The study of the collection, analysis, and interpretation of data.

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2answers
83 views

Tree census data for Sweden/Scandinavia?

Is anyone aware of any attempts to count or approximate the number of trees there are in Sweden or Scandinavia? I have a small popular science side project for which this would be useful
2
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2answers
124 views

What are the statistical tools for distinguishing molecular analogy from homology?

Scientists have developed statistical tools that distinguish "distant" homologies from coincidental molecular homoplasy in extremely divergent sequences. What are these tools?How are they used ? I ...
3
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1answer
2k views

RNA-seq analysis - q-values in cuffdiff

I'm using cuffdiff 2.1.1 to look for differential gene expression between two conditions. Each condition has 2 biological replicates. The results I get look promising from a log fold change ...
2
votes
1answer
40 views

Material on the analysis of (micro)array data

I'm at the moment analyzing cytokine array data. The available material on the statistical analysis of these data is more than unsatisfactory. Since a lot of effort is being made in the analysis of ...
3
votes
1answer
102 views

What is a good source for info on disease frequency distribution among age groups?

I need information on the disease frequency distribution among age groups for an Android app I'm building... Hopefully I've come to the right place. Is there a good data source for this? Like a ...
2
votes
1answer
83 views

What type of distribution should binding affinities fit?

I've been averaging Ki values from the PDSP Ki Database, and I can't help but to wonder: how I can determine p values for the binding affinities, so I can exclude anomalies in the data if need be?
2
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1answer
249 views

Two brown-haired people have two children, P and Q. P has blond hair. Q has brown hair. What is the probability that Q is heterozygous?

Two brown-haired people have two children, P and Q. P has blond hair. We therefore believe that each parent is heterozygous and that blond hair is a recessive trait. Q has brown hair. What is the ...
4
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1answer
2k views

What does conditional analysis of a SNP in a GWA study entail?

I am familiar with the use of tag-SNPs in genome-wide association studies to identify gene loci involved in complex traits, but I keep seeing the term "conditional analysis" used without any ...
3
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0answers
2k views

What are the factors to consider when determining the sample size for a given study?

Say I'm designing a retrospective study (where I'd collect data from various schools for the last 5 years) to see if consuming milk can contribute to childhood obesity. How do I decide on how many ...
9
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2answers
85 views

Can we disambiguate competing molecular mechanisms of learning and plasticity by measuring electrical activity of neurons?

I have been reading with fascination about the several molecular- and cellular-scale mechanisms and structural changes that underlie what we refer to as long-term plasticity. For instance, [1], [2], ...
12
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1answer
188 views

Systems identification in small neural network

When analyzing data from cortex, we often try to understand what each neuron does in terms of its inputs from other neurons - a specific kind of a systems identification strategy. Most current ...
7
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2answers
128 views

A mathematician's confusion regarding parametric $t$ tests for gene expression data

I'm a mathematician trying to test some things on gene expression data, and I'm thus skimming over various articles such as Sotiriou et. al. to understand what is typically done with such data sets. ...
2
votes
3answers
500 views

Where can I find a list of diseases and their incidence?

Say I am studying a particular disease and I know that its incidence is 0.8 per 100000 children below the age of 18, how would I find the incidence of a whole bunch of other pediatric diseases (or ...
6
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1answer
1k views

What is Mendelian Randomization, and how is it used to infer causality in epidemiology?

Studies of human traits and diseases are inherently confined to observational studies, known as epidemiological studies. This can make it very hard to determine what actually causes a particular ...
11
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2answers
3k views

What is the difference between naive and adjusted p-values in a GWAS study?

What is the difference between a naive p-value and an adjusted p-value in the results of a GWAS study? See from this paper: After Bonferroni adjustment, a single gene, DCTN4 (encoding dynactin 4) ...
8
votes
1answer
927 views

A timeline of the odds for survival for fertilized eggs and fetuses

I'm looking for data to build a timeline of the odds for survival of a fertilized egg, i.e., What are the odds it'll last a week? What are the odds it'll last a month? 2 months? (and so on ...
6
votes
2answers
270 views

Can I compare Shannon indices of metagenome gene data?

I'm comparing 12 Metagenomes. I'm using HMM counts of a number of proteins known to exists as groups within certain operons. I have grouped the HMM counts for each type of operon and calculated the ...
9
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1answer
990 views

How does population stability evolve?

The number of individuals constituting a population is called population size. Over time population size does not remain constant, it fluctuates to different extent over generations because of ...
7
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1answer
147 views

PDB Mining: Why Do I Find Atoms Less than 1 Angstrom Apart?

I am attempting to find potential Hydrogen bonds between Hydrogen donors and aromatic ring acceptors. I do this by predicting the location of Hydrogens on residues and then calculating how far these ...
24
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3answers
2k views

Is it necessary to conduct a power analysis before beginning an experiment?

I know that power analysis is the statistically valid way to ensure you use the correct numer of samples or repeats in an experiment. But I have never seen any biologist actually conduct a power ...
9
votes
1answer
115 views

What is the base cancer rate for an arbitrary carcinogen?

Are all carcinogens equally potent? Is the relationship between dose and probability of cancer roughly equal, or are there some carcinogens that provoke cancer significantly more than their cousins?