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in-cites, December 2005
 http://www.in-cites.com/papers/BrydonBennett.html

Papers

             
An interview with:
Dr. Brydon Bennett
           

In the interview below, in-cites correspondent Gary Taubes talks with Dr. Brydon Bennett about his highly cited paper, "SP600125, an anthrapyrazolone inhibitor of Jun N-terminal kinase," (Bennett BL, et al., PNAS 98[24]: 13681-6, 20 November 2001). This paper, which currently has 477 citations, was selected as a "Current Classic" in the field of Biology & Biochemistry in September 2005. The bulk of Dr. Bennett's citation record in the ISI Essential Science Indicators Web product falls under this field as well. Dr. Bennett is Associate Director of Inflammation Research at Celgene in San Diego, California.

  Tell us quickly how you got into this particular line of research.

I joined Signal Pharmaceuticals in 1997, and the company had been established in 1994 with a couple of founding technologies that I became involved in helping to develop. One was in the NF-kappa B pathway, and the other was AP-1/JNK signaling pathway.

  What are AP-1 and JNK and how are they related?

AP-1 is a transcription factor comprised of two proteins. One of those is c-Jun, and JNK stands for the Jun N-terminal kinase. This is the kinase that phosphorylates and activates Jun, thereby activating the AP-1 transcription factor.

  And the AP-1 transcription factor? What does that activate?


As soon as we published, we got inundated with requests for the compound.”

It turns on a big swath of genes, but there are not many genes that are solely AP-1 regulated—in other words, AP-1 is not the be all and end all of activation to these genes, if any. It works in concert with other transcription factors. So there are many genes regulated by AP-1, but no gene is regulated only by AP-1.

  And why was it considered a valuable technology for a biotech company?

Why did the company license the technology originally? Because c-Jun is a proto-oncogene that was suspected to be involved in cell proliferation, tumorigenesis, and the stress response. And so after JNK was first described definitively in 1993, the founders of the company saw it as an opportunity for therapeutic modulation.

  Your highly cited 2001 PNAS paper is about the discovery of a compound called SP600125. Now, what does SP600125 stand for?

"SP" stands for Signal Pharmaceuticals, and 600125 was just the compound number in our library. Nothing more.

  What was the observation described in the paper, and why do you think it has been so highly cited?

As a drug discovery company we had set out to look for small molecule inhibitors of JNK. The reason this paper gets cited a lot, or at least one of them, is that this was the very first compound discovered that selectively blocks JNK, and not the other two kinases that are closely related and are frequently co-activated in the same disease models. Those two are p38 and ERK. There had been compounds that inhibited two or more of these kinases, but not JNK alone until our compound. Typically when people are studying inflammation, immune responses, cell proliferation, etc., all of these get activated. And so people could never really work out which of these kinases was responsible for the cell response they were studying. There was a selective inhibitor of p38 available, but really no such thing for JNK or ERK. Our compound could really discriminate between those three. And generally small molecular compounds are much easier to use than peptide- or nucleic acid-based inhibitors. It was originally manufactured in the 1950s as a dye-stuff, so it’s been out there a long time. What we did is identify it as a JNK inhibitor, and so we have a patent for its use as a JNK inhibitor.

  Do you think the paper is cited more because this compound is useful and informative, or more because it’s simply available?

It’s really both. JNK is a really hot area of research. This whole MAP kinase signal transduction is a big area of research, partly because it’s involved in so many of these cell processes. Then along comes this really handy-dandy reagent, which allows you to monitor and measure JNK involvement, so it’s going to get used a lot.

  How does Signal Pharmaceutical profit from this research if you don’t own a composition-of-matter patent and the main use of the compound is for further research?

We don’t profit financially from this compound. For us, as drug people, it’s a proof-of-concept compound. It allows us to really ask the question of whether a small molecule inhibitor of JNK can be an effective therapy.

  And do you have an answer?

The answer is we believe absolutely that’s the case. People have used this compound now in many, many animal models of disease, and they’ve shown that it prevents disease progression or further injury. Our responsibility as a drug company is now to find a drug molecule that has all the physical chemistry properties you want in a drug and is safe for human use.

  One assumes that all these other companies—these people who are citing your paper—are off doing the same thing.

Many companies have gone after JNK. They’ve screened their libraries, had drug optimization programs. Some have been unsuccessful and stopped and moved onto other things. Others have been successful and are pushing on into the clinic.

  What has Signal Pharmaceuticals accomplished in this area in the five years since you published the paper?

Since then we have expanded our drug discovery program, and we have three compounds that are drug candidates. One is in the clinic right now; it has been tested on human subjects.

  For which disease?

I can’t comment on that right now. I can say that it has completed a couple of phase I studies, which are safety studies. That compound number is CC-401, and we actually have two papers published on that compound, although we haven’t disclosed the structure. We are disclosing its efficacy and how it works.

  You’ve written an article recently linking JNK to many of the more common chronic diseases of modern societies. How do you see its role in this big picture of chronic disease?

I think maybe the easiest way to think about it is that JNK is an enzyme found to be highly activated at sites of injury. Therefore you can say that it’s associated with many pathologies or diseases. What we have to do is unravel how causative it is for each of these diseases. So the analogy is that if there’s an incident somewhere and you rush to the scene and find 200 people hanging around, you still have to figure out which one of those 200 people were responsible for it, and which are just bystanders.

  So how do you go about doing that?

I guess definitively it’s when a targeted drug prevents disease. At first you test models of the disease pathology you’re interested in—these can be cell models, animal models, ultimately human clinical trials themselves—with many types of JNK inhibitors. If your compound attains the end point of the study, which is usually going to be a marker of disease or a symptom of disease, then the conclusion is that JNK is driving or causative of that pathology.

  Was there an element of serendipity involved in finding this compound?

I can tell you the story very quickly. We had a screen. We basically had the enzyme and substrate in high-throughput screening plates. We rationally went after compounds that would block the activity of this enzyme. So none of that was serendipity. We got a large number of hits and we sifted through them, which is what you do in this process. "We" means myself and a colleague who is now at Pfizer, Brion Murray, and the chemist who was assigned to this project, Yoshi Satoh. And so we looked at this molecule and said, "What can we do with this?" We had the activity, and that was quite potent, but the structure was not attractive. We each did a number of things, and a key one was to put it in a number of cellular assays, and we found that it behaved just as you would hypothesize a JNK inhibitor would behave. So it blocked the phosphorylation of AP-1, the expression of AP-1 regulated genes, and it did in a dose-dependent manner. This was a good starting point, a proof-of-concept compound that we could use to probe whether JNK is really going to be a drug target or not, whether small molecules that inhibit JNK will behave as a drug. It was a new platform from which we could jump, a really big stepping stone. We had a tool, and we could really go through cell systems and animal models and hypothesize much better what role JNK is playing in disease.

  How far along were you in this process when you decided to publish the paper?

We probably first picked up the compound in 1998, and the paper finally appeared in November 2001.

  Did you feel that this time lag gave you a sufficient head start to stay ahead of the competition?

In fact, it was more a case of finishing the experiments and sitting down to write up the paper. I probably submitted the paper in late 2000. Then it was reviewed. We made changes, etc. We were happy to publish because we didn’t have the composition-of-matter patent on the structure. It was a known compound. It’s just that no one knew it was a JNK inhibitor. One thing that comes out of this is that we learned a lot by getting our tools out to the public and letting the research community, unknowingly, do our research for us. This is really beneficial. We have strategic collaborations, in which we actually hook up with people who have a specific model or research of interest to us, but as a program we have learned an enormous amount by reading papers on research that we never knew was coming. The weight of all that research has been useful to our program to push it forward. It’s a bit like those advertisements that tell you to use the power of the internet to make decisions for you. Here you put a tool out there and everyone takes it up and uses it and publishes their data. I could say that I have, indirectly, several hundred people out there working for me.

  Are you surprised at how frequently this paper has been cited?

In hindsight, no. But I knew people would want this compound. There was no question about that. What I didn’t know was how many people were working in this area. As soon as we published, we got inundated with requests for the compound.End of interview

Brydon Bennett, Ph.D.
Celgene Corporation
San Diego, CA, USA

in-cites, December 2005
 http://www.in-cites.com/papers/BrydonBennett.html


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