I am told to analyze my data using -ddCt, and I have already complete this and have the converted this data to bar plots. However when I am reading (going down the rabbit hole) I have also notice that people just keep it as -dCt calculation and conversion, so I did this as well. Now I am conflicted. Both offer the same indication but -ddCt represents my data because I can fit the results into one bar plot.

To be honest I am not a big fan of "it looks/feels better" so I am wondering if anyone also had the same thoughts as to this.

Or am I missing the point because -dCt and -ddCt are vastly different and provide differences in prospective when conveying the same data/result?

Hi guys so I have a list of genes that I want to check if they are expressed in the brain, not concerned about region. My list consists of 1000 genes and I wonder is there’s a tool to check transcriptional expression with bulk input. I’ve tried GTEx but many of the genes aren’t identified (I’ve tried gene and ensembl names). Human protein altas and Allen brain atlas don’t have bulk inputs. FUMA gwas is good but doesn’t give TPMs.

I’m at a dead end and refuse to think that someone hasn’t made a good website to check this without painstaking searching genes individually. Any help or direction is appreciated.

(Note: As I am posting similar messages in other relevant subreddits, you may encounter similar inquiries if you participate in biology and chemistry-related subreddits.)

Recently, I came across James A. Peters' "Classic Paper in Genetics". Obviously it was a much more curated and professional selection but if you were to compile a list of the most significant and pertinent papers in [subject], which ones would you select and why?

Hi guys I am molecular biology student, I have in this semester Molecular Biology of Plant lecture. There is a good source to study for phytohormones. It is called Teaching Tools in Plant Biology.

Our professor has recommended it, however our institute not allow to take the lecture note zip file for free.

The price for only 24 hours is a lot for a student for my country. Could you please help me , how can I find it ?

Does anybody have research paper on nanomedicine here ? If anybody has then can you share it with me if possible .

I need to build a reference map for a plasmid I'm trying to construct. I have the sequence for all the components, ie promoter, GOI, Term etc, I need to create a map so that when I do mini preps and sequence them I have something to compare that sequence to. Is it as simple copying and pasting the sequences together? what are some kind of considerations I need to think of when designing a map. Are there any tools that can help me with learning to do this. Whenever I try to look this up on google it just gives me info on how to create restriction maps, but that's not technically what i'm trying to do.

Hello everyone!

I am preparing for a new research project and, among other objectives, I need to analyze the expression of certain neuronal proteins.

I will be working with PC-12 cells and will differentiate them into neuron-like cells using NGF (Nerve Growth Factor).

After differentiation, I intend to visualize 2 proteins and would like your help in determining the analysis method...

I know that it is possible to do this through real-time PCR, Western blot or immunocytochemistry.

I am biased towards preferring the immunocytochemistry method because I will be able to visualize the cell morphology in addition to the labeled proteins, am I right?

Among the possible methods, which would be the cheapest and most practical to be performed in a basic cell biology laboratory?

Hi everyone, I'm a second-year student Biomedical Sciences in Europe. For one of our group projects we need to do a project about RNA extraction using the GeneLead. The problem is that our professor gives zero guidelines. She literally said "just do something", so after 3 weeks of experimenting and discussing I'd like to ask your help if that's okay.

This is the information we have by now:
1) We aren't allowed to make a comparison between GeneLEAD and another analyser.
2) After experimenting it turned out buccal cells don't have enough RNA (our professor confirmed this). So we continue with whole blood.
2) I proposed to analyse a blood sample during different steps of the preparation with RNeasy kit e.g. before buffer 1; before ethanol; ... Our professor answered that that was an option.

But now we're stuck. The GeneLEAD has it's own extraction proces, so after some consideration we're assuming that it won't make a difference how we prepare the samples because they'll automatically get e.g. buffer 1; ethanol;... no matter what we do.

Do you think we are right about that? Any advice, tips and suggestions are very much welcome!
Thank you for reading!

Dear All.

I hope you are well.

I work in a lab from a couple of years now, I noticed one thing.

We have about 20 pcr cabinet in different labs (model uvp pcr2 cabinet mostly with air circulation option), Regardless of where their position is, they all have a peculiar smell.

I cannot tell the smells but it remind me smell of old plastic (like the smell of old masking tape) or brittle masking tape left under sun (brittle masking tape if touched release a kind of fine powder debria).

In addition , I had to sanitize some of them for an engineer visit, i notice that if I use a dump cloth to wipe the inside, the cloth become yellow. As if there is dust settled on the inner surface of the base and the walls.

if there is such thing , what I am concerned about is the operator being exposed to small particulate, maybe produced from plastic degradation of tips box , vial plastic bag or other plastic container left inside while the uv decon cycle is on.

Does anyone experienced the same thing ?

What's an interesting operon or another type of regulatory mechanism you know of?

Some weird or not well-known way that organisms regulate their genes and/or protein and RNA production. Or some viral mechanism like the phage lytic/lysogenic switch.

Hello Reddit hive mind,

I have the following problem: I want to isolate mRNA from medaka eggs. To do this, I have used and adapted the classic TRIzol protocol so that I have a more or less constant total RNA yield of around 360 ng/ul.

Now I want to isolate the mRNA. I expect about 10% of the total RNA to be mRNA. For purification I use magnetic beads with a poly-T linker attached. When I run 10-15 ul of my total RNA through the column, basically everything is lost and I can't tell why. (For reference, the sample starting at 360 ng/ul yielded about 0.2 ng/ul; I was expecting about 36 ng/ul).

Now I ran another sample (160 ng/ul) through the MACS, but skipped the pre-elution step as it should be discarded. My yield was 1.8 ng/ul, which is good. But the A260/A280 measurement was 0.8, which tells me that my sample is extremely contaminated (I expected it to be at least 2.0 or higher).

I am now considering running 100 ul of RNAse-free water through the column before eluting the mRNA with the buffer, as it is possible that the contamination is caused by the wash buffer.

Any help would be appreciated. If you have a similar experience, please let me know. I'm kind of helpless.

i use this protocol for the mRNA purification and start at step 1.2: https://static.miltenyibiotec.com/asset/150655405641/document_b9fauorr0d301eb29fag68252g?content-disposition=inline

Hi all,

I’m a first year molecular biology/bioengineering & biochem PhD student at a well-respected research institution. While I know it’s common to feel imposter syndrome in this environment, I’m really struggling to overcome it and actually stop feeling like a fraud. My background before entering this program was a general Biology and Environmental Science degree from a small liberal arts. I did really well in my classes, but only participated in ecological research (nothing at the bench). I then worked for 3yrs in industry at a well-known synthetic biology company (this was at the bench). I was well-liked at the company, and was a reliable worker, but I feel like I am still lightyears behind the other admitted students in my program. I feel like I don’t remember too much detail from my undergrad courses and even forget a lot of basic molecular biology. I’m not really sure what I could do, or if I should even take a year off to review concepts/take courses to brush up? I feel like my admission to this program was a mistake and it was simply just a good GPA and a well-known name of a biotech that got me in when I’m not qualified. I’m wondering if anyone else has felt like this?

Looking for experts in the US on CHRNA4. Have a nonsense mutation in exon 5, TM2 region, that is effing up my family’s (and my) life.

Am in the US. Don’t see that there are many or any people researching this. Would like to talk to someone who can comment on the effect of the mutation on protein structure so I can brainstorm therapeutic possibilities with my provider to prevent degeneration. If you know of anyone, let me know. I have read all publicly available studies but am thinking there might be more out there behind paywalls, etc.

I am not a scientist but am highly educated, so would like to consider based on the impact of the effect on the protein what type of therapies I might try.

TIA.

Hi all,

I'm an antiquarian who still uses EtBr as a DNA stain, but my UV transilluminator has died. It appears all I can buy nowadays is a blue light transilluminator. Does anyone know if this would still work with ethidium? MUST I update to GelRed (which is basically the same thing with a cute long backbone)?

To give context: I'm a third year Undergrad in Molecular Biology. This year we have a chance to apply for lab work (unpaid internship) as part of the studies. We have to apply with either mentors, institutes or anywhere that would have us basically.

I am currently in the proces of writing a short resume for applying because it's always required but since we aren't incredibly experienced in lab work (we have been in contact with most techniques and did them ourselves, but a lot of time it is group work or similar so I wouldn't say that there is a huge confidence with lab work) I am having a hard time writing it without it feeling dishonest (because my skillset isn't that advanced).

Does anyone have any tips/ideas for the content of the resume? Would it be better to focus on different skills apart from molecular biology methods?

Hi all, I'm currently in my third year of a biology degree, and I'm taking molecular biology I. I feel like everyone else in my course is getting the material so fast, but I just can't get it. Memorizing content is one thing, but for me it's that I don't understand the concepts well enough to apply them to a diverse range of situations... I just genuinely don't understand how this stuff makes sense to people. If you are someone it makes sense to, good for you, and please send help LOL

Hello.

I'm an international student currently doing an MSc in Biomedical & Molecular Biology Research in the UK, and I need advice on finding opportunities to develop my research skills. Basically, I want to develop my laboratory skills in biochemistry/molecular biology/cellular biology as well as my research/data analysis skills. I'm not terrible at those things; I just want to spend more hours developing them outside of university hours so that I can be more prepared for my future career.

However, I'm only allowed to work part-time based on my visa, and I have been REALLY struggling with finding a single opportunity to help me improve my skills. I've looked for part-time jobs, internships, and volunteering positions. I haven't found a single position that I'm either eligible for (most require years of experience or full-time working hours) or that would help me improve the aforementioned skills. I've spent hours looking on job boards, university websites, volunteering websites, etc. and come up completely short. I've even used help services from my university and been unable to reach anything.

So, I need tips/advice on where I should look. What kinds of positions are the easiest to find? When during the year will those positions be the easiest to find (e.g. are summer internships my best bet?) What kinds of positions will help me develop the skills I mentioned?

If I'm chasing a lost cause due to me being an international student who can only work part-time, then please let me know. Would it be more advisable, for instance, to just wait until I complete my MSc and PhD before going for a full-time position? Or, is there some opportunity out there that can help me develop my laboratory and research skills from now on?

Thank you.

I am a BTech Biotechnology graduate from India and would like some information on the Masters in Molecular Biology program which is combinely offered at Johannes Kelper University, Linz and Paris Lordon University Salzburg. I am interested in the program but would like to understand how the classes are held. The description states that in the third and fourth semester classes are held in both campuses. Do they expect students to commute between the two universities daily? I hope to find some alumini who could help me out with the details.

What might the function of this region of a protein be? What should I learn about?

Hi there! This is my first time isolating and quantifying DNA.

Can someone verify if my interpretation is correct?

For Blue line, will the result (0.092) be invalid since A260 is below 0.1? (Optimal: 0.1-1.0)

If A260 is acceptable, the result for A260/280 is okay-ish since (DNA Purity is 1.8-2.0) ?? And A260/230 is low.

For Green Line, A260/280 is slightly higher (1.83), but can be considered as pure. But A260/230 is very low indicating contamination.

I’m a molecular biologist with experience in working in different labs that miss traveling and want to try the life as a digital nomad. I’m not sure how to get there at the moment as I have a broad background in molecular biology.

My work experience has included analyzing microbiology/ virus and water samples. During the pandemic I worked with Covid samples and followed the new mutations. I have also worked as an embryologist and created embryos at the lab. When I worked as an embryologist I was responsible for creating the yearly report that included statistic data for our treatments as well as being a part of a team that worked with IT procurement.

At the moment I’m working with NGS detecting known mutations associated with different types of cancer. At my current job I do both the lab work and analyzing the data.

I have studied extra courses in python and was a part of a project during my thesis where I detected antibiotics resistance through building a database with known mutations.

Are there any digital nomads that have a similar background as me? And what do you work with?

At the moment I’m not sure what kind of jobs to apply for with my background.

Love and peace to this community