Posts Tagged ‘data-driven’

Mechanism-based vs. Data-driven

淞 Posted in Mind Chaos,Tags: ,
0

Previously, I wrote some comments about "Low Input, High Throughput, No Input". And I appreciate that Chen give many comment to my article, which inspired me a lot and made to think more about the problem of mechanism-based and data-driven research.

As I was doing the mechanism-based research, I guess I probably had some preconceptions about data-driven type of research. And I reconsidered about both two area for some time. The real situation is that in research there is not so many definite lines or boundaries between areas. Typically, the angles of research is usually debated from different lab. As for me, I am more practical for many things, whatever methods is OK as long as it could provide more and detail knowledge or critical principles explaining problems.

In both sides, there are many difficulties. For mechanism-based research, the not-easily-measurable parameters are usually obstructions. And being far away from detail mechanism-explaining makes data-driven part controversial. Thus debating is meaningless, finding a way out, no matter what method is applied, is more important. And I believe that there is potential power in combining these two types of research.

People talks so much about systems from the end of last century, but so far we don’t have any breakthrough in very large scale systems. I am not throwing cold water on this issue. I guess the big problem is that we need to contribute more intelligence for solving it rather than concepts bringing more issues.

Sometimes, I am quite frustrated by the reality that we can barely do any big steps. I feel there is a way out of this chaos and complexity, but I just don’t know it.

PS: In recent issue of Cell, there is an article about "GWAS makes it functional". I guess many friends of mine would be interested. Anyone mind if send me a copy? I can not access the database in KAUST (speaking of this, KAUST has so much money, why library database so sucks!!!)

Low Input, High Throughput, No Output

淞 Posted in 他山之石,可以攻玉,Tags: , ,
5

Sydney Brenner says for past 50 years life science has changed into Low Input, High Throughput, No Output science.

This is brilliantly sharp !!!

As I can tell, most people thought systems biology is simply dealing with large mount of data. Well, I guess they are likely going into a wrong way.

I strongly recommend this interview with Sydney Brenner in Nature Review Molecular Cell Biology and another one I have read from somewhere that about focusing on the information flow in biological system (while I can not remember where did I read it.) {Remark: I found the 2nd article later, it is Life, Logic and Information written by Paul Nurse on Nature, 2008}

There are some interesting point of view about biology and research in life science. It is worthy of reading and thinking for biological students.

The biggest problem here is that, as Tim Hunt said in Nature video on 16/09/2010, it is hard to let people believe that the whole static picture of which one interacting with which another one, prediction of the possibilities that interaction might happen which probably is not true. And for real, mechanistic and causative questions are more rarely asked nowadays.

In contrary, the mechanism-based approach should be superimposed and more accentuated rather than put more and more funds and human resource into data-driven statistical inference, as there are so much fuzzy noise and, what’s more, the information lost in every step of investigation. Lots of research in this field is kind of like "garbage in, garbage out". The results could possibly never be read by other people forever since published.

Well, no offence to statistics, I just don’t believe it is the way out.  It is for sure that time will tell the truth.

PS:最后我要诅咒一下校内的状态更新的140字限制。。。本来想要发一条状态好了,结果不管怎么改都说超过140字,人人网可以去死了            =。=