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Historic week for #neuroscience🧠! Three #preprints on high-resolution #SingleCell & #Spatial transcriptome cell atlases of the entire adult mouse #brain! Allen Institute #Bioinformatics #Genomics biorxiv.org/content/10.110… biorxiv.org/content/10.110… biorxiv.org/content/10.110…

#MedStudents: #Free Research Course from NIH—Principles & Practice of Clinical Research (IPPCR): includes biostatistical and epidemiologic methods, study design, protocol preparation, patient monitoring, & quality assurance. ocr.od.nih.gov/courses/ippcr.… #InsideTheMatch #MedTwitter

2/ If you are like me, you will not need to develop a reads aligner such as STAR. You will only need to learn how to use those tools. get the reads mapped and get the counts table for DESeq2 for RNAseq. Learn Unix buff.ly/3FITwR1 and RNAseq buff.ly/3mR61mV

Fantastic work from ⁦Prof. Michael Lin⁩ ⁦Stanford Engineering⁩ ⁦Stanford Medicine⁩, chemical approach to imaging drug activity in the brain, excited to see this breakthrough technology ⁦ACS Central Science⁩! pubs.acs.org/doi/10.1021/ac…

🎙 In this episode of the #Epigenetics #Podcast, we caught up with John Rinn from the University of Colorado in Boulder to talk about his work on the role of lncRNAs in gene expression and nuclear organization. bit.ly/3OS46ak #transcriptomics #HumanGenome @noncodarnia

Really pleased to share the detailed protocol for Micro Capture-C in nature protocols. It is capable of generating 3C data down to base pair resolution. jdavieslab Hangpeng Li Joseph Hamley MRC MHU MRC WIMM rdcu.be/c8GWN

Enhancer-promoter contacts – depends how you look at it. Beautiful work by Luciana Gómez Acuña @EliasFriman Ilya Flyamer 💙💛 MRC_HGU Institute of Genetics and Cancer biorxiv.org/content/10.110…

Interested in the fascinating process of fetal trophoblast invasion into the maternal uterus during early pregnancy? Then, check out our mind-blowing work nature & see how we gain insights into the process in human samples using a multiomics approach nature.com/articles/s4158…

Now online at Molecular Cell "Structural elements promote architectural stripe formation and facilitate ultra-long-range gene regulation at a human disease locus". Thanks to reviewers for their feedback and suggestions, and congrats to our fantastic team! tinyurl.com/56ujnstn

1/n Our Region Capture Micro-C (RCMC) preprint by Viraat Goel Miles Huseyin is out today in Nature Genetics at rdcu.be/dbEuM See also MIT News story at news.mit.edu/2023/unprecede… with a nice 2-min video explainer youtube.com/watch?v=oybAJI… More details below:

Our new preprint on a KRAB zinc finger protein that plays an important role in neural development and mammalian evolution. #chromatin #evolution #CTCF We got excited about this factor, Zfp661, because it has a very interesting DNA binding pattern. 1/n biorxiv.org/content/10.110…

Proud to see this beautiful story led by Aashiq out in Development! DOT1L, a deeply conserved histone methyltransferase, orchestrates the histone-to-protamine transition and is required for male fertility. See also the co-published study from Jeremy Wang’s lab Penn Vet!

Happy to share our new paper on the #lncRNA Tuna in Frontiers - Cell Biology. Tuna is conserved in all vertebrates and regulates pluripotency. So what's it doing in the #placenta following exposure to the toxic metal cadmium (Cd)?

A short & sweet review on Direct RNA Sequencing 🧬 Early adopters have unveiled native RNA strands' mysteries. With the improved basecall accuracy and lower RNA input requirements will expedite adoption of Nanopore technologies! #Nanopore #RNAsequencing nature.com/articles/s4159…

Very excited for the first machine learning model from our lab, named 3D-HiChAT developed by Alexander, that enables prediction of 3D complex regulatory relationships, including enhancer hierarchies and 3D hubs that control gene coregulation.

Single cell GRO-seq Shows bursting and kinetics At genes, enhancers #ChromatinHaiku Nate Tippens biorxiv.org/content/10.110…

Wrote an R Markdown template for comprehensive exploratory data analysis (EDA). Just swap the file and render an EDA report for any data (rows & columns). It was written for RTutor.ai, where you can upload a file and get a report in minutes. ge-lab.org/2023/11/03/exp…

📜Our GATA story is finally out in its peer-reviewed format! We even added a double deletion of GATA-responsive enhancers in zygotes to show a direct connection between GATA TFs and Xist. Congratulations to all authors! nature.com/articles/s4155…

🚨New Preprint🚨 In this study, we set out to determine how the de novo DNA methylation program impacts the 3D cis regulatory landscape. Comments welcome! Here's a thread detailing our study's key findings (1/12) biorxiv.org/content/10.110…