@KVBortle

Asst. Professor @CDB_Illinois and @MCB_Illinois interested in Pol III transcription, ncRNA, cancer biology and genomics. Previously Stanford | Emory | Rochester

 Urbana, IL
vanbortlelab.com
Joined April 2015
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  • Followers385
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Check out our latest work on Pol III @MolecularCell! We explore genomic “breadcrumbs” of Pol III activity at protein-coding genes🤯Congrats Rajendra K C and to co-authors Ruiying, Sihang, and Simon @MCB_Illinois and Duncan Smith @NYUBiology authors.elsevier.com/a/1jvax…
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Jason Buenrostro@JD_BuenrostroMar 26
It’s well known that inflammation increases cancer risk, but how? The answer: the epigenome "remembers" inflammation and primes stem cells for cancer. Here is our paper: nature.com/articles/s41586-0… And a special shoutout to the lead author @snaga13 A 🧵

Epigenetic memory of colitis promotes tumour growth

Nature - Colonic stem cells retain a memory of inflammation following disease resolution and there is a mechanistic link between chronic inflammation and malignancy, suggesting potential strategies...

nature.com
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Jessica Tucker@JessTucker2024 Jun 2025
journals.asm.org/doi/10.1128… First big Tucker lab paper! Everyone in the lab made an appearance on the author list:) So proud and grateful for our collaborators and to the editors/reviewers for helping us improve the manuscript.

Gammaherpesvirus infection triggers the formation of tRNA fragments from premature tRNAs | mBio

Diverse conditions of infection and cellular stress incite the cleavage of transfer RNAs (tRNAs), leading to the formation of tRNA fragments (tRFs) that can directly regulate gene expression. In our...

journals.asm.org
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My lab has been working for the past 15 years to develop a method to isolate specific genomic loci to identify its chromatin composition & protein interactome. Finally,… our superb physician/scientist Dr. Bercin Cenik @bkcenik did it and here it is cell.com/molecular-cell/full… Not only was she able to develop this method, which she calls TurboCAS, she was able to identify known & novel regulators of heat shock & Myc expression. Cannot wait to see what Bercin and TurboCAS will discover about the molecular basis of transcriptional regulation with great impact on clinic in the next few years! @NU_BMG_SQE @NUFeinbergMed @MolecularCell
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CarpenterLab@LabCarpenter5 Dec 2024
We are excited to complete another Crispri screen targeting LncRNAs in monocytes. This time we are focusing on LncRNAs involved in promoting cell growth biorxiv.org/content/10.1101/…

CRISPRi Screen Uncovers lncRNA Regulators of Human Monocyte Growth

Long noncoding RNAs are emerging as critical regulators of biological processes. While there are over 20,000 lncRNAs annotated in the human genome we do not know the function for the majority. Here...

biorxiv.org
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🎉Excited to share our new preprint on Biorxiv 🥳 We uncover how RNA Polymerase III (Pol3) dynamically regulates tRNA transcription during heat shock (HS) stress! So what did we find? 🧵 biorxiv.org/content/10.1101/…

Dynamic regulation of RNA Polymerase III transcription in mouse embryonic stem cells during heat...

Cells respond to many different types of stresses by overhauling gene expression patterns, both at the transcriptional and translational level. Under heat stress, global transcription and translation...

biorxiv.org
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Molecular Cell@MolecularCell25 Nov 2024
A major step forward toward high-resolution nanopore sequencing of full-length proteins dlvr.it/TGNNDD
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Joshua Mendell@Mendell_lab21 Nov 2024
I’m thrilled to share this story from @Mendell_lab and Jan Erzberger labs, led by postdoc extraordinaire Xiaoqiang Zhu! We showed that in addition to their canonical decoding function, tRNAs play a key role in regulating mRNA stability during translation. science.org/doi/10.1126/scie…

Specific tRNAs promote mRNA decay by recruiting the CCR4-NOT complex to translating ribosomes

The CCR4-NOT complex is a major regulator of eukaryotic messenger RNA (mRNA) stability. Slow decoding during translation promotes association of CCR4-NOT with ribosomes, accelerating mRNA degradati...

science.org
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Babak Javid@javid_lab20 Nov 2024
Being able to measure and quantify this in a facile way has been a holy grail of the tRNA/mol biol field...let's hope this method is easy to adopt.. Nanopore sequencing of intact aminoacylated tRNAs biorxiv.org/content/10.1101/…

Nanopore sequencing of intact aminoacylated tRNAs

Transfer RNAs (tRNA) are decorated during biogenesis with a variety of modifications that modulate their stability, aminoacylation, and decoding potential during translation. The complex landscape of...

biorxiv.org
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🚨🚨🚨 Thrilled to share our newest study — identifying functional long noncoding RNAs using transcriptome-scale RNA-targeting CRISPR screens. 🔎🔎🔎 We hope this scalable approach will be helpful for folks who want to connect noncoding RNAs to phenotypes & diseases.
Cell@CellCellPress11 Nov 2024
Now online! Transcriptome-scale RNA-targeting CRISPR screens reveal essential lncRNAs in human cells dlvr.it/TG6t4q

RETRACTED: Transcriptome-scale RNA-targeting CRISPR screens reveal essential lncRNAs in human cells

This article has been retracted: please see Elsevier policy on Article Withdrawal (https://www.elsevier.com/about/policies-and-standards/article-withdrawal).This article has been retracted at the...

cell.com
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Ildar Gainetdinov@IGainetdinov3 Nov 2024
Excited to share our unexpected finding: piRNA pathway designed to protect the genome from invading nucleic acids created a population of selfish small RNAs that have perpetuated themselves for the past hundred million years of mammalian evolution. biorxiv.org/content/10.1101/…

Mouse Pachytene piRNAs Cleave Hundreds of Transcripts, But Alter the Steady-State Abundance of Only...

In animals, 18–35-nt piRNAs guide PIWI proteins to regulate complementary RNAs. During male meiosis, mammals produce an exceptionally abundant class of piRNAs called pachytene piRNAs. Pachytene...

biorxiv.org
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Deadline to apply is this Thursday! #microbiology #microbiologyjobs #academictwitter #academicjobs
U of I School of Molecular and Cellular Biology@MCB_Illinois11 Sep 2024
Please share! We are seeking applicants for two full-time, tenure-track faculty positions in microbiology. More info & how to apply: go.mcb.illinois.edu/microfac… Deadline: Oct. 31, 2024 #microbiology #microbiologyfaculty #academicjobs #higheredjobs
Block I and graphic of virus, with text the School of Molecular & Cellular Biology is hiring.

ALT Block I and graphic of virus, with text the School of Molecular & Cellular Biology is hiring.

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Nowhere else we’d rather be.
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Andrew Belmont@belmont_andrew29 Sep 2024
Genome-wide analyses correlate nuclear speckle proximity with gene expression. We share our minireview discussing possible functional relationships between nuclear speckles and gene expression in both health and disease: authors.elsevier.com/sd/arti…
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Our single-cell, pan-cancer analysis of open chromatin in human cancers, done in collaboration with TCGA and the Chang and Corces labs (among others including Illumina), is out in Science today. Congrats to Laksshman Sundaram and all authors! science.org/doi/10.1126/scie…

Single-cell chromatin accessibility reveals malignant regulatory programs in primary human cancers

To identify cancer-associated gene regulatory changes, we generated single-cell chromatin accessibility landscapes across eight tumor types as part of The Cancer Genome Atlas. Tumor chromatin...

science.org
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Prof. Nikolai Slavov
@slavov_n27 Aug 2024
We first saw evidence for this ~ 2019. We were super surprised & skeptical. After 5 years of quintuple cross-validation, we feel confident to share with the world.
Slavov Laboratory@slavovLab27 Aug 2024
We report many proteins not predicted by the genetic code. They are stable & abundant O( 10³ ) copies / cell. Generative mechanisms include codon-anticodon mismatches & RNA modifications. Their abundance depends on codon frequency & protein stability. biorxiv.org/content/10.1101/…

Alternate RNA decoding results in stable and abundant proteins in mammals

Amino acid substitutions may substantially alter protein stability and function, but the con-tribution of substitutions arising from alternate translation (deviations from the genetic code) is...

biorxiv.org
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Sushant Bangru@sushantbangru10 Jul 2024
Glad to see this story out! It has been a long road since I started working on this in 2016 but I think we have uncovered an interesting post-transcriptional mechanism regulating polyploidy in the liver. Thanks for the opportunity and support @KalsotraLab @MCB_Illinois!
Kalsotra Lab@KalsotraLab10 Jul 2024
Delighted to share our latest @biorxivpreprint defining an unexpected role of ESRP2 in the postnatal polyploidization of the mammalian liver! Led by former grad student @sushantbangru with help from @UllasChembazhi @DasDiptatanu @_WaqarArif! biorxiv.org/content/10.1101/… #RNAbiology
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We're seeking talented postdocs from diverse backgrounds to present their research and engage with our community as part of the Rising Stars in Cell and Developmental Biology Symposium in early Fall 2024. DEADLINE EXTENDED TO JUNE 15! go.mcb.illinois.edu/risingst…
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Jordan Rowley@MJordanRowley12 Feb 2024
Check out our new tool: HiCrayon! It's a simple but powerful way of visualizing the overlap between 2D contact maps from Hi-C, Micro-C, etc. and 1D genomics data, such as ChIP-seq and compartment annotations. On BioRxiv and GitHub. biorxiv.org/content/10.1101/… github.com/JRowleyLab/HiCray…

HiCrayon reveals distinct layers of multi-state 3D chromatin organization

The co-visualization of chromatin conformation with 1D ‘omics data is key to the multi-omics driven data analysis of 3D genome organization. Chromatin contact maps are often shown as 2D heatmaps and...

biorxiv.org
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The #UIUC Dept of Microbiology is hiring a faculty member in virology! Apply by 10/16: go.mcb.illinois.edu/prof_vir… Please RT & share with your networks! @ASMicrobiology @NatureMicrobiol @BlackInMicro
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