Konrad Rudolph

2,440 reputation

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	location	Cambridge, United Kingdom
	age	28
visits	member for	1 year, 5 months
	seen	May 9 at 13:53
stats	profile views	62

I’m a bioinformatics PhD student at EMBL-EBI and the University of Cambridge but I’m originally from Berlin.

My thesis project is about the regulation of tRNA expression in mammals.

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	2,440 reputation	bio	website		visits	member for	1 year, 5 months
319 badges		location	Cambridge, United Kingdom		seen	May 9 at 13:53

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Aug 12	comment	Assembly of metagenomic data Not sure there is a lot you can do. 15 contigs of 10kb do seem awfully little, though.
Aug 6	awarded	Nice Answer
Aug 2	comment	Is the theory of evolution being disproved by bats? @Mechanicals How do you figure that out? Two mods (me included) have commented saying that it’s on topic.
Aug 1	comment	How does the brain instinctively know the math behind Newtonian Physics? Forget 10-year-old children. Pigeons literally have a pigeon brain, yet they can integrate complex ODE systems in real-time.
Aug 1	comment	Is the theory of evolution being disproved by bats? Please don’t cross-post. – If you’re unsure which site to post on, discuss this on the meta sites. FWIW Skeptics is a better suited site. A biology website is probably not the best place to question the basic tenet of biology, much like the Christianity Stack Exchange will not accept discussions about the non-existence of god.
Aug 1	comment	Shortest strings not present in the human genome @nico There are special data structures for this which do make it as simple as iterating over a single string (except that for each position you don’t have a single 17-mer starting there, but a list of 17-mers).
Aug 1	comment	Shortest strings not present in the human genome @Richard Actually, Ilmari’s algorithm would work in linear time. My approach was approaching the problem the other way round because I assumed generality, whereas Ilmari (correctly) assumes that we can give an upper bound on the length of the non-present infix, which allows the usage of look-up tables. My approach would have iterated over the whole search space of all possible k-tupes for k=2… (which is exponential) and check whether each of those exists a pre-built index of the genome.
Aug 1	comment	What is the difference between naive and adjusted p-values in a GWAS study? No idea. For the normal 5% threshold, the adjusted p-value is actually still significant. I’ve seen several times that an unadjusted p-value was reported in papers without any explanation why that was done. Maybe the researchers just report what the software gives them without questioning whether it makes sense.
Jul 31	answered	What is the difference between naive and adjusted p-values in a GWAS study?
Jul 31	comment	What is the difference between naive and adjusted p-values in a GWAS study? Why did they even report it? Because the adjusted isn’t below their significance level? Well, tough luck!
Jul 31	comment	Shortest strings not present in the human genome I was about to write a description of how to find this out yourself but after closer reflection, this sounds hard. Essentially you’d have to build a dynamic programming solution but the solution will still have an exponential runtime with a huge exponent in the length of the result string (which we don’t know).
Jul 31	comment	Why does the gender of the parent species determines the species of a hybrid offspring Excellent question. Unfortunately, I am guessing that the answer is simply “because we defined it that way”, rather than a biological insight. Species are usually defined in terms of the possibility of interbreeding, which isn’t relevant here (hybrid offspring is usually sterile).
Jul 31	revised	Why does the gender of the parent species determines the species of a hybrid offspring A “specie” is a coin, not the singular of “species”.
Jul 31	answered	What is the biological mechanism linking temperature and probability to be infected with a virus?
Jul 31	comment	Is there any biological reason that professional swimming is dominated by white people? Hmm, I was sure that we had the question on Skeptics but I can’t find it now. Since the black/white divide isn’t a meaningful biological distinction (i.e. it is not correlated with genetic background – which, incidentally, is also why I cringe whenever I hear “race” applied to this, because it’s just wrong) the real reason is almost certainly cultural, not biological.
Jul 31	awarded	Citizen Patrol
Jul 31	comment	What is the biological mechanism linking temperature and probability to be infected with a virus? @Uri What do you mean by that? “a really bad idea for a stackexchange site”
Jul 31	comment	Can parents' learned traits be transmitted genetically? “many studies claim” – do you have any reference for that? This sounds very dodgy. Some naive epigenetics studies claim similar results for mice but their interpretations are simply not backed by the data.
Jul 25	comment	Is there a correlation between incidence of type 1 diabetes and vitiligo? Is there a particular reason for you to suspect that this might be the case?
Jul 25	comment	Is sperm contagious? Had to laugh at the title. Yes, sperm may indeed be confer other sperm-bearing life-forms so I’d say that it’s contagious.