Jeff Hansen and Siqi Zhao both successfully defended their thesis this month!
Jeff’s thesis is titled “A Test of the Pioneer Factor Hypothesis for Silencer Gene Activation”. You can view a recording of his defense here. Note that the first ~5 minutes (Barak’s introduction) do not have audio because Zoom was on mute. Jeff is an MSTP student in the CSB program and will be returning to medical school.
Siqi’s thesis is titled “Single Cell Massively Parallel Reporter Assays”. You can view a recording of his defense here. Siqi was a PhD student in the CSB program and will be starting a job at Ginkgo Bioworks in Boston.
We gathered with our families at Barak’s house to wish Jeff and Siqi well as they depart the lab. A great time was had by all! We will miss both Jeff and Siqi’s presence in the lab and wish them well in all their future endeavors.
Ryan, Max, Clarice and Jeff all had papers published recently! You can find the links to the papers in the Publications section.
Here’s a cool illustration that describes Clarice’s work:
Here’s another cool illustration that describes Jeff’s work:
Can you spot the molecular players in these?
No leaves get exact twins
Flow never sees the same drops
Careful! Details kill.
Credit – Yawei Wu
There once were some yeast from afar
That simply would not PCR
Boiling, freezing were no use
So they got ground up and juiced
And now show their genetic scars
Credit – Kai Loell
It hides in black and dark genomic space
Though with enhancers it must intervene
And once called junk by many in old days
It found fame in the chicken globin gene.
The saw cHS4 had magic game
The researchers who found it thus cried out
O insulator thou art not the same
Now with you loops will never be in doubt.
But then one day a graduate student thought
I wonder how you’ll fare in landing pads
Alas her efforts always came to naught
Much time was wasted chasing it in labs.
But stay, be patient, one day you will see
It will be fucking understood by me.
Credit – Clarice Hong
Will you please make more cells green,
Wonder what I’ll find.
Credit – Avinash Ramu
Swapping out k-mers
Elements become too active
Small changes puzzle me
Credit – Mike White
See Spot run
See Spot scan
See Spot wait for exposing sites
See Spot bind
See Spot take
See Spot outcompete nucleosomes
See Spot spread
See Spot’s friends
See Spot create accessibility
See Spot wave
See Spot call
See Spot recruit transcriptional machinery
See Spot smile
See Spot cheer
See Spot reprogram to a happy lineage
Is Spot weird?
Is Spot cool?
No, Spot is just like all of the other transcription factors!
Credit – Jeff Hansen
Cell walls don’t crumble
DNA’s nowhere to see
Will Fluors light the way?
Credit – Kai Loell