In this episode of the Epigenetics Podcast, we caught up with Karol Bomsztyk M.D. and Tom Matula, Ph.D. from the University of Washington and Matchstick Technologies, to talk about their work on DNA and chromatin sonication.
During his career, Karol's research has focused on improving ChIP protocols to make them faster, easier and higher throughput. First, to make ChIP assays faster, Karol and his lab developed "Fast-ChIP". More recently, he adjusted this protocol to improve throughput and "Matrix-ChIP" was born. Tom is an expert in the field of ultrasound and cavitation and the Director of the Center for Industrial and Medical Ultrasound at the University of Washington.
To further improve and speed up the 96-well "Matrix-ChIP" protocol, Karol and Tom teamed up to found Matchstick Technologies and develop a sonication device that would be able to processes each and every well of a 96-well microplate consistently and quickly. The result of this cooperation is the PIXUL Multi-Sample Sonicator that is now available for order from Active Motif.
PIXUL is an ultrasound-based sample preparation platform that was designed completely from the ground up to provide researchers with an easy-to-use tool that is simple to set up, simple to use, and generates consistent results day in and day out. No other sample preparation platform out there can match the power and convenience of PIXUL.
PIXUL was conceived by an epigenetics researcher, and designed and built by ultrasound engineers to take the guesswork out of sample preparation. With PIXUL, sample preparation is no longer an art form, but instead a simple and predictable part of experiments that work every single time.
This interview goes into the mechanism behind sonication-based shearing of DNA and chromatin and highlights how PIXUL is different from existing sonication instruments.
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The Impact of Sequence Variation on Transcription Factor Binding (Sven Heinz)
Comparing CUT&Tag to ENCODE ChIP-Seq in Alzheimer's Disease Samples (Sarah Marzi)
The Role of Hat1p in Chromatin Assembly (Mark Parthun)
The Impact of Paternal Diet on Offspring Metabolism (Upasna Sharma)
H3K36me3, H4K16ac and Cryptic Transcription in Ageing (Weiwei Dang)
Split-Pool Recognition of Interactions by Tag Extension (SPRITE) (Mitch Guttman)
MLL Proteins in Mixed-Lineage Leukemia (Yali Dou)
Sex-biased Imprinting and DNA Regulatory Landscapes During Reprogramming (Sam Buckberry)
BET Proteins and Their Role in Chromosome Folding and Compartmentalization (Kyle Eagen)
Epigenetic Underpinnings of Human Addiction (Francesca Telese & Jessica Zhou)
H3K79 Methylation, DOT1L, and FOXG1 in Neural Development (Tanja Vogel)
Function of Insulators in 3D Genome Folding (Maria Gambetta)
Contribution of the Estrogen Receptor to Breast Cancer Progression (Jason Carroll)
Inheritance of Transcriptional Memory by Mitotic Bookmarking (Sheila Teves)
Differential Methylated Regions in Autism Spectrum Disorders (Janine La Salle)
DNA Damage in Longevity and Ageing (Björn Schumacher)
The Impact of Chromatin Modifiers on Disease Development and Progression (Capucine van Rechem)
Long-Range Transcriptional Control by 3D Chromosome Structure (Luca Giorgetti)
Transgenerational Inheritance and Epigenetic Imprinting in Plants (Mary Gehring)
When is a Peak a Peak? (Claudio Cantù)
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