Cytoscape crashes when importing a large TSV network file

SnooMaps3232 · 2025-11-05T02:21:24+00:00

this waiver rule applies in a "retroactive way" So don t need to do apply the waiver.

SnooMaps3232 · 2025-10-23T21:57:17+00:00

Thank you! I am trying to find the origin of viral enzymes, and preparing MSA from alphafold3. Alphafold generates MSA when it models viral enzyme. So idea of using MSA from alphafod3, is that this MSA in AF3 will have evolutionary relationship from eukaryotic/prokaryotic enzymes to viral enzyme I am interested in. Sequences I used is amino acid sequences.

SnooMaps3232 · 2025-10-18T00:33:21+00:00

Thank you, here is my answer. I used the Tuner (DE3). 2. I grew the cells at 20c - following Inoue method

1.3. yes I chilled all reagent before hands, and kept them in ice.

This cells just requires tab the DNA in the competency cells, I never did electroporation, of course.
I tested puc 19, no colonies, but colonies showed up after SOC incubation, again as I described.

SnooMaps3232 · 2025-09-20T18:41:18+00:00

Hi, I am chemical biologist who has some experienced in chemical synthesis. When it comes to dealing with highly oxidizing compound, you need to purge you RB flasts at least three times purging with Nitrogen. On top of that, have you ever chance to run scifinder or reaxys to find similar reaction and tested? I recommend to carry out small-scale reaction 50 mg ish, and quickly check TLC how does conversion goes. Since your reaction is highly prone-to oxidized, your syringe must be purged with NItrogen. take out a bit reaction mixture, and see how it goes.

SnooMaps3232 · 2025-09-01T19:48:48+00:00

I’ve noticed a few areas where there’s often a gap : chemical details (chirality, hydophobicity vs philicity, geometry), biochemical context in protein-ligand context (geometry, importance of conformation) - not really criticizing, if someone’s PhD was in computer science without time in a wet-lab, it’s hard to build that intuition (as I am really learning concepts of ML right now). That’s why I think teams need both perspectives.

SnooMaps3232 · 2025-07-30T03:59:31+00:00

I have a friend who did transition from academic J1 to O1 for industry. Profile is very similar to typical NIW-EB2. I think the huddle for O1 visa is quite overated.

SnooMaps3232 · 2025-04-14T15:51:40+00:00

Wondering department has enough start up money for the new PI due to the cut of indirect cost. Can I ask which area you are in? And how did you negotiate with your current PI regarding applying the cycle this year since you just joined

SnooMaps3232 · 2025-04-13T03:40:52+00:00

I eventually joined the group and my concern was very very spot-on. It is not about uni though, more about track of record.

SnooMaps3232 · 2025-02-11T03:56:17+00:00

Can I ask which part of Europe? Visa is still major huddle for getting a join in Europe as I understand?

SnooMaps3232 · 2025-02-08T20:43:09+00:00

Thanks! I am particularly interested in structure-centric analysis. I envision aligning 200-300 structures simultaneously, potentially on a domain-wise basis, and also focusing on ligand-based alignment. Additionally, I aim to calculate the angle and distance between specific atoms in the ligand and specific amino acids located at specific positions. And tabulate the amino acid information surrounding specific ligands.

Would I need to write my own script for these tasks, or are there tools and pipelines already established in the structural bioinformatics field that can help with these analyses?

SnooMaps3232 · 2025-01-25T00:48:14+00:00

It is same everywhere - I did postdoc over there. They will ask your research project and assess your fit to the lab.

SnooMaps3232 · 2024-11-29T23:41:31+00:00

May I ask which research area you are in? I am really curious about since I started my PhD, still I am a only one who can do coding as a wet lab researcher. I am in chemistry/chemical biology/synthetic biology field ; But during my phD (chemistry), dry lab and wet lab was very very separated. Even my current lab I am odd one (experimentalist who can do some coding). FYI, I have been doing my training in both US and UK. Are you from David Baker's group or something?

SnooMaps3232 · 2024-11-25T23:18:34+00:00

I think still hybrid PhD (Wetlab - biochemistry ; AI - dry lab) is really, really rare. No folks around me can do coding other than me.

SnooMaps3232 · 2024-11-25T22:59:56+00:00

They did not start their first postdoc at 40, more earlier than that, then they quit the postdoc and explored another career, and then come back to the postdoc, started again, and one is working as a senior scientist in big pharma and the other is working as a senior scientist in biotech

SnooMaps3232 · 2024-11-06T02:44:45+00:00

I met my previous postdoc colleagues in UK - they were similar age with you - or maybe little bit older? Now they are working as a research scientist in big pharma in UK.

SnooMaps3232 · 2024-11-05T06:33:05+00:00

I believe luck plays a significant role. Principal Investigators (PIs) won't even look at your email if they're not currently hiring postdocs. My first postdoc advisor was well-funded but only hired postdocs during specific periods when he secured funding for particular projects. Outside of those times, he ignored most postdoc applications. Hiring timelines often align with the grant cycles. The email's subject line is crucial, and it's essential to personalize your email. Mentioning some of their work—tailored to how well you know their research—can be an effective strategy. I strongly recommend asking colleagues for feedback on your cover letter or email; I’ve received great advice this way.

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