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Feb
4
comment new DNA sequencing technologies?
Yes, there's a new technique called Sanger sequencing. Have you heard of that? In other words, if you don't tell us what you know, how can we tell what you don't know?
Jan
25
comment How to predict Protein-Protein Interactions from a pair of gene symbols?
I don't understand what you mean. What kind of interaction data do you have and what kind are you after? Are you starting by a list of interacting genes and want to check whether their protein products interact as well? Is your question just about how to get predicted PPI interactions for pairs of gene names? If so, there's no need for PDB IDs, the vast majority of PPI databases use other identifiers. Please edit and clarify and then leave me a comment and I should be able to help. Make sure to include examples of your input IDs.
Jan
24
comment Nicotine levels in non fruit/edible parts of plants (that are not tobacco)
Note that the nicotine is not the problem and never was the problem. There are, apparently, some studies that link nicotine itself to certain cancers but the reason that smoking is bad for you is overwhelmingly because you smoke it. Take away combustion and most of the problem basically disappears. Therefore, the source (or even presence) of nicotine is essentially irrelevant. That said, please don't use this forum as a soap box to tout the improvements of e-cigs over smoking. I happen to agree with you 100%, but this is not the place for it.
Dec
3
comment Are epigenetic changes involved in evolution?
@Christiaan that's much better, thanks. Close vote retracted.
Dec
3
comment Are epigenetic changes involved in evolution?
Sorry but this is just not answerable. I'm afraid you have completely misunderstood. Epigenetic features have nothing to do with phenotypic changes (they can, but most certainly not always). Please read at least the relevant wikipedia articles and post again with a more specific question.
Dec
2
comment Sexual selection and genotypes
There are dozens of possible explanations. The green tails might be better at impregnating the females so fewer matings would not be a problem. Or, the brown ones might be blindingly fast and can get away from predators, leading to fewer dying and more managing to reproduce. We can't really help unless you narrow it down. Are you just looking for any plausible explanation or are you trying to understand a particular mechanism?
Nov
27
comment Serotonin - Does being aroused make you sleepy?
@AMR still, your rather aggressive comment urged me to check my guess and change my answer to be based on fact, rather than guessing. Happily, my guess wasn't far off the mark. Thanks.
Nov
27
comment Serotonin - Does being aroused make you sleepy?
@AMR if you don't know what a word means, look it up in a regular dictionary, not a medical one. Here are a few: 1, 2, 3, 4, 5. Note that every one of them includes sexual arousal as the primary or secondary meaning of the word. In English, with no other context, arousal will always be taken to mean sexual arousal.
Nov
24
comment How does the modern synthesis theory explain the evolution of birds from dinosaurs?
@MakotoKato perhaps, but that wouldn't mean it couldn't happen. More importantly, wings would never be selectively neutral. They immediately open up an entire new ecological niche and all sorts of new defensive options. They would most certainly not be neutral.
Nov
23
comment How much genomic variation one usually find within a given bacterial species?
Yes, but are those the species you are working with?
Nov
23
comment How does the modern synthesis theory explain the evolution of birds from dinosaurs?
@MakotoKato thanks for the link. I hadn't expressed myself clearly. My main point was that while modern birds may well be descendants of certain dinosaurs, you can't say that dinosaurs evolved to birds. Only that birds evolved from dinosaurs. The first statement implies that dinosaurs were replaced by birds rather than simply that they gave rise to them.
Nov
22
comment How does one find the corresponding SNPs in the pair of chromonosmes in a FASTA file?
"Two corresponding sequences": corresponding to what? What SNP data? What SNP should be on both chromosomes? The link you gave seems to be for a SNP that can be either hetero- or homozygous. Why are you assuming it is homozygous in your data? What are your data? Please edit your question and clarify, it is very hard to understand what you're asking at the moment.
Nov
15
comment How do we know that humans and chimpanzees evolved from a common ape ancestor?
This is a circular argument. You cannot use a phylogenetic tree which is created based on the assumption of the evolutionary process as evidence of said process. You could make a good argument if you explained how that tree was made, that it is a map of genomic similarity. As it stands, your answer is not really proving anything, I'm afraid.
Nov
15
comment How do we know that humans and chimpanzees evolved from a common ape ancestor?
@jameslarge precisely. Facts lead to theories which lead to predictions which can be confirmed as fact after experimentation and/or observation. Theories can lead to facts but do not produce them.
Nov
8
comment Most painless method for killing insects
@fileunderwater well, you could always breathe at them. :P
Nov
7
comment How does the modern synthesis theory explain the evolution of birds from dinosaurs?
@MakotoKato well, for a clue, have a look at this answer about bats. Look at the gliding mice. You can imagine similar intermediate steps.
Nov
7
comment How does the modern synthesis theory explain the evolution of birds from dinosaurs?
@vervet as far as I know, that's not the case. I may be wrong though.
Oct
16
comment Shortest path and influenza spread
Why would the shortest path be relevant? There is no reason for a virus to spread via the shortest path. For all you know, there was a travelling salesman who was carrying the virus and who took a very roundabout route (obviously, he couldn't find a good solution to the travelling salesman problem) to get to the various places he was going to. Of course you could model it as a network but I doubt the shortest path would give you much useful information.
Oct
16
comment Do the bacterial species X, Y, Z code for proteins A, B, C?
@codax no, each query protein should have its own set of HSPs. You are looking for HSPs that have i) high sequence identity and ii) cover the entire length of the query sequence (or nearly). Now that you know they are there and have high similarity, you can also use exonerate to match the genes more precisely.
Oct
13
comment Applications of shortest path problem
@TanMath here you go, but it won't help you much. The shortest path analysis was a tiny part of the work, I only mentioned it because I happened to have done this recently. Your best bet is to go on PubMed and search for "shortest path".