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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 ...
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11 votes
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Do biological phenomena follow Gaussian statistics?

kmm's answer is correct; I just want to add some of my points on what kind of data should follow Gaussian distribution. Unless you know from observation that a process doesn't follow a Gaussian ...
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9 votes

Do biological phenomena follow Gaussian statistics?

You raise two issues, both of which might be better suited for stats.SE, but I think the questions are suitably biological to warrant an answer here. Do most biological processes follow a Gaussian ...
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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 ...
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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 ...
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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 ...
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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 ...
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  • 7,969
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 ...
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5 votes

How well does the radius of a tree correlate with its age?

The radius of tree is not a good measure of the tree age, the most efficient technique to know the age of a tree is with dendrochronological methods, this is the less invasive technique. However, ...
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  • 370
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, ...
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5 votes

How to retrieve full gene names list and Entrez gene IDs and other annotation information from HUGO gene name list (in R or any)?

I would recommend just downloading the database, which HUGO allows you to do free of charge. The HUGO website has a "downloads" tab at the top that takes you to the following page http://www....
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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 ...
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  • 181
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, ...
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4 votes

Do biological phenomena follow Gaussian statistics?

You are right to be suspicious. I would contend that, in most situations, hypothesis tests based on the normal distribution are not appropriate. If hypothesis testing is needed, a permutation test ...
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4 votes
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Why is there a compound highlighted in red in a KEGG Module search?

It is just a way of highlighting your search term. If you search M00115+C03722, you will see C03722 in red.
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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 ...
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  • 562
3 votes

Open database of medical images

Here's a good start: http://www.aylward.org/notes/open-access-medical-image-repositories. I understand that this question was somewhat googleable, but perhaps amassing a collection of curated resource ...
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3 votes
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Where can I find DNA Sequence data for colon cancer

You may try the data for "Colon Adenocarcinoma" made by the TCGA project: http://gdac.broadinstitute.org/runs/analyses__2015_04_02/reports/cancer/COAD/ The file with mutations called by the tumor ...
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  • 146
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 ...
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  • 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 ...
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3 votes

Difference between modules in KEGG Module

M00115 is a pathway module (NAD biosynthesis) whereas M00542 is a signature module (EHEC/EPEC pathogenicity signature). From the KEGG page on modules: pathway modules – representing tight ...
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3 votes
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What equation to compare protein isoforms in a Western Blot?

In my opinion you should use this formula: $$ \frac{\text{log}_2(\text{Iso}_1/\text{Iso}_2)}{\text{log}_2(\text{GAPDH})} $$ This will normalize the relative fold differences between the isoforms ...
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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. ...
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  • 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 ...
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  • 3,028
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 ...
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  • 7,579
3 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 ...
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2 votes
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How can I use this data to make a function?

I will not go too deep into the details but here some information to facilitate your understanding of these ubiquitous statistics in biology. The F, $r^2$ and p-value are all equivalent statistics to ...
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  • 2,863
2 votes

About modern dating techniques

In order to date the age of a tree, you have three solutions : If you can cut the tree then you can simply count the number of rings. Note that for very old trees the central rings will have rotted ...
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  • 121
2 votes
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Difference between modules in KEGG Module

Module means, as defined in the KEGG Module page, a functional unit. So it can be anything, from groups of enzymes to genes to metabolites. About the two that concerns you: Pathway modules represent ...
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2 votes
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Presence of reaction module in bacteria but not in Eukaryotas (human)

That module represents Entner-Duodoroff pathway, which is an alternative pathway to the Embden-Mayerhof-Parnas pathway of glycolysis. Entner-Duordoff pathway exists only in prokaryotes.
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