iiinova — where your digital self keeps evolving

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Epigenome Technologies @epigenometech.bsky.social · 15/01/2026

Epigenetics Update - Interplay between cohesin and RNA polymerase II in regulating chromatin interactions and gene transcription go.nature.com/49iRJkK Albert W. Cheng and Yijun Ruan (Jackson Laboratory) reporting in NSMB #Epigenetics #Chromatin --- Discover the breakthrough at epigenometech.com

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James Davies @jojdavies.bsky.social · 05/11/2025

Our latest paper has just been published in Cell! doi.org/10.1016/j.ce... We developed a new method called MCC ultra, which allows 3D chromatin structure to be visualised with a 1 base pair pixel size.

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Romberg Lab @romberglab.bsky.social · 30/05/2025

🚨New Paper Alert🚨 Now out in @bloodjournal.bsky.social We scoured the ends of the earth for rare human PU.1 variants and subjected 134 of them to suite of functional assessments.

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MIT Press @mitpress.bsky.social · 08/04/2025

We're disappointed to see Ben Barres's powerful book "The Autobiography of a Transgender Scientist" among the ~400 titles removed from the Naval Academy Library. Needless to say, we're proud to have published his book and will keep it — and his memory — alive.

thereader.mitpress.mit.edu

The Coming Out of a Transgender Scientist

"I know that I am making the right decision because whenever I think about changing my gender role, I am flooded with feelings of relief."

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Rohit Thakur @rohit-thakur.bsky.social · 06/12/2024

Our recent preprint about using a custom chromatin capture assay, to identify potential target genes for cancer risk variants. For several variants, the target gene for cis regulation was ~ +/- 1Mb away, and we experimentally confirmed this for multiple targets. www.medrxiv.org/content/10.1...

medrxiv.org

Mapping chromatin interactions at melanoma susceptibility loci and cell-type specific dataset integration uncovers distant gene targets of cis-regulation

Genome-wide association studies (GWAS) of melanoma risk have identified 68 independent signals at 54 loci. For most loci, specific functional variants and their respective target genes remain to be es...

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@PhysGenCenter @physgencenter.bsky.social · 28/01/2025

This Friday! Job Dekker, PhD presents the Monthly Seminar on Physical Genomics: Mechanisms of Chromosome Folding January 31, 2025 - Live on Zoom @ 12pm CT - Registration is free at tinyurl.com/5n6ep25m #chromatin #genomics #northwestern #research #dna #umass #biophysics #epigenetics #biology

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Anders Sejr Hansen @andersshansen.bsky.social · 16/01/2025

Excited to share James Jusuf's preprint: By integrating Micro-C with SuperRes Live-Imaging we can calibrate genomics&imaging to perform absolute quantification of looping (e.g. this loop is present 3%) We quantify mESC 36k loops: <loops> are generally rare (2.3%) www.biorxiv.org/content/10.1...

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Sarah Brotman @sarahbrotman.bsky.social · 07/01/2025

I’m excited to share that this manuscript is now published in Nature Genetics! 🧪🧬 🖥️ www.nature.com/articles/s41... The AdipoExpress data can be accessed here: zenodo.org/records/1384... An interactive browser of the colocalization results can be accessed here: adipose.colocus.app

nature.com

Adipose tissue eQTL meta-analysis highlights the contribution of allelic heterogeneity to gene expression regulation and cardiometabolic traits - Nature Genetics

This study introduces AdipoExpress, an eQTL meta-analysis of 2,344 subcutaneous adipose tissue samples, which triples the size of previous studies and expands the discovery of eQTLs colocalized with G...

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Jwst Feed @jwstfeed.bsky.social · 11/12/2024

Clean image of galaxy cluster MACS J1423, where the Firefly Sparkle galaxy is located. 🔭 🧪

Thousands of overlapping objects at various distances are spread across this field, including galaxies in a massive galaxy cluster, and distorted background galaxies behind the galaxy cluster. The background of space is black.

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Fabian Theis @fabiantheis.bsky.social · 11/12/2024

scRNA-seq data sets exploding in number and size - check out scanpy & anndata for >1b cells: new experimental update includes APIs for scaling with dask from anndata, integrated with lots of scanpy and rapids-singlecell functions. gist.github.com/ilan-gold/98...

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Jonathan Pritchard @jkpritch.bsky.social · 11/12/2024

Beautiful work led by Maya Arce from Marson lab reveals a fascinating story about rewiring of a critical gene regulatory circuit in different T cell types: T effectors and Tregs www.nature.com/articles/s41...

nature.com

Central control of dynamic gene circuits governs T cell rest and activation - Nature

Resting and activated T cell states are established by context-specific regulators and dynamic gene circuits.

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James Zou @jameszou.bsky.social · 02/12/2024

If you use SHAP, LIME or Data Shapley, you might be interested in our new #neurips2024 paper. We introduce stochastic amortization to speed up feature + data attribution by 10x-100x 🚀 #XML Surprisingly we can "learn to attribute" cheaply from noisy explanations! arxiv.org/abs/2401.15866

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