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13 votes
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Where can I find historical data on world-wide ecology parameters?

Adding some additional database sources: -- Climate -- Prism The PRISM Climate Group gathers climate observations from a wide range of monitoring networks, applies sophisticated quality control ...
theforestecologist's user avatar
9 votes
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What structures does our brain use for a quick indexing of all the data we store in our heads?

Brains are not computers, and do not process information like computers. The trees from CS you are talking about are ways to run linear information stores through a central processing unit. Even with ...
Bryan Krause's user avatar
  • 45.4k
8 votes

Looking for a database of plant features

-- Traits -- TRY TRY is a Plant Trait Database. More formally, it's a network of vegetation scientists headed by DIVERSITAS/IGBP, and the Max Planck Institute for Biogeochemistry, providing a ...
theforestecologist's user avatar
6 votes

Open database of medical images

Open-access medical images: MedPix (by keyword, organic system, pathology and diagnosis A-Z) Radiopaedia (by keyword) PEIR Radiology (by keyword, organ or anatomic region) Ultrasound Cases (by ...
Jan's user avatar
  • 8,059
6 votes
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Where can I find disease diagnosis datasets?

CDC Wonder, a health database of the US Center of Disease Control and Prevention (CDC), has weekly data for Nationally Notifiable Infectious Diseases and Conditions, United States: Weekly Tables from ...
Jan's user avatar
  • 8,059
6 votes

Where can I download a list of all plant species of the world?

This website claims to contain all the plant species we know of (and also contains some statistics on the state of their collection). Keep in mind that there are many species that have yet to be found ...
Ark Lomas's user avatar
  • 933
6 votes
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semantical meaning of positions of letters in genomic sequences

I would recommend thinking about DNA sequences more like words and sentences in a book than bits in a digital data file. If you're reading a book and come across: The quick brown fox jumps over the ...
Bryan Krause's user avatar
  • 45.4k
5 votes
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Don't understand figures in this citizen-science mosquito ID project

In the second figure – What does the color scale and color coding represent? Each color is an individual mosquito species, arranged the same from top to bottom on all plots. Here, on the ...
lauir's user avatar
  • 181
5 votes

How to gather life-history traits data on bird species?

Have you tried the Ecological Data Wiki? It's an NSF-funded repository of links to ecological databases and datasets: Main page: http://ecologicaldata.org Find data tab, refined to Taxon=Birds, ...
Ian McFadden's user avatar
5 votes
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Difference between NCBI's /genomes and /1000genomes

The simplest difference is the scale and range. The aim of 1000 genome project was to provide comprehensive library of human genetic variation. DNA of individuals coming from different ethnic groups, ...
hibernicah's user avatar
5 votes
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DNA as a data storage medium: how many GB can a human genome store?

You are confusing the sequences with the pairs. AC is a completely possible sequence, and it will connect to a sequence of TG on the other strand of the double helix. Basically, everything in one ...
tripleee's user avatar
  • 194
4 votes

Where are there analyzable signed directed network datasets?

While this does look like a very nice approach, I would actually argue that there are (almost) no biological datasets, that can be directly used for your algorithm - you can only do a sort of meta ...
Nicolai's user avatar
  • 4,391
4 votes

Statistician confused about exact SNP data type

SNP is not a specific data type but rather a biological phenomenon. The abbreviation "Single Nucleotide Polymorphism" only means there is a variability (between individuals) in a single ...
BagiM's user avatar
  • 583
3 votes

How do I effectively visualize data showing change in a lot of samples over two time periods?

Two styles of graph come to mind. A simple 2 layer histogram showing the distribution of gland counts for each year. This is a kernel density as opposed to a histogram, but it gets the idea across. ...
Shawn's user avatar
  • 425
3 votes
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Personal Genomic Data Samples

Here is the link to the 1000 Genomes project, all the data is available for download. They already have a comprehensive list of SNPs as well. It is not the only project around but it is definitely the ...
alec_djinn's user avatar
  • 3,098
3 votes

where can I find a full list of examples of data types in biology?

I am also a little confused about what exactly do you mean by "data type". As far as I know in programming "data type" is something you use to obstruct 0s and 1s e.g string, int and array is the way ...
serine's user avatar
  • 166
3 votes
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Data on Recombination rate and Gene Positions in Humans

A good baseline for this type of research in human genetics is Standards and guidelines for the interpretation of sequence variants from ACMG. It is a guideline for clinicians, and it gives a good ...
Maxim Kuleshov's user avatar
3 votes
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How specimens are organized in a large biological specimens archive

Biological specimens are ordered in museums phylogenetically. So all the birds are in one place, and the insects in another. Fossils are generally kept in their own place. Different museums may have ...
Karl Kjer's user avatar
  • 7,657
3 votes

Where are there analyzable signed directed network datasets?

This is a great biological question! It asks a lot about how empirical science is done in the field of modern biology. I'm glad we encourage such questions from curious people who want to learn more. ...
Alex Reynolds's user avatar
3 votes

DNA as a data storage medium: how many GB can a human genome store?

The 0.75 GB (assuming 2 bits per nucleotide) is correct as far as I know. But I think I can add some additional context. Typically, I point people to this Nature Review from 2019 for a nice overview ...
Mchiribo's user avatar
3 votes
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Accessing the recombination map of Drosophila melanogaster

Yes, the original links stopped working, apologies. I have now added a file/link in my current website with per-chromosome recombination maps in R5 and R6 coordinates. https://comeron.lab.uiowa.edu/...
Josep Comeron's user avatar
3 votes
Accepted

Estimating the diameter of all earths biomass as a sphere

The following calculation is a very rough estimation to get the sensible order of magnitude. In 2018, Bar-On et al. estimated the total biomass on Earth at about 550 billion tonnes $(5.5\times 10^{14} ...
bandybabboon's user avatar
  • 10.4k
2 votes
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How to find PDB id of an amino acid sequence

One way of doing this is to run a protein BLAST search at NCBI in which you specify the Protein Data Bank as your database, as in the example shown below: The results will be all for proteins in the ...
David's user avatar
  • 25.2k
2 votes

Where can I find clinical trial data published in JAMA?

Online repository Today, most journals (although t may depend on the field) require author to upload their data. The paper you are interested in was published in 1967 (internet was invented in 1969). ...
Remi.b's user avatar
  • 68.1k
2 votes

Looking for a database of plant features

There is the TRY database of plant traits: https://www.try-db.org/TryWeb/Home.php
Oosaka's user avatar
  • 3,245
2 votes
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What values to be taken for x-axis and y-axis?

It doesn't matter really, but for aesthetics sake, you'd plot the wavelength on x and the absorbance on y. We tend to visualize such data as spectral or absorbance as "peaks" on the range of interest. ...
CKM's user avatar
  • 8,111
2 votes
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How do I effectively visualize data showing change in a lot of samples over two time periods?

One solution is to plot exactly the data you are trying to describe - the delta in your values. Consider a bar-plot (with confidence/error bars) showing the plant number along the x-axis and the y-...
kwah's user avatar
  • 136
2 votes
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Where can I find hemagglutination inhibition (HI) assay data?

I don't think there's any universal database containing ongoing, widely representative HI assay output. The Antigenic Cartography group has made available some historical datasets that were used in ...
iayork's user avatar
  • 14.2k
2 votes

Where are there analyzable signed directed network datasets?

Enrichr has a huge (164 libraries) collection of term-to-gene relations in machine-readable format. X2K can be more interesting for you, as it partially implements networks approach. It has a large ...
Maxim Kuleshov's user avatar
2 votes
Accepted

When analysing phosphoproteins via Western blot, why is total protein level of the target protein recommended as an internal loading control?

It is because you don't know how your treatments affect the expression of the total specific protein; perhaps it down- or up-regulates the amount of protein being made, but the relative proportion of ...
bob1's user avatar
  • 11.8k

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