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Stephanie Hicks @stephaniehicks.bsky.social · 20d

This was a really fantastic collaboration! Congratulations @mictott.bsky.social Rita Cervera Juanes,
@svitlanabach.bsky.social and all co-authors! 🧪🧬💻🧠

Michael Totty @mictott.bsky.social · 20d

Very excited to share my second postdoc, now out in Science Advances! We used targeted snRNA-seq to profile four major subnuclei of the primate across three species (including humans). 1/13 www.science.org/doi/10.1126/...

Transcriptomic diversity of amygdalar subdivisions across humans and nonhuman primates

Specialized cell types and links to psychiatric disorders are revealed by genetic mapping of primate amygdala neurons.

www.science.org

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Stephanie Hicks @stephaniehicks.bsky.social · 21d

Congratulations to @prashanthi-ravi.bsky.social @svitlana-bach.bsky.social & all co-authors! Wonderful collab btw @alexisbattle.bsky.social and @martinowk.bsky.social @kr-maynard.bsky.social spatially profiling human nucleus accumbens 🧠 #TeamScience 🧪 🧬 🖥️

Thank you #NIH #NIDA for generous funding 👏

Prashanthi Ravichandran @prashanthi-ravi.bsky.social · 22d

(1/10) We’re excited to share our new preprint (doi.org/10.1101/2025...), which uncovers the spatiomolecular landscape of the human nucleus accumbens (NAc), by integrating snRNA-seq with Visium spatial transcriptomics across 10 control donors. 🧠 #NAcLIBD #snRNAseq #10xVisium

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Stephanie Hicks @stephaniehicks.bsky.social · 27d

Thank you for the invitation @sib.swiss! I really enjoyed talking with everyone and I learned a lot over the last few days. I highly recommend this conference to anyone working in Bioinformatics. 🧬🧪💻

SIB Swiss Institute of Bioinformatics @sib.swiss · 28d

Our invited speakers for the parallel session on ‘Computational methods for single-cell and spatial omics’ is @stephaniehicks.bsky.social from Johns Hopkins Bloomberg School of Public Health, USA. Session is chaired by @marianna-raps.bsky.social and @julienroux.bsky.social. #bc2basel‬‬‬‬‬‬‬

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Stephanie Hicks @stephaniehicks.bsky.social · Aug 14

Thank you so much @mikelove.bsky.social!

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Stephanie Hicks @stephaniehicks.bsky.social · Jul 28

Congratulations @kinnaryshah.bsky.social @mictott.bsky.social @svitlanabach.bsky.social & all co-authors! Wonderful collab btw @jhubiostat.bsky.social @jhu.edu and @lieberinstitute.bsky.social spatially profiling human dACC 🧠 #TeamScience 🧪 🧬 🖥️

Thank you #NIDA #NIMH for generous funding & support 👏

Kinnary Shah @kinnaryshah.bsky.social · Jul 24

so excited to share that our preprint characterizing the dorsal anterior cingulate cortex in post-mortem human brain from @lieberinstitute.bsky.social is out! we integrated matched SRT and snRNA-seq data to investigate agranularity and von Economo neurons

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Stephanie Hicks @stephaniehicks.bsky.social · Jul 8

Excited to share a blogpost summarizing challenges, opportunities & reflections from a course @hopkinsengineer.bsky.social co-taught with @alexisbattle.bsky.social (and huge support from Seraj Grimes!) at the intersection of #deeplearning #genetics #genomics 🧪 🧬 💻

stephaniehicks.com/blog/course-...

Translating the face-paced world of research in deep learning and genetics and genomics to the classroom – Stephanie C. Hicks, PhD

stephaniehicks.com

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Reposted by Stephanie Hicks

Will Townes @willtownes.bsky.social · Jul 1

Benchmarking study of single-cell feature selection finds deviance to be an effective criterion: doi.org/10.1093/bib/... . Try it yourself with our ( @kstreet.bsky.social @stephaniehicks.bsky.social @davi1893.bsky.social ) scry package @bioconductor.bsky.social : doi.org/doi:10.18129... #genomics

Characterizing efficient feature selection for single-cell expression analysis

Abstract. Unsupervised feature selection is a critical step for efficient and accurate analysis of single-cell RNA-seq data. Previous benchmarks used two d

doi.org

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Reposted by Stephanie Hicks

Bioconductor @bioconductor.bsky.social · Jul 1

Big thanks to everyone who made #GBCC2025 a fantastic week of science, collaboration, and community!

Highlights for Bioconductor included keynotes, hands-on projects, and great conversations 💻🧬

@galaxyproject.bsky.social @bioconductor.bsky.social

Vince Carey opening GBCC2025 with a slide highlighting Bioconductor’s technical and community advances.

Charlotte Soneson delivering her keynote titled “From classes to community: how Bioconductor has advanced my research.”

Slide showing GBCC2025 sponsors and supporters - CZI, Limagrain, GalaxyWorks, Bristol Myers Squibb, R Consortium, Gigascience, ELIXIR, NHGRI

Large group photo of GBCC2025 attendees outdoors at Cold Spring Harbor Laboratory, smiling and gathered on the steps.

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Stephanie Hicks @stephaniehicks.bsky.social · Jun 6

Very excited to see this important work out led by the talented @mictott.bsky.social @boyiguo.bsky.social @jhubiostat.bsky.social! 🧪🧬🖥️

Michael Totty @mictott.bsky.social · Jun 6

🚨 New paper published in @natmethods.nature.com!

We introduce SpotSweeper, the first spatially-aware QC methods for spatial transcriptomics.

📰 Paper : nature.com/articles/s41...
💻 Code: github.com/MicTott/Spot...
📈 Website: mictott.github.io/SpotSweeper/

🧵👇

SpotSweeper: spatially aware quality control for spatial transcriptomics - Nature Methods

SpotSweeper is a spatially aware method for quality control of spatially resolved transcriptomics data that corrects for spatial confounding missed by existing methods, including both local and region...

nature.com

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Stephanie Hicks @stephaniehicks.bsky.social · Jun 3

Looking forward to visit Icahn School of Medicine at Mount Sinai tomorrow morning. If you are around NYC and are interested in single cell / spatial genomics, the talk starts at 10am. Hope you see you there! 🧪🧬🖥️

events.mountsinaihealth.org/event/geneti...

Genetics and Genomic Sciences External Seminar Series | Stephanie Hicks, MA, PhD

events.mountsinaihealth.org

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Reposted by Stephanie Hicks

Johns Hopkins Dept of Biostatistics @jhubiostat.bsky.social · May 28

Kinnary Shah is a fourth-year PhD candidate and co-president of the Biostats Student Org. Learn more about Kinnary and two of her ongoing research projects, one with the @lieberinstitute.bsky.social, and one with @stephaniehicks.bsky.social, on our website:
publichealth.jhu.edu/departments/...

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Stephanie Hicks @stephaniehicks.bsky.social · May 21

Thank you Amy!

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Stephanie Hicks @stephaniehicks.bsky.social · May 21

New paper out in @genomeresearch.bsky.social on using contrastive self-supervised learning for spatial domain detection with multi-omics data! Huge congratulations to Jianing Yao and coauthors Jinglun Yu, Brian Caffo Stephanie Page & @martinowk.bsky.social! 🧬 🖥️ 🧪

doi.org/10.1101/gr.2...

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Reposted by Stephanie Hicks

Lucia Peixoto @sciencenlucia.bsky.social · May 6

New article is out! Sleep deprivation is bad for the brain transcriptome, but how quickly can a little sleep reverse this effect? A team effort and fun collaboration with @stephaniehicks.bsky.social (a thread) pubmed.ncbi.nlm.nih.gov/40315180/

a cartoon character from the movie monsters inc is asking is it hard to stay awake ? nap time .

ALT: a cartoon character from the movie monsters inc is asking is it hard to stay awake ? nap time .

media.tenor.com

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Reposted by Stephanie Hicks

JHU Malone Center for Engineering in Healthcare @jhumceh.bsky.social · May 8

Congratulations to Malone Center affiliate member @stephaniehicks.bsky.social on this distinction from @amstatnews.bsky.social!

Stephanie Hicks named fellow of the American Statistical Association

Hicks was recognized for her professional contributions, leadership, and commitment to the field of statistics.

malonecenter.jhu.edu

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Reposted by Stephanie Hicks

Mike Schatz @mikeschatz.bsky.social · May 8

. @stephaniehicks.bsky.social giving a master class on spatial genomics analysis - normalization and qc are essential to reveal the underlying biology! #bog25

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Stephanie Hicks @stephaniehicks.bsky.social · Apr 24

I really enjoyed this article: The synaptic hypothesis of schizophrenia version III: a master mechanism! 🧪🧠 #neuroskyence

www.nature.com/articles/s41...

h/t @boyiguo.bsky.social

The synaptic hypothesis of schizophrenia version III: a master mechanism - Molecular Psychiatry

Molecular Psychiatry - The synaptic hypothesis of schizophrenia version III: a master mechanism

www.nature.com

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Reposted by Stephanie Hicks

Johns Hopkins Dept of Biostatistics @jhubiostat.bsky.social · Apr 22

We are thrilled to announce that @dattascientist.bsky.social and @stephaniehicks.bsky.social have been elected Fellows of the American Statistical Association! 🎉 This prestigious honor recognizes outstanding contributions to statistical science. Congrats Abhi & Stephanie! 👏 @amstatnews.bsky.social

2025 ASA Fellows
Congratulations
Abhirup Datta / Stephanie Hicks

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Reposted by Stephanie Hicks

Lucia Peixoto @sciencenlucia.bsky.social · Apr 21

April is #Autism Awareness Month. This is a month to accept, understand and love those in the Autism Spectrum. Above all accepting that someone is different and respecting their differences is the most important thing we can do. Here are some facts to help understand (a thread):

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Stephanie Hicks @stephaniehicks.bsky.social · Apr 11

Rafa has come out swinging this morning 😂

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Stephanie Hicks @stephaniehicks.bsky.social · Apr 11

Always excited to have @rafalab.bsky.social visit Hopkins! He’s talk about statistical challenges in single single and spatial omics. 🧪🧬🖥️

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Stephanie Hicks @stephaniehicks.bsky.social · Mar 31

So this weekend I won the veggie category at @jhubiostat.bsky.social annual Chili Cookoff! Huge congratulations to @statsprofo.bsky.social — winner of the meat category! We have the privilege of wearing these hats for the next year 😂 🌶️ #stats 🧪🧬💻

PS thank you @lizstuart.bsky.social for hosting! 🌸

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Stephanie Hicks @stephaniehicks.bsky.social · Mar 21

Same. Except I have three boys ranging between 8 and 3 years old and they all just talk at the same time to me lol.

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Reposted by Stephanie Hicks

Mike Schatz @mikeschatz.bsky.social · Mar 18

Still processing what this means. www.statnews.com/2025/03/17/t...

Eric Green is out as head of National Human Genome Research Institute

The longtime director of the National Human Genome Research Institute is stepping down, as the larger NIH braces for more changes.

www.statnews.com

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Reposted by Stephanie Hicks

Bioconductor @bioconductor.bsky.social · Mar 5

📝 New Bioconductor Blog Post on CAB and its new co-chair!

@smped.bsky.social introduces themselves and shares insights about the Community Advisory Board (CAB).
Check it out here: buff.ly/EZWEg0A

#Bioconductor #Bioinformatics #RStats #OpenScience

Bioconductor Community Advisory Board – Bioconductor community blog

An introduction to the new Co-Chair

buff.ly

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