Pratik Kumar
@dyechemist.bsky.social
Assitant Professor ncbsbangalore.bsky.social Making dye based molecular tools for imaging, cell biology and proteomics. Previously @hhmijanelia.bsky.social @stonybrooku.bsky.social, IISER-Kolkata, and JNCASR. Lab news: DyeCraftLab.com
I think it's worth a try! But I don't have any data to support how they will behave in the yeast.
February 14, 2025 at 9:17 AM
I think it's worth a try! But I don't have any data to support how they will behave in the yeast.
We hope this idea will pave the way for the generation of many new cell-permeable chemical tools for biology. @rhodamine110.bsky.social @dyerfulchymist.bsky.social
January 28, 2025 at 5:17 AM
We hope this idea will pave the way for the generation of many new cell-permeable chemical tools for biology. @rhodamine110.bsky.social @dyerfulchymist.bsky.social
Even Cooler: When BRD4 was translocated to constitutive heterochromatin, we observed increased transcriptional activity (histone H3.3 accumulation as a proxy). This shows that multifunctional fluorescent ligands can functionally alter chromatin in living cells!
January 28, 2025 at 5:17 AM
Even Cooler: When BRD4 was translocated to constitutive heterochromatin, we observed increased transcriptional activity (histone H3.3 accumulation as a proxy). This shows that multifunctional fluorescent ligands can functionally alter chromatin in living cells!
There’s More! Using the same Si-rhodamine dye, we created JQ1-containing fluorescent ligands to manipulate the localization of BRD4. @so-lets-kilab70.bsky.social showed rapid translocation of BRD4 from euchromatin to HaloTag sites at the nucleolus.
January 28, 2025 at 5:17 AM
There’s More! Using the same Si-rhodamine dye, we created JQ1-containing fluorescent ligands to manipulate the localization of BRD4. @so-lets-kilab70.bsky.social showed rapid translocation of BRD4 from euchromatin to HaloTag sites at the nucleolus.
These live-cell permeable biotins are great for affinity purification. Here, Jason Vevea figured out their in-cell labeling performance and purified mitochondria! This works so much better than the commercial biotin-HaloTag ligand (this doesn't work actually!)
January 28, 2025 at 5:17 AM
These live-cell permeable biotins are great for affinity purification. Here, Jason Vevea figured out their in-cell labeling performance and purified mitochondria! This works so much better than the commercial biotin-HaloTag ligand (this doesn't work actually!)
We could use this to guess apriori cell-impermeable (yellow) and cell-permeable (red and magenta) biotin-containing rhodamine ligands! We used imaging to verify this for HaloTag fusions at the cell surface, mitochondria, ER, and nucleus.
January 28, 2025 at 5:17 AM
We could use this to guess apriori cell-impermeable (yellow) and cell-permeable (red and magenta) biotin-containing rhodamine ligands! We used imaging to verify this for HaloTag fusions at the cell surface, mitochondria, ER, and nucleus.
We discovered that dyes with low lactone–zwitterion equilibrium constants and high distribution coefficients (logD) are great for making cell-permeable multifunctional ligands!
January 28, 2025 at 5:17 AM
We discovered that dyes with low lactone–zwitterion equilibrium constants and high distribution coefficients (logD) are great for making cell-permeable multifunctional ligands!
Self-labeling tags like HaloTag are great for labeling proteins with synthetic molecules. However, creating multifunctional ligands is tricky due to the competing demands of cell permeability vs. functionality.
January 28, 2025 at 5:17 AM
Self-labeling tags like HaloTag are great for labeling proteins with synthetic molecules. However, creating multifunctional ligands is tricky due to the competing demands of cell permeability vs. functionality.
My aim is to integrate chemical tool building as an integral part of @NCBS, Bangalore Life Sciences Cluster and beyond. I am excited to return to India after a decade in the US. The lab will have lots of fun along with doing chemistry in an environment buzzing with excellent biologists!
January 7, 2025 at 7:16 PM
My aim is to integrate chemical tool building as an integral part of @NCBS, Bangalore Life Sciences Cluster and beyond. I am excited to return to India after a decade in the US. The lab will have lots of fun along with doing chemistry in an environment buzzing with excellent biologists!
I will hire at all levels (postdoc, graduate students, JRF, interns). We will train you in chemical synthesis, spectroscopy, biological labelling and fluorescence imaging, among other things. We will strongly emphasize developing soft skills and anything relevant to your career.
January 7, 2025 at 7:16 PM
I will hire at all levels (postdoc, graduate students, JRF, interns). We will train you in chemical synthesis, spectroscopy, biological labelling and fluorescence imaging, among other things. We will strongly emphasize developing soft skills and anything relevant to your career.
We have a few projects in mind with existing collaborators, but I am open to brainstorming. Feel free to email me to discuss ideas or to say hi 😀😀. For more details on what I do, please visit pratik-kumar.com
January 7, 2025 at 7:16 PM
We have a few projects in mind with existing collaborators, but I am open to brainstorming. Feel free to email me to discuss ideas or to say hi 😀😀. For more details on what I do, please visit pratik-kumar.com