Simon Toftholm Jakobsens @SimonToftholm

PhD Fellow in the Siersbæk lab at @GenomicsUnit @NATsdu. Studying transcriptional regulation in cancers. Joined April 2019

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Ming "Tommy" Tang @tangming2005

2 days ago

8 Resources to study Transcription factor binding, enhancers and histone modification distribution 1. ENCODE encodeproject.org

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Ming "Tommy" Tang @tangming2005

3 months ago

1/ You tested 10,000 genes. 500 are significant (p < 0.05). Exciting? Maybe. But if you used raw p-values, you just got played by randomness. Let’s talk FDR.

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Ming "Tommy" Tang @tangming2005

6 months ago

Too many bioinformatics tools, too little time. Stop endlessly bookmarking—just pick one and start analyzing! 🧵👇

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Simon Toftholm Jakobsens @SimonToftholm

10 months ago

Excited to share our new review on MYC in @oncogenejournal!🧬 We propose a model showing how MYC enhancer activity drives context-specific gene programs, distinct from core MYC target genes driven by E-box binding at promoters. Read more: rdcu.be/dYnW0 @RSiersbaek #MYC

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The Thought Emporium 🌻 @EmporiumThought

a year ago

We joke that DMEM is fancy Gatorade.... So how much DMEM can you replace with Gatorade before cells die? Lets find out!

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Angelos Georgakis @angelosgeo

2 years ago

"Biologists and scientists are an angry crowd.", said Nvidia's Jensen Huang at the @RecursionPharma JPM24 event. That's also my experience working with you guys. You're VERY angry, and that's the most beautiful thing about you. I'll explain, but first, here's what Jensen said:…

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Cohesin @Xieeee4

2 years ago

🍺I am so excited that my first paper is online (nature.com/articles/s4159…)! Joint profiling of histone modifications and transcriptome are critical to understand the active or repressive gene regulatory network. We therefore develop Droplet Paired-Tag,

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Niko McCarty. @NikoMcCarty

2 years ago

There have been an incredible number of gene-editing advances (including in delivery) over the last three days. Here are 7 of them...🧵

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antisense. @razoralign

3 years ago

xcore: an R package for inference of gene expression regulators bmcbioinformatics.biomedcentral.com/articles/10.11…

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Simon Toftholm Jakobsens @SimonToftholm

3 years ago

Happy to share the pre-print of my P.hD. work on the transcriptional role of MYC in activating cancer type-specific enhancers! 🥳 biorxiv.org/content/10.110…

Rasmus Siersbæk @RSiersbaek

3 years ago

Happy to share the pre-print of my P.hD. work on the transcriptional role of MYC in activating cancer type-specific enhancers! 🥳 biorxiv.org/content/10.110…

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Fabian Theis @fabian_theis

3 years ago

1/n Single-cell data analysis is complex with many tools to choose from - but which ones work best and should be used when? Led by @LukasHeumos and @AnnaCSchaar, we wrote a free online book that aims to guide single-cell data analysts: sc-best-practices.org

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Xi Chen @XiChenUoM

3 years ago

I somehow missed it when first came out, only got to know this after the revised ver. now. This is wild. Seems like inDrop but in the tube w/o the device. “Regardless the tube size, only two minutes of vortexing is required for cell capture.” - very nice biorxiv.org/content/10.110…

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Simon Toftholm Jakobsens @SimonToftholm

3 years ago

Inspiring and fun week at the #EMBO 20/20 vision of the future of #NuclearReceptor together with the Siersbæk lab!

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antisense. @razoralign

3 years ago

ggcoverage: an R package to visualize and annotate genome coverage for various NGS data biorxiv.org/content/10.110…

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Bernardo Almeida @deAlmeida_BP

3 years ago

What are the rules of enhancer syntax? How flexible/constrained TF motif positions within enhancers are? How does the sequence context modulate the contribution of motifs to enhancer function? Excited to share our work together with @reiterfanny addressing these questions! 1/19

bioRxiv @biorxivpreprint

3 years ago

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Rasmus Siersbæk @RSiersbaek

3 years ago

Today was a fantastic day in the lab as @SimonToftholm defended his PhD thesis @GenomicsUnit @bmbSDU @NATsdu! He was an absolute star😃 amazing job, Simon! Many thanks to @zwartlab @Bo_Porse @Grontved_Group for a great scientific discussion.

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Seppe De Winter @seppe_winter

3 years ago

Happy to announce that SCENIC+ is out! SCENIC+ is a new workflow to infer enhancer-driven gene regulatory networks from scRNA-seq and scATAC-seq data. Great work with @Bravo_Potato at @steinaerts lab! 🧵 1/11 🧵.