sept 21, 9AM EST
💬 David Kelley @drklly
💡 Primer: Gene expression prediction from DNA sequences
⏰ Sept 21, 10AM EST
💬 Carl de Boer @CarldeBoerPhD
💡 Using deep learning regulatory models and random DNA for evolutionary inference
#BroadMIA
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Aleks Goeva retweeted
18 Sep 2022
Just one among many reasons @lmrl_bio is proudly virtual at @NeurIPSConf this year. Submit your abstract by Sep 30, 2022: lmrl.org/submit
17 Sep 2022
I made an accessibility map of #Neurips2022. The country is marked in red if its resident can not get appointment in time from getting accepted to the conference (76 days).
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Aleks Goeva retweeted
17 Sep 2022
Science is unbearable if you hold off on celebrating until the publication of a big paper. The more we enjoy the process, the happier we are..
Celebrate the interesting group meeting, the preparation of a new presentation, the new technique, & the progress our friends are making.
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14 Sep 2022
Tune in this morning for Martin Jankowiak’s #BroadMIA talks on Bayesian Variable Selection with exciting #biology applications! Starting in 10 min!
📢 MIA Fall ‘22 Speaker Series
⏰ Sept 14, 9AM EST
💬 Martin Jankowiak
💡Primer: An Introduction to Bayesian Variable Selection
💡Seminar: Applications of Bayesian Variable Selection to Bioinformatics
📬 Join our mailing list to get the talk link!
#BroadMIA
13 Sep 2022
Get ready for the Fall #BroadMIA lineup of #pedagogical #CuttingEdge talks at the interface of #MachineLearning and #biology 👩🔬🧬💻🧫👩💻
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Aleks Goeva retweeted
13 Sep 2021
New from @TheHDSR Early Career Board: @AleksGoeva, @atrisovic, @mission_science, & I made a zine about @JessicaHullman and @StatModeling's paper "Designing for interactive exploratory data analysis requires theory of graphical inference" Thanks @sarahmirk for the zine tutorial!
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Aleks Goeva retweeted
2 Sep 2021
A Gentle Introduction to Graph Neural Networks by @beangoben, @emilyrreif, @adamrpearce, and Alex Wiltschko.
distill.pub/2021/gnn-intro/
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Aleks Goeva retweeted
4 Jul 2021
Csiszar f-divergences (KL, TV, Hellinger, Chi2, etc) are all closely related and define similar topologies. Wasserstein distance in contrast requires upper/lower bounds on the spacing between the points. Nice review by Gibbs and Su. en.wikipedia.org/wiki/F-dive… math.hmc.edu/~su/papers.dir/…
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Aleks Goeva retweeted
2 Jul 2021
Finally, we added new example datasets! You can access SeqFISH, MERFISH, Slide-seqV2, Visium, Mibi-tof, 4i, IMC datasets through the Squidpy API to try out all the new functions!
squidpy.readthedocs.io/en/st…
Thanks to @macosko @AleksGoeva for providing pre-processed Slide-seqV2 data!
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Aleks Goeva retweeted
16 Jun 2021
We worked for years to profile human dopamine neurons at scale; @abdul_squared cracked it. @tkam80 revealed the full diversity of DA neurons in the substantia nigra, and their relative vulnerabilities to degeneration in Parkinson's disease.
biorxiv.org/content/10.1101/…
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Aleks Goeva retweeted
9 Jun 2021
The Early Career Board of @TheHDSR is a most creative board I have ever worked with. My last invitation to @AleksGoeva : “Feel free to be innovative re the format, and surprise me! :-)”. They did, in a delicious way! Wondering what’s cooking next…(no pressure, Aleks & all :-))
8 Jun 2021
After taking @UCBerkeley's Data8: The Foundations of #DataScience, what connector courses do you dream of taking? Sip your favorite beverage and enjoy the recipes @sastoudt , @atrisovic, Peyton Jones, and I compiled for @TheHDSR hdsr.mitpress.mit.edu/pub/4i…
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