Questions pertaining to organized collections of biological data.

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4
votes
2answers
46 views

Database of Multicellular and Unicellular organisms?

I'm trying to annotate a list of organisms taken from NCBI for cellularity (unicellular or multicellular). Does any of you ever found a database with association between an organisms' name or taxa and ...
2
votes
0answers
21 views

dbSNP database table desciptions

I am trying to build a local implementation of dbSNP. I would like to know the descriptions of tables listed on ftp://ftp.ncbi.nlm.nih.gov/snp/database/organism_data/human_9606 and on ...
3
votes
1answer
30 views

Local storage of NCBI database in MongoDB [closed]

My short term goal in a project is to build a local database of the NCBI dbSNP database. The data and schema are available on the FTP site(). I was going to implement the database using MySQL, but I ...
2
votes
1answer
115 views

Do there exist publicly available Genome sequences of a family?

I would like to explore the genome sequence of a publicly available genome sequences of a family (like mother, father, son, daughter...). If such human genome sequences are not publicly available at ...
2
votes
1answer
52 views

What does chromosome CHR_Un, CHR_MT in the ftp site of NCBI mean?

I am not a biologist. But need some genetic data. So I searched internet and reached NCBI's website. I came to know from the FAQ page that I can the complete genome data of organisms from ...
1
vote
2answers
33 views

Is there any bank of animations for Embryology?

I am trying to find animations which can anonymous or generalised for Embryology. However, I have not find any single good source. Is there any bank of animations for generalised embryos?
1
vote
1answer
36 views

Why are low throughput methods more trustable for protein interaction?

I read that protein interactions found using high throughput methods are less trustable than those found using low throughput methods. For example, searching for interaction of BRCA2 on BioGRID, I ...
1
vote
1answer
23 views

What are good data on the Human Metabolic Model and where can I get them?

Trying to get a good SBML representation of the Human Metabolic Model for use in Flux Balance Analysis and drug targetting (i.e. gene knockout) simulations. What are good sources for these data? ...
2
votes
1answer
45 views

Where to obtain metabolic pathway datasets

I've been looking through the files available at www.reactome.org along with some others but I only find images/pdfs of metabolic pathway diagrams. Where is the actual data these pathways are drawn ...
3
votes
0answers
40 views

Database of Medical Assertions

Can anyone point me toward a computationally-accessible database of medical assertions? I'm looking for something where each row in the database contains a single unit of knowledge. It could either be ...
1
vote
1answer
149 views

What are the differences between HPRD and BIOGRID databases?

What are the differences between HPRD and BIOGRID protein-protein interactions databases? What are their purposes? Why do we need two different databases? How is data collected into each one? How ...
6
votes
1answer
45 views

Calling for Free Online Data for Paediatric ECG?

I need free online data about heart murmurs to study these: heart murmur frequency , S2 heart sound frequency and its split, murmur timing, and duration, murmur intensity, S3 sound presence and ...
2
votes
2answers
103 views

Are there any open plant databases (database/library/collection), containing species information and pictures?

I would like to download a plant database containing photos and species details. Do you know if there are any openly available online?
3
votes
1answer
35 views

Is there any database with RNA classification?

I am looking for a database that would provide classification of various types of RNA - information about its structure, function, etc.
4
votes
0answers
26 views

How to search for organisms by criteria such as growth substrate and overflow metabolites?

I'm looking for a database or a systematic way to search for organisms which meet certain criteria. My criteria descending importance are: growth substrate chemolithoautotrophy (on which substrate) ...
1
vote
0answers
21 views

Is there a database of pollen-seed distances across plant species?

I was enjoying Richard Smith's excellent answer to this question, and wondered: If you consider the pollen/seed distribution range to be plant locomotion, is there a database that compares these ...
3
votes
1answer
81 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
79 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?
1
vote
1answer
86 views

Modeling yeast biochemical pathway using enzyme kinetics

I need enzyme concentration and metabolites concentration values to en-corporate these values in my model and do some simulation. I searched through some database yeast metabolome database ...
2
votes
2answers
195 views

What's a good and reliable database on the pharmacodynamic and pharmacokinetic data of drugs both approved and unapproved?

What's a good and reliable database for the pharmacodynamic and pharmacokinetic data of drugs both approved (in the US and elsewhere) and unapproved?
8
votes
2answers
101 views

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

I hope this is the right StackExchange forum for such a question. I'm looking for large data sets on world-wide ecology parameters, such as annual temperatures by latitude, annual rainfall, CO₂ and ...
3
votes
1answer
87 views

Antibody-antigen database

Is there a database where I can find an affinity estimate if I provide a given antibody and a given antigen sequence ? Input : antibody + antigen sequence Output : quantitative binding/affinity ...