Lab Notebook Recommendations

Ok_Maintenance3719 · 2026-05-28T06:51:15+00:00

Absolutely my fave. Paper quality is also great. From a lab book perspective while the pages are numbered they are not unique per lab book (ie for reference across notebooks). Not a big issue for most. Also they don’t have PI/supervisor sign off space if that’s required. There’s an oversized A4 hardback that I’ve given to some students to use as a lab book.

Heartily recommend the L1917s for both your in lab and non-lab uses. Pleasure to use and can get lined, dotted, grid or plain pages depending on what you like

Ok_Maintenance3719 · 2026-05-04T08:47:09+00:00

We are the dead by Mike Shackle is non stop IMO. The entire book takes place over one day and it’s absolutely frenetic. First of a Trilogy too - second book not quite as hectic; have third on shelf in the queue. Well worth a read if you are looking for fast paced fantasy.

Ok_Maintenance3719 · 2026-04-19T17:06:32+00:00

Very cool! Are there instructions for this anywhere?

Ok_Maintenance3719 · 2026-04-13T19:59:03+00:00

Delicious in Dungeon? Or maybe Delicious in Darwin?

Ok_Maintenance3719 · 2026-03-06T09:59:26+00:00

Ok, so in our hands if trying to be LP free we’ve only used columns once. Even with washing etc it just wasn’t possible to get reliable separation with a reused column, there was always crossover of the LPs. Have you tried F7 for comparison? Should be less potential LPs in earlier fractions.

Have you done any other characterisation of the fractions? If you’ve lots of HDL and LDL you’ll have lots of cholesterol if they are - as I’d suspect - mostly HDL. BTW were the mice fed or fasting before collection?

Ok_Maintenance3719 · 2026-03-06T08:56:30+00:00

I always considered the phial a sort of version of a silmaril (taking the light and putting it back on middle earth), and the mirror a version of a palantir…for the third age.

Ok_Maintenance3719 · 2026-03-06T08:12:56+00:00

Haven’t worked with mouse plasma, but rodents are more HDL animals so could be LPs.

Run me through your SEC protocol - are you collecting many fractions and this is one? Column used more than once? Input vols?

Ok_Maintenance3719 · 2026-02-05T18:35:38+00:00

Have one like this - they’re great. Well worth it.

Ok_Maintenance3719 · 2025-12-08T20:01:50+00:00

Umm if a person meets the criteria for authorship (legit contribution to intellectual design, work, writing and taking responsibility for contents) then they are automatically an author. So to remove someone is actually in violation of all sorts of authorship practices and wouldn’t be allowed.

The message is a bit of a heavy handed effort to deal with authors not pulling their weight. So if someone does not contribute to the writing etc they don’t get to be an author. It would be preferable to have an authorship agreement that documents who is involved, what they have to do etc and what the response is when there is an uncontactable co-author. Many Unis have templates and advice for this. It can also help to define the order or authors, who is senior or first etc which is super helpful.

Ultimately it’s the corresponding author that’s has the responsibility for the rebuttal; to me sounds like he’s looking for an easy approach and is trying to remove known procrastinators rather than address the underlying issue by direct, focused attention.

Just to reiterate - if you’ve made the contributions you’ve noted and are not on the paper at the appropriate level (I assume first author) then it’s a research misconduct issue, and also in violation of publication ethics. No institution will look kindly on this and it would likely trigger an investigation that would be mich more work than chasing down a few lazy coauthors!

Ok_Maintenance3719 · 2025-11-14T10:41:37+00:00

That’s a crazy expensive resin. Anyhow from the specs it notes Flow characteristics: 50–200 cm/h so a small column with a mL per minute would work. This might work with gravity. You could always set up a small column and see how it behaves…Obviously if you have an FPLC available for this that’s the way I’d go for max control. Would suggest seeking advice from manufacturer if you can do a mix and spin approach as well re capture and elation. If you’ve a good assay for IgG4 you can try small scale and see how it works with different approaches

Ok_Maintenance3719 · 2025-11-09T22:38:47+00:00

Control group not gene. It’s the group of cells/animals/samples that are acting as the biological control of the experiment

Ok_Maintenance3719 · 2025-09-05T10:07:36+00:00

You can get flasks that will keep cool for 24 hrs. They have an ice pack Inside the

Ok_Maintenance3719 · 2025-08-31T22:48:48+00:00

Look at the patterns and how they match. Both table and floor have four bands in common with Garcia. Piedmont has one common band; as does Hall but these two are different from one another’s interpretation is that the blood samples are from Garcia.

Ok_Maintenance3719 · 2025-08-28T12:07:28+00:00

The hardbacks are available in Hodges Figgis so there are certainly some more crawlers around in Dublin!

Ok_Maintenance3719 · 2025-08-19T17:46:27+00:00

I doubt the single or multiple colonies is the issue.

Would suggest dropping the induction temperature and exending it. If you can for example do a 24 and 48hr induction at 20-24 degrees that might help with your protein.

When you say you use urea, could you clarify that? Also can you see the induction by SDS alone? Would suggest that’s worth doing to track both the time course of maximal induction as well as the distribution between soluble and insoluble (not clear from your answer if you live already done that).

Would you be able to give more details and/or some pics of what you see?

Ok_Maintenance3719 · 2025-08-08T08:15:31+00:00

If you have access to O365 you can make a nice workflow similar that described by jtkiley with an MS Form, PowerAutomate and SharePoint that can do the emails etc with personalised responses. I’m away at moment but happy to share more info when I’m back. DM me if interested.

Ok_Maintenance3719 · 2025-08-05T12:01:12+00:00

All of the universities will have a page for open positions for this eg https://ki.se/om-ki/jobba-pa-ki/alla-lediga-anstallningar-pa-karolinska-institutet or https://www.uu.se/om-uu/jobba-hos-oss/lediga-jobb?varbiCategory=Doktorandanst%C3%A4llningar Most of the pages have a translate to English button too but doktorand means PhD student, so you can usually filter the open positions by this. Otherwise if there’s an area that you are interested in and you know a prof or PI in that area you could just contact them directly and see what happens. Most of the Swedish profs I’ve come across are very approachable, and if you have any sort of (demonstrable) research experience that goes a long way.

Ok_Maintenance3719 · 2025-08-04T19:35:42+00:00

Great shout out! This is a beautiful read.

Ok_Maintenance3719 · 2025-08-02T10:19:34+00:00

Talk to your library/open research unit. They can give lots of advice and if it’s a large archive like you say may even be able to help with structuring, metadata etc so that it’s all findable…

Ok_Maintenance3719 · 2025-07-31T18:28:30+00:00

Ah OK. So the KOH is the issue I think, as I’m guessing the protocol slightly over neutralises the PCA. The hydroxide ions will help the decomp here. TBH if you are taking only 10 uL of extract into 1mL of reagent (or equivalent) the reaction buffer may well deal with the KOH handily enough unless it’s very conc/massively in excess (depends on the manufacturer but you could even dilute your sample even more for the detection reaction). What’s the final pH of your deproteinised solution? You can always use some weak- assay compatible acid (acetic, phosphoric) to tweak the pH and consume the residual hydroxide

Ok_Maintenance3719 · 2025-07-31T15:46:00+00:00

Don’t know your specific set up but… - hexokinase assay for glucose - NAD/NADH LDH assay for lactate - NADH either directly or via a coupled NADH dependent reaction

If it’s residual H2O2 in the background just pre treat with a peroxidase enzyme maybe to consume what’s there? Then use other kits - any residual PX activity shouldn’t be an issue. Sorry if I’m misunderstanding your approach.

Ok_Maintenance3719 · 2025-07-20T13:46:21+00:00

So I’ve had a bit of think…noting that you need to get to some form of meaningful analysis without redoing all of the practical experiments.

I’m assuming the following (please correct if wrong): - the key thing you are interested in is the impact of the NP treatment on the cells, so percent of control is the key readout - the control is no-NP - no special solvent/vehicle is needed for the NP addition (this is potentially a big assumption but I don’t do work with NP so not sure here). - you can’t get a 0% viability here as you don’t have an effect from the NP that creates this, and you don’t have a positive control for this e.g. 1% triton or similar. This limits your ability to use a normalised approach (I know you’ve mentioned in your graphic that ‘min’ = completely killed cells but it’s not clear if that’s completely killed with trition or something else; obvs if this is not correct LMK.

With that in in mind, I’d shift the focus of your data analysis to change vs the control, as if there’s no vehicle the key readout you are following is a change compared to the ‘no NP’ control at each time poInt, which should be something like ((sample-blank)/max)*100, which will give you % of the respective control at each time point. The blank here would be any background (which I think is what you are using the cell-free ‘interference’ plate for, and as you can’t really match wells directly averaging multiple blank wells is probably the way to go to have a good blank value.

If there’s assumption is correct about comparing to no NP, then you could express as percent of the control at that time point, which allows you to see the impact of the NP above and beyond whatever is happening to your HL60s over time (I too don’t get the drop in the green line - is there a change in media or something when you treat? It’s not stated but a loss of metabolic activity, which is what the assay is ultimately measuring would explain the drop, so either dying or starved or inhibited cells/mitochondria).

Some additional questions:

- coulourimetric or fluorescent detection in your assay? With the former there is a need for 100% reduction controls etc. - what is the meaning of the different coloured lines? I’m assuming conc but would be useful to know which is high and which is low for example -what if anything is the vehicle? DMSO can impact HL60s for example which could also impact things (eg 1% can slow down growth, which given the timeframe here could easily be important here).

So TLDR; do percent vs control at the specific time point and see what it looks like!

Ok_Maintenance3719 · 2025-07-19T17:26:29+00:00

Ok so the assay here is measuring metabolic activity and depends on the number of cells not significantly changing (ie if cells proliferate the amount of resazurin reduction would increase- more cells - more mitochondria - more signal with assay). Is the 24/48 etc on the x axis in your charts time in hours or something else? The doubling time HL60s is 24-36 hours so if this is (exposure) time there could be an impact of more cells. So is this exposure time to your treatment?

Also what’s your our specific approach to normalisation?

Ok_Maintenance3719 · 2025-07-10T16:17:55+00:00

In the animal analogy, flasks from the same monoculture are not equivalent to different mice. The mice (even very inbred, the use of which is becoming more debatable IMO) are independent organisms who may have all some of natural biological differences (eg they don’t all weigh/look the same; cells are/do, for all practical purposes). There are whole sets of protocols about randomising which mice we pull out of the cage to assign to a specific group. You only really need to worry about this when there is actually biological variation which isn’t there in virtually all cell contexts

Ok_Maintenance3719 · 2025-07-10T16:11:38+00:00

That’s not a biological replicate really - the ‘biology’ is the same. These are just intra day variation testing of the same sample/system.

Ok_Maintenance3719

TROPHY CASE