allardlab

Mathematical and computational biology lab for studying cell and molecular mechanics at UC Irvine. Account run by Jun & grad students.

[allardlab @allardlab]

Now in print at Biophysical Journal @BiophysJ @bryochemist! https://t.co/W0zig5z7ak

[allardlab @allardlab]

Many reactions in cells are tethered, often by #IDR. If 2 tethers are tied together (imagine handcuffed arms ⛓️‍), does this enhance or suppress their reactions? Formin, one of the major #cytoskeleton builders in eukaryotes, does exactly this.

[allardlab @allardlab]

Brady's work is published this week in Biophysical Journal! Mathematical link between cell mechanics and percolation theory
https://t.co/k6DoSp50rp

[allardlab @allardlab]

Review article with Omer Dushek @Dushek on tethered signaling proteins, out now! Tethered bio-molecular reactions can do at least 7 cool things that freely-diffusing reactions do not. Read more here! #IDR #TCells #cytoskeleton

https://t.co/LCJhf3Bx46

[allardlab @allardlab]

Many reactions in cells are tethered, often by #IDR. If 2 tethers are tied together (imagine handcuffed arms ⛓️‍), does this enhance or suppress their reactions? Formin, one of the major #cytoskeleton builders in eukaryotes, does exactly this.

[allardlab @allardlab]

Katie Bogue's new preprint with Margot Quinlan and Bryan Christian, out now!

https://t.co/FWcujufs9A

[allardlab @allardlab]

A remarkably simple question, "What is the likelihood landscape for the basic bursting transcription model?", reveals surprisingly complex underlying structure, with implications for the limits of what single-cell data can tell you.

[allardlab @allardlab]

Very excited to be involved in this new work led by Junhao Gu and Elizabeth Read, out this week in Bioinformatics. Collaboration with @timothy_lamont, @ChrisEMiles and others!

https://t.co/ZW0pPpj16o

[allardlab @allardlab]

We can make the flexibility of a model match the hypothesis being tested -- more flexibility is not always better, if it prohibits rejection of the hypothesis. Here is one simple case involving T cells where it made a difference!
https://t.co/NDVtpdTLa2

[allardlab @allardlab]

Our paper with with @timothy_lamont and @ASpakowitz is out in Nucleic Acids Research! https://t.co/oDBPplmvd7

[allardlab @allardlab]

Brady's preprint on astral cytoskeletal structures is on biorxiv! A surprising connection between percolation and asters, and another example where an optimal choice aligns with the cell! https://t.co/dLYQxRJbqc

[allardlab @allardlab]

Polymer mechanics modeling, ATACseq, EM, 4C-seq working together to explain 3d genome organization. The most surprising thing to me is the continuing high predictive power of models fairly few, fairly simple biophysical factors.

[allardlab @allardlab]

Jack's preprint with @timothy_lamont and @ASpakowitz is out on biorxiv! https://t.co/ar08LUBVBv

[allardlab @allardlab]

Small changes in nucleosome placement -- even at approximately the same average frequency, even ~100kbp from the loci -- can drive contacts between TF binding motifs and gene promoters.

[allardlab @allardlab]

Group dinner, including our colleague Jin Yu, some alumni, and two years' worth of amazing @UCI_CMCF high school researchers!

[allardlab @allardlab]

We generate a song for every group meeting now.

[Omer Dushek @Dushek]

We are very pleased to announce that our colleagues @allardlab have kindly produced a fantastic summary of our EMBO Journal manuscript in the form of AI-generated Korean Pop!

@embojournal

https://t.co/dtos8OF4AY

[Omer Dushek @Dushek]

We are very pleased to announce that our colleagues @allardlab have kindly produced a fantastic summary of our EMBO Journal manuscript in the form of AI-generated Korean Pop!

@embojournal

https://t.co/dtos8OF4AY

[allardlab @allardlab]

Lab dinner

[Debanjan Mukherjee @debanjanmukh]

Attention biomechanics & mechanobiology folks! We are super-excited to announce that we will be hosting the next MechBio Symposium @CUBoulder @BioFrontiers on April 6-7, 2024! Please visit https://t.co/h3IODExdka, save the date, and fill a short information form. RT+amplify 1/N

[Michelle Digman @michelledigman]

UCI crew

[allardlab @allardlab]

Allard Lab at #BPS2023 !