The technique of using microscopes to view objects that are otherwise too small to be easily seen by the naked eye.

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14
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4answers
338 views

Machine learning for light microscopy — problems to solve?

I would like solve some biological problems that would improve the state-of-the-art of biology or bioinformatics. In particular, I want to apply machine learning on light microscopic images. The ...
13
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1answer
421 views

What is the magnification necessary to see pond life

My daughter is 5 and wants to learn about Biology. I thought a great start is to see life from pond water through a USB microscope. It would be great if she could see organisms like amoebas, ...
12
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4answers
339 views

Online repositories of scanning electron microscope photographs?

I have looked at every single Wikimedia commons photo in the category 'scanning electron microscope'. Unfortunately, I could not find any other repositories of such photos, but I would readily look at ...
6
votes
4answers
277 views

What kind of microscope for ML/biological research?

I am a computer science student, focusing on machine learning applications. I have been always interested in biology but I lack any training in it. Now, I had an idea that I could introduce myself to ...
5
votes
2answers
94 views

What is the state of automated quantitative analysis?

Quantitative analysis of microscope images is essential for many types of studies, but the techniques used most often are very labor-intensive. I have been able to find some literature about using ...
5
votes
1answer
36 views

What Websites Have Image Libraries for Bacteria and other Microorganisms

What Websites Have Image Libraries for Bacteria and other Microorganisms? With age of cell phone microscopes and hand held spectrometers it would be interesting and valuable to be able to compare ...
5
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2answers
192 views

What to look for when buying a light microscope?

I am a science lover and want to buy a microscope to explore things around me. Like studying cell structures, microorganisms, blood and plants. It would be great if there is way to photograph slides. ...
4
votes
2answers
859 views

What kind of microscope should be used to view biological structures (such as spores) roughly 5 µm in length?

I would like to be able to identify genera of fungi based on the shape, size, and colour of spores. So the requirements are: Must be able to view a 5 micrometre object clearly with reasonable ...
4
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2answers
40 views

Dyes to bind to double stranded DNA?

Are there any commercially available fluorescent dyes that will bind only to double stranded DNA (not RNA, single stranded DNA etc.) for studying in vitro using confocal microscopy?
4
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2answers
781 views

Microscope recommendation for an amateur?

I am a mathematics student looking for a hobby and this has come up as a potential hobby. Thus I am interested in buying a high-magnification microscope that is within the limits of my budget. My ...
4
votes
1answer
40 views

How can I reduce the background gradient in phase contrast microscopy?

I'm looking for ways to set up a phase contrast microscope to reduce the brightness gradient that appears across the background of my images. I use phase contrast to find the outlines of cells in my ...
4
votes
1answer
65 views

How to operate a microtome?

In the picture above (Source: Amazon.com, United Scientific MCT001 Hand Microtome) we can see a microtome. How is it operated?
4
votes
1answer
271 views

Software for counting fly eggs

Is there any software that could be used to rapidly (quicker than humans) count the eggs laid by Drosophila on a substrate by placing them under a microscope with a camera attached? The eggs are laid ...
4
votes
1answer
49 views

What microscope/magnification would I need to observe P. Acnes bacteria?

I am currently attempting to grow a culture of P. Acnes bacteria. Right now, my only hope in identifying colonies of the bacteria in the culture is to use a black light to find colonies that glow ...
4
votes
2answers
71 views

How to visualize the ECM?

Specifically, I'd like to look at changes in HA (hyaluronic acid) production. Most often you only see people staining the cell surface or removing cells from culture for fixation and then imaging. ...
4
votes
1answer
3k views

Isotropy of sarcomere bands in skeletal muscle cells

As seen under a polarization microscope, the A-Band in skeletal muscle fibres is so named because it is anisotropic in its refractive index which is a characteristic of orderly crystalline structure. ...
4
votes
1answer
259 views

What is a simple protocol for staining cells in suspension?

I am an engineering student studying how electric fields affect cells, specifically the phenomena of electroporation in living cells. I know that electroporation is widely used for introducing genes ...
3
votes
1answer
86 views

Atomic force microscopy: depth penetration?

What depth penetration can one typically get with atomic force microscopes? (i.e. how far into the tissue can one image?). I have found numbers on acquisition times (minutes) and spatial resolutions ...
3
votes
3answers
221 views

Super-resolution imaging in vivo

Are there any microscopy modalities or techniques for in vivo imaging at higher resolutions than the diffraction limit? I was looking at this list: Super resolution microscopy, but they don't talk ...
3
votes
1answer
373 views

Is it true that viruses cannot be seen with phase-contrast microscopy?

There appears to be a lot of material on the internet claiming that viruses can be only seen with electron microscopes, and not with light microscopes. To the contrary, for example this old paper ...
3
votes
1answer
225 views

Benefits of CLARITY?

What are the benefits of CLARITY over this technique that was published more than a year earlier? Of course the second technique needs a fancier microscope that is likely more expensive and requires ...
3
votes
1answer
109 views

How to evaluate the efficacy of an antibody for fluorescence microscopy?

I'm trying to evaluate data taken from fluorescence microscopy with antibody staining, and am wondering whether there is any standard way to evaluate the specificity of the antibody for such ...
3
votes
1answer
137 views

Can oil be used instead of water in preparing wet mounts for microscopy?

Is there a reason that oil (e.g., vegetable or clear mineral) is not used to make wet mounts in microscopy? I am not referring to oil immersion technique but substituting oil for water in wet mounts ...
3
votes
1answer
140 views

What are these stars in my microscopic image?

I see this very curious patterns on the sun-facing side of a jasmine (probably) leaf - visible with a makeshift microscope (about 50x) What are them? Pores? Are there other plants with similar ...
3
votes
1answer
47 views

Lateral, axional and temporal resolutions for imaging in vivo

What are the spatial (lateral and axional), and temporal resolutions that one is expected to get with the following optical imaging techniques? Optical Bioluminiscence Imaging (BLI) Optical ...
3
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0answers
62 views

Deducing synaptic strength from electron micrographs?

There are several promising techniques for connectomics based on iterative sectioning and imaging of tissue with scanning electron microscopes (e.g. FIB-SEM and ATUM) By looking at such micrographs, ...
3
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0answers
74 views

Microscopy Book Suggestions

I've learned programming through great book recommendations, many from the Stack Exchange series of sites. I'm hoping to take this approach to gaining a fundamental understanding of how fluorescence ...
3
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0answers
318 views

Why does vision go blurry after microscope use, and how to prevent it? [closed]

After using a binocular microscope recently for about 20 minutes, my vision went blurry and for an hour or so it was much harder to read small text. This occurs to a (far) lesser extent whenever I use ...
2
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1answer
85 views

What is this image?

What I understand is- I think this is picture of DNA. But why is it in this conformation ? What types of cells have this type of DNA ?
2
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2answers
42 views

How much are phase-contrast and dark-field microscopy used in biological research? [closed]

How much are phase-contrast and dark-field microscopy used in biological research today? It seems these were invented a long time ago, so I am thinking would it be a good idea to learn these ...
2
votes
1answer
72 views

Mites on ginger root

I was just looking at some mouldy ginger found in the fridge under the microscope and was horrified/delighted to find (what looked to be) mites growing in it. I have searched the web and can only find ...
2
votes
1answer
41 views

What are the features on a microscope one needs in order to do lab work?

By lab work I mean urinalysis, blood work(live as well), fecals, cytologies, histologies and all other. I have read(partly) a book(from 2002) on lab diagnostics and the author did not mention ...
2
votes
1answer
18 views

Can inverted microscope also be phase contrast microscope?

I've read somewhere that inverted microscope also allows phase contrast microscopy. Is that true? Do all inverted microscope have this ability? Do they have any other functions? Many thanks in ...
2
votes
1answer
42 views

What's the best way to measure/calculate the size of a light beam at the sample of a microscope?

I am using a microscope with an LED derived light through the epi-fluorescent port of a microscope. I know that the "field of view" for a given objective is equal to the field number/magnification ...
2
votes
2answers
125 views

Image analysis of GFP-tagged protein localization bursts

I'm reading an article (full text here) that analyze the dynamics of localization of a GFP-tagged transcription factor (Crz1) over the time at the single-cell level, by taking movies in a fluorescent ...
2
votes
1answer
143 views

Any difference between inverted microscope objective vs normal microscope objective?

I'm planning to build an inverted microscope and I am not sure if I can use a plane achromatic objective of a normal microscope for the inverted microscope as well. Are there any specific needs for ...
2
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0answers
22 views

background extraction in microscope analysis

I have taken microscope pictures for proteins in HeLa cells, in order to quantify the intensity (immunofluorescence). The proteins are both at the nuclear envelope, and in order to quantify the ...
2
votes
2answers
59 views

What is a good source that will help me classify protists?

I am a 15 year old that enjoys looking at the micro world. The only issue that I have is that I can't find a good online source that will help me classify the name of the micro organism that I'm ...
2
votes
0answers
85 views

How are new staining protocols designed for microscopy?

How are new staining protocols designed for microscopy? Is it manual work or does it rely on computer simulations? Say for example I thought the H&E staining does not bring enough contrast. How ...
2
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0answers
247 views

Image Processing Suite for bacterial microscopy: Schnitzcells or MicrobeTracker?

I am looking to start doing some work tracking the size and growth of individual bacterial cells in the microscope. In order to analyze the images I need software that can segment the cells, ...
1
vote
1answer
56 views

What are the dimensions in angstrom of bacteria? [closed]

I'm going to take a picture of a bacteria but I am unsure how large it is. What are the dimensions in angstrom of bacteria?
1
vote
1answer
46 views

Can you find malaria parasites in saliva?

Can you find plasmodium parasites (malaria) in saliva under microscope from someone who's infected? Or it's only in the blood?
1
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2answers
95 views

Microscope scale bar

In some microscopic images, there is a bar scale at one of the corners or near a specific object. How are they added to the images? Does the slide have some markers, or are they digitally added? If ...
1
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1answer
105 views

Does methanol fixation deform cultured cells?

I use methanol fixation (@ -20⁰C for 10 minutes) when performing immunofluorescence assays on cultured cells. Generally speaking, this results in very good antibody staining. However, the cells tend ...
1
vote
1answer
101 views

Can one use a hemocytometer on a compound upright microscope?

I'm posting this as a follow-up on What to look for when buying a light microscope?. The answerer states that you would need to use a an inverted microscope to count cell in the hemocytometer(counting ...
1
vote
1answer
55 views

Dataset of microscopic images before and after staining?

I am looking for a freely distributed dataset of microscopic images. I am hoping to find a dataset that would feature histological images before and after staining (e.g. H&E or some other standard ...
1
vote
3answers
179 views

Assay for Beta-galactosidase activity in single cell microscopy

I'd like to be able to measure the activity of $\beta$-galactosidase in living cells with simple optical (maybe fluorescence) microscopy. Ideally I'd like to do a minimum of genetic engineering, and ...
1
vote
0answers
56 views

Is Zeiss Primo Start microscope worth the price for student use?

I study physics but I have got interested about biology too. Surfing around the web, I have found out that in buying microscopes one needs to decide between the cheaper no-name brands vs. the four big ...
1
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0answers
16 views

Slicing cell cultures frozen in vitrified ice with a laser for CryoEM

Could a cell culture frozen in vitrified ice for CryoEM be effectively sliced into thin planes and resolved images produced? I was thinking if this could be done to get images from inside a cell.
1
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0answers
51 views

Are there any drawbacks to having a fixed-Köhler microscope?

I am considering to buy the Zeiss Primo star microscope. There are two variants: one with so called "Full Köhler" illumination and one with "Fixed-Köhler" illumination. Are there any drawbacks to ...