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The Life Scientists: Maureen posted a link
Cancer drug cures Type 1 diabetes in mice: Scientific American Blog
17 hours ago - via Bookmarklet - Link
"A new study shows that the cancer drugs imatinib (also known as Gleevac by Novartis) and sunitinib (Sutent, made by Pfizer) halt diabetes in mice." - Maureen via Bookmarklet
It seems more like prevention to be honest - a stay of execution for the remaining beta cells if the autoimmune problem can be held back, but I'm not sure what it can do once most of the beta cells are destroyed. Of course it might open the way for replenishment (transplantation or recovery of beta cells from precursors)... not sure. Interesting though! (Disclaimer: Just my ideas, not necessarily that of my employer's) :-) - Jo Brodie
Yes, the claim for "halting diabetes" will have to be examined. It'll be good to see the actual PNAS article...this was a press splash before publication. - Maureen
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Maureen posted a link
USGS Earthquake Hazards Program: Earthquake Report
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location of quake - Maureen via Bookmarklet
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Maureen posted a link
Latest Earthquakes in the World - Past 7 days
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7.5 magnitude quake in Indonesia - Maureen via Bookmarklet
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Change.gov
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Love the online presence - Maureen via Bookmarklet
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Pedro Beltrao posted an entry on Public Rambling
Open Science - just do it
November 12 at 4:46 pm - Link
Pedro, I want to buy your supervisor a beer/coffee/beverage of choice. Kudos all round! - Bill Hooker
3 more comments
interesting. More details please! Also have a look at FANCL, the E3 of the enigmatic (and fascinating) Fanconi pathway. I've been looking for a project to do in the open with a collaborating lab. Maybe we could find a mutual interest. Let me know what you think. - Maureen
Pedro, is this you? http://tinyurl.com/65m8fr - Maureen
Yes, that is me Maureen. Thanks for the suggestion, maybe when I have something set up I might try to look at FANCL. - Pedro Beltrao
Awesome stuff pedro... I never get time to be open with my science..but the desire is always there - Hari
very nice - Jean-Claude Bradley
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Jon Udell posted a message on Twitter
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Maureen shared an item on Google Reader
Judge throws out charges against nude bicyclist, saying it has become a Portland tradition
November 12 at 9:33 pm - Link
you've got to love Portland.... - Maureen
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The Life Scientists: Maureen posted a message
“I'm considering setting up a facebook page for our Biochemistry Dept as a recruiting tool. Any other ideas?”
November 11 at 9:37 am - Link
Why not LinkedIn? - Paulo Nuin
14 more comments
Sure, post to the BioJobs room: http://friendfeed.com/rooms/bi... - Chris Lasher
+1 LinkedIn, NatureNetwork, NatureJobs - Pierre
Yes, good idea too. Both have advantages. I was thinking FB because I can imagine posting movies of labs and dept. Seems like an easier interface than LI for posting/linking. - Maureen
What is the incentive for anyone to add it, and how would it reach the people you're trying to reach? - Donnie Berkholz
Thanks for mentioning Nature Jobs/NN, Pierre. Maureen, the NatureJobs (what was called classified) basic ad is free and they get a lot of traffic. At Nature Network the Nature Jobs team has a careers forum but it is more for general careers advice and discussion, rather than for specific jobs. - Maxine
PS I am not sure how many active biochemists seeking jobs are using FB ;-0) - Maxine
Thanks for many helpful comments. The idea is to recruit students via a mechanism that gives information as well as a more complete sense of the departmental faculty. I think students might prefer FB (if it is done right) to the stiff old typical faculty pages. I figure students will google us when they are looking for a graduate school. Faculty would have an incentive to add to it to attract students. - Maureen
Personally, I wouldn't take any job I saw on Facebook as serious. LinkedIn and the usual scicen job sites have a more professional feel and status. - Paul Bacchus
So this is to recruit students, as opposed to staff, hence use of FB rather than LinkedIn - Neil Saunders
What about http://www.biomedexperts.com/ ? - Shameer Khader
Wherever you set it up, please share the link. There are always interested folks lurking around on FF *wink*wink* - Ricardo Vidal
What about http://www.biocrowd.com - cliff mintz
@Neil, yeah, for students. I guess I shoulda mentioned that at the outset. @cliff: looked into biocrowd but had to sign up and then nothing happened so far (8 hrs ago). @KS, forgot about biomedexperts. Seems like a good idea but somehow I always find it awkward to get into and use. Plus the stuff they have on me is not a very good summary. The network maps are cool though. - Maureen
The key in setting up FB for the biochem faculty is getting them to use it. One would think that something easy/fun to maintain would be appealing compared to the absurdly out of date, web-master controlled faculty web pages. - Maureen
@maureen sorry about the confusion. We are in alpha testing right now. Should be open for beta in a couple of week. I invite you to post in the beta stage. - cliff mintz
@cliff, OK I will revisit. - Maureen
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The Life Scientists: Neil Saunders posted a message
“Are wikis common?”
November 10 at 4:05 pm - Link
Our head of school asked me "are wikis common?" I said it was hard for me to be objective ;-) Assuming that he meant "in an academic life science research setting", what do you think? Do your lab, or labs that you know, routinely use wikis? Are the biologists that you know aware of them? - Neil Saunders
22 more comments
to most non-techie people I know, wiki = wikipedia... - Andrew Su
I would say uncommon but becoming more widely used and fairly widely known in some specific settings. Fairly alien in experimental biology but well established and known as you move more towards computational biology? - Cameron Neylon
In my academic experience, wikis are well known but not always common. My department has a student wiki, my lab has a wiki (for posting tips, etc), and a bunch of classes I have taken have used wikis. But they all tend to get only sporadic participation. Research-wise, there are lots of wikis for annotating genes/structures like WikiGenes and TOPSAN but again, sporadic participation. - Shirley Wu
Perhaps more accurately, wikis are common but not commonly used (in the sense of both passive browsing and active participation, though more so for the latter) - Shirley Wu
In corporate environments, HEAVILY used, pretty much everywhere I have worked - Deepak
Deepak, I'm a bit surprised and interested. Heavily and *successfully* used? In my neck of the corporate woods, several wiki-like initiatives, none of which really have gotten to critical mass... (Even within my computational group, 90% me, 10% other group members) - Andrew Su
Every place I've worked developers have used wikis for every project and that's been the place of record and where they capture all their discussions. At current place place to go for all kinds of stuff is Wikis including tips and tricks for your iphone on the corporate network etc etc. In all cases wikis existed before I got there. Outside of dev, most life science places no usage. - Deepak
My experience is similar to Shirley's. In academia the _existence_ of wikis is not uncommon, but the participation is limited and sporadic. I've tried to promote a lab wiki on two occasions (two different labs, one for protocols/info and one for shared data), and twice I'd say I failed to get any decent participation ... not really sure if it was my ability to rouse contributors that was at fault, or something else. - Andrew Perry
Our group has a wiki and it's very difficult to encourage participation, so I don't think it's your people skills at fault :) It only keeps going because the boss is enthusiastic and relentless with a carrot/stick approach; e.g. contributions are a factor in handing out travel money. - Neil Saunders
We have a wiki and works great. Is not updated everyday, but people in the lab post announcements as they need (lab meeting changes, new emails, etc.). We are the only ones in the department with a wiki, though. - Pepe JG
I know a several major labs that use wikis for at least 6 years. Ours is used by the whole institute. The usual rules of participation (90/9/1) do apply but wikis are nothing special in this regard. - Roland Krause
I think we're on our third incarnation of various bits of wiki software, and we've finally hit on the right software for both our wet lab and bioinformaticians. Sometimes it's just finding the software everyone likes, and then it just works. But it was a long road to get people using it! It's Dan's favorite, DokuWiki - Allyson Lister
Ally, my favourite too. - Neil Saunders
We have a wiki in our lab, too, and although it had a hard time to get off the ground, it is now being used on an almost daily basis in both ways, as people use it to structure their ideas and experiments and to digest the literature. No other wikis in this department (psychiatry), as far as I know. - Daniel Mietchen
Another thing: Citizendium has an initiative by which students can get credit for writing articles on their wiki: http://en.citizendium.org/wiki... . Given that writing a well-structured "encyclopedic" entry on a subject is a great way to learn about it, this initiative may really have promise. - Daniel Mietchen
There's at least three run out of this corner of the building (in Biochemistry @ UCL) -- all using different platforms naturally (Doku seems nicest) -- but outside of the bioinformatics and IT people I don't know how well known they are... - Andrew Clegg
In my experience - no. I don't know anyone that uses a wiki; and like Andrew said, I think most people think "wiki" is short for wikipedia. - Paul Bacchus
So why do developers feel that collaboration is good and others don't? I learnt how to get into our corp firewall from my personal mac, cause there was an internal wiki on it and many such subjects, not just work related, so why not other folk? I can think of syntax being one. What about others? - Deepak
Our student Web site is a wiki. It was absurdly easy to set up. Our cyberinfrastructure group here uses a wiki, too, and it works well for information pushing. - Timothy Driscoll via Alert Thingy
My lab uses OWW wiki. Crucial organizational and communication platform in my opinion. - Maureen
Hey Neil. Tell our head of school that my lab book for the last year and a half has been a wiki ;-) - Mitchell J Stanton-Cook
Agree with Deepak - at NPG we use wikis for all technical, editorial and publishing projects, sharing info (eg meeting reports), scheduling, everything you can think of. Heavily used tools - esp as we are distributed over so many offices. In my experience of talking to scientists, most do not use them or don't know what they are (apart from, as mentioned above, Wikipedia - some of them have heard of that;-), and the more tecchy ones such as those on FF ). - Maxine
Sure. Our lab wiki is at biowiki.org, and most consortia that I've worked in use wikis (e.g. ENCODE, modENCODE, 12-Drosophila comparative genomics). I don't know what baseline people are using in terms of contributions, but I would say it's considerably easier to get people to edit a wiki than a barebones HTML site. Of course, if wikipedia is your baseline, then all other wikis are abject failures. - Ian Holmes
Isn't defining something as a WIki just saying something is a group project? - sofarsoshawn
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Maureen posted a message
“Times square at 8:20 est”
Times square at 8:20 est
November 4 at 6:22 pm - via mail2ff - Link
Sent from ZaZen - Maureen via mail2ff
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Maureen posted a message
“Walking back from the Met through central park”
Walking back from the Met through central park
November 4 at 2:16 pm - via mail2ff - Link
Sent from ZaZen - Maureen via mail2ff
*is envious* I've only spent a few days in NY, but I liked it a lot. - Bill Hooker
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Ricardo Vidal posted a message on Twitter
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Maureen posted a link
Knights to give $100 million to OHSU Cancer Institute
October 30 at 10:31 am - via Bookmarklet - Link
Fantastic. - Maureen via Bookmarklet
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Recomb-Sat/DREAM 08: Roland Krause posted a message
“Keynote: Pamela Silver”
October 29 at 2:35 pm - Link
Is biology better than engineering? Biology is sensitive, send/receive signals, modularity, easy duplication - Roland Krause
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Can we make biology easier to engineer? Easy DNA synthesis Sequenced genomes Internet resources Computer chip design vs biological design - Roland Krause
Memory as an auto-feedback loop Synthetic autofeedback loops A makes B - Roland Krause
http://de.youtube.com/watch?v=... - Roland Krause
Pubmed being down now? - Roland Krause
Read Ajo-Frankln et al. 2007 - Roland Krause
Tuning a system with proteins and miRNA - Roland Krause
Posttranslational system design Oscillations in single cells Transcriptional bursts Mathematical simulation Swinburne et al 2008 - Roland Krause
Bioenergy (trying to save the world) Photosynthetic efficiency potential of microbes Making hydrogen (despite Sydney Brenner failing at it 30 years ago) A microbial solar cell - Synechococcus elongates - Roland Krause
Photosynthesis review - Roland Krause
Test combination of ferredoxin and hydrogenase (Photosystem I) from different organisms, ongoing work. - Roland Krause
Bioenergy certainly in its infancy but interesting project. Nice, biological opening key note. - Roland Krause
Question: What scale would be required? Answer: "I cannot give you a clear cut answer, but feasible". ( according to discussions with local experts". - Roland Krause
PS. I forgot to include the stress on the significance of learning about the components by using them. - Roland Krause
pam silver is how I found out about oww - Maureen
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Deepak commented on a blog post on Backtype
Desperately Seeking Enterprise Software for Macs
October 26 at 4:28 pm - Link
"I use a mac (officially sanctioned) at work. There are only a few times I envy my PC using colleagues and that's the functionality they have with Outlook. Nothing on my Mac gives me that kind of functionality. Sure I can hack up alternatives using a mix of apps, but it's not the same experience." - Deepak
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What about entourage? - Maureen
Entourage sucks bit toes. That's what I am using since it's got a couple of things I need which mail doesn't have. - Deepak
Parallels to run Outlook natively? - Michael Kuhn
That's always an option. Still, there is an Office for Mac which isn't too bad, so why can't there be an Outlook? There are a lot of macs at work, but we are told up front that if you do heavy calendaring, don't switch - Deepak
Steve Ballmer sez: "Well, you don't really get full Microsoft Office." http://www.pcmag.com/article2/... - Michael Kuhn
@Deepak, the missing apps on Mac are a pain. I'm still trailing sync issues from trying use Palm on Mac ages ago, just one example of what you end up with by using a mix of apps. It is astonishing that Mac doesn't have something. Meanwhile, I'm limping along with Entourage but it is weak, even the new version. - Maureen
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Maureen bookmarked a page on delicious
Understanding how the replisome works : Abstract : Nature Structural & Molecular Biology
October 26 at 3:21 pm - Link
Nature Structural & Molecular Biology - Maureen
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Maureen bookmarked a page on delicious
ScienceDirect - Progress in Nucleic Acid Research and Molecular Biology : The PCNA–RFC Families of DNA Clamps and Clamp Loaders
October 26 at 11:54 am - Link
Progress in Nucleic Acid Research and Molecular Biology - Maureen
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Maureen posted a link
MOO.com |
October 26 at 7:40 am - via Bookmarklet - Link
just found out about making these little business cards from flickr images. Saw some in real life yesterday..they look good. - Maureen via Bookmarklet
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Deepak posted a message
“Has anyone else seen this in the NY Times. Highlighting a word/phrase brings up a "?" and clicking on that brings up a knowledgebase”
Has anyone else seen this in the NY Times. Highlighting a word/phrase brings up a "?" and clicking on that brings up a knowledgebase
 Show all
October 25 at 6:21 pm - Link
Never knew that, very nice. - Maureen
3 more comments
No, but I know you can click on a word and it pops up a definition window. Unless this is the "new" definition feature - zoblue (Zulema)
Previously, double-clicking to highlight a word would create a pop-up window that contained the definition from dictionary.com (I believe). - Chris Lasher
Hopefully though if you're reading the NY Times online then you know what a personal computer is :) - Lindsey
Lindsey ... lol - Deepak
hehe - when I looked at it I thought it meant that it didn't recognise the phrase. Yes, I do need more sleep. Thanks for asking. - WorldofHiglet
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The Life Scientists: Maureen posted a link
MIPS Lectures
October 24 at 3:08 pm - via Bookmarklet - Link
Molecular imaging lectures, including nanotech from Sam Gambhir at Stanford. - Maureen via Bookmarklet
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The Life Scientists: Maureen posted a message
“I'm bummed that new macbookpro only comes in 15in. Hoped for smaller 12 inch again. Also, I know this is a shallow thought considering widespread economic pain.”
October 17 at 8:44 pm - Link
Well the new silver 13" is essentially just that. Isn't it? - Deepak
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the difference between Pro and non-Pro isn't abismal. Mainly graphics and some performance, nothing out of this world. - Paulo Nuin
Yes, maybe the 13"MB is fine. I should test drive. - Maureen
Definitely, the aluminium 13' MB is the new 12' Powerbook, I want one, it's so much better than the 15' MBP which looks clunky compared to the MB. I was totally surprised when I saw it in real, never thought I'd prefer the MB over the MBP. I'm waiting for the new displays to ship and I'll get my MB, the price difference with the MBP almost pays for the new display ;-) - Alexander Griekspoor
My 12" PB has heat sink problems with prolonged use but apparently these disappeared with the original 13" MB so I can see why they went that way. The new 13" MB looked pretty good in the store save for the lack of firewire - Sally Church
The MacBook Air is the best truly portable in the current Apple line up. Even for what people consider "heavy" use -- things like Photoshop et al. -- it does fine. It's not the best choice if it is to be your only machine, but it is way better than lugging around one of the MacBook Pros. They actually got *heavier* in this iteration... - Todd Harris
Maureen, I'm also in the market for a new laptop and considering making the switch. However, not sure if I'll go for the 13" MB or the 15" MBP. I like the smaller size, but the Pro packs a punch. - Ricardo Vidal
Looking seriously at the 13" - anyone got any juice on what the real battery life is likely to be like? - Cameron Neylon
Until Apple decides to offer matte displays again, I won't buy a new Apple notebook. Maybe it is just me, but I simply cannot get over the annoyance of glossy displays. - Daniel Jurczak
There's a pretty good review here which suggests battery life is actually pretty good http://www.reghardware.co.uk/2... And Daniel - I agree, I'm also a glossy hater, but I suspect in the future there just won't be much choice at all.. - Daniel Swan
I hate glossy too. Ricardo, I usually find if I don't buy the top model I regret it. example: oh I'll *never* fill up a 30GB hard drive (it seemed like a reasonable thing to say at the time). The 12"pro has just worked so well, even if it does turn into a frying pan. - Maureen
There's a nonglossy display in my ThinkPad T61, and I just bought it this spring. They're solid machines if you can stand to run something besides OS X. I have Linux on mine. - Donnie Berkholz
Beware of Firewire, though. The new MBs don't have it anymore. Tough luck if you have two external drives or a digital camcorder. - dekay
@dekay, that's the main thing bugging me about the MB. - Maureen
I spent an hour playing with them in an Apple store yesterday. Need a new laptop for one of my colleagues whose old 15" is now over 5 yo and dying. The new MBP gets very hot. The 2.4GHz MB's also get hot. He has heat sensitivity in his hands so it looks like the 2GHz MB will do, except the lack of Firewire is a major problem. Can you get USB to FW adaptors? - Sally Church
Apparently so, Sally: http://www.google.com/search?c... - Richard P Grant
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Maureen posted a link
Shouts & Murmurs: Undecided: Humor: The New Yorker
October 23 at 11:50 am - via Bookmarklet - Link
Sedaris on undecided voters: "I look at these people and can’t quite believe that they exist. Are they professional actors? I wonder. Or are they simply laymen who want a lot of attention? To put them in perspective, I think of being on an airplane. The flight attendant comes down the aisle with her food cart and, eventually, parks it beside my seat. “Can I interest you in the chicken?” she asks. “Or would you prefer the platter of shit with bits of broken glass in it?” To be undecided in this election is to pause for a moment and then ask how the chicken is cooked." - Maureen via Bookmarklet
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Maureen posted a link
Larry David: Waiting for Nov. 4th
October 23 at 11:45 am - via Bookmarklet - Link
pulled quote: "The one concession I've made to maintain some form of sanity is that I've taken to censoring my news, just like the old Soviet Union. The citizenry (me) only gets to read and listen to what I deem appropriate for its health and well-being." - Maureen via Bookmarklet
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Maureen posted a message
“Best sticker I've seen in a long time”
Best sticker I've seen in a long time
October 22 at 9:26 am - via mail2ff - Link
Sent from ZaZen - Maureen via mail2ff
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The Life Scientists: Maureen posted a link
On The Trail Of A Targeted Therapy For Blood Cancers
October 22 at 7:49 am - via Bookmarklet - Link
"Our work is the first to show an effect in all blood cells and establishes that Cul4A is essential for the survival of blood cells and possibly other cells including cells of the intestine. It's still early in the scientific process but we know this protein is involved in many cellular pathways in the body. If we can learn about the pathway this protein takes, we may be able to develop targeted drug therapies that are better at attacking diseased blood cells and avoiding healthy ones," said Dr. Chun, who is a member of the IU Melvin and Bren Simon Cancer Center. - Maureen via Bookmarklet
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The Life Scientists: Maureen posted a link
FANCI phosphorylation functions as a molecular swi...[Nat Struct Mol Biol. 2008] - PubMed Result
October 22 at 7:43 am - via Bookmarklet - Link
More advances in getting at the mechanism of this mysterious cancer susceptibility pathway - Maureen via Bookmarklet
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Maureen shared an item on Google Reader
Novel evidences for a tumor suppressor role of Rev3, the catalytic subunit of Pol ζ
October 18 at 12:10 pm - Link
Weird, I just did a search on FF to see if anyone had posted any links on tumour suppressor genes and missed this one on Sat. - Sally Church
Yes, interesting because zeta is involved in extension step to repair DNA with a specific kind of damage (interstrand crosslinks, ICLs). "Cell. 2008 Sep 19;134(6):969-80. I work on Fanconi/Brca proteins which are also thought to have a role in handling ICLs. - Maureen
More about Fanconi/tumor supressors. Nat Rev Genet. 2007 Oct;8(10):735-48.Emergence of a DNA-damage response network consisting of Fanconi anaemia and BRCA proteins. - Maureen
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Maureen shared an item on Google Reader
Home Sweet Office: Telecommute Good for Business, Employees, and Planet
October 18 at 11:02 pm - Link
so true. - Maureen
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Ricardo Vidal posted a message on Twitter
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The Life Scientists: Ntino posted a link
Science Suffers When Getting a Grant Becomes the Goal - Chronicle.com
October 15 at 8:25 am - via Bookmarklet - Link
Only too true... - Björn Brembs
17 more comments
Seconded - Rajarshi Guha
The unfortunate truth. Getting grants has become an art and almost a full time occupation. The brains of senior scientists are lost into paperwork and time consuming tasks that in the end do little for the advancement of science - Mounir Errami
Even junior scientists - and I'd say that the stress is even higher for them - Rajarshi Guha
as clarification, the author was commenting on the encouragement for innovative science (or lack thereof) by the granting agencies, and not directly on the perpetual state of grant writing by many PIs. Clearly both are interesting issues. As a counterpoint to Mounir's point though, I often find that grant writing is *useful* as a reason to step out of the day-to-day management role and think about bigger picture science. - Andrew Su
Fund raising is all I do. Because of the enormous increase in grant-writing, everything else suffers: mentoring, innovation, experiments, teaching, and discovery. University expectations are still predicated on the formula that PIs cover only 20% of their salaries. Those days are long gone, yet the obligations for teaching and other uncompensated work are increasing. It is all about the money. - Maureen
Can t agree more, but who is going to bell the cat? - Aarthy
Strength in numbers would bell the cat....Scientists need a union and a lobby. - Maureen
Argh, no unions. Where there is a need there is an opportunity. That's what we should be focusing on. Disclaimer: I never think unions are a good idea - Deepak
I don't see how scientists are going to push back on the system that is happily squishing them, unless they can organize enough to lobby. (What good would a union do? Who'd care if all the scientists in the world went on strike for as long as they could last without salary -- about one pay period in most cases -- or even for a year?) - Bill Hooker
Scientists are not alone in existing in a system that is happily squishing them (if that is what they think is happening to them), unfortunately. - Maxine
And we all know how to get rid of oppressive regimes :-) - Björn Brembs
Not by joining Living Marxism I trust ;-) - Maxine
Might have to blog on this one, since Australian grant outcomes were just announced. My boss, a successful and respected scientist about as high on the career ladder as you can go uttered the words "it's really just become a lottery" the other day. Not inspiring! - Neil Saunders
Some of you might be interested in the official Australian outcome statistics: http://www.arc.gov.au/ncgp/dp/.... The downward trend in success rates 2005-2009 is especially depressing. - Neil Saunders
Union/lobby whatever you call it, scientists need to find a voice that the public hears. What if "Joe Scientist" talked about being squished and what that will mean to future cancer patients for example? Maybe I'm too optimistic, but I think the public would care and it would ultimately translate into better funding. - Maureen
I'm just cranky because I'm gearing up to write grants. Haruuumph. - Maureen
ah, the sweet smell of barricades burning in the morning :-) - Björn Brembs
Given that the lottery aspect of grant awarding mechanism seems to have become more palpable over recent years, is anyone here aware of any serious attempts to introduce random measures into the game? That would be fairly cheap and easy to implement, and along with strict rules on abuse of the funding thus provided, could be a way to support big picture science instead of paperwork. - Daniel Mietchen
FWIW, I have mentioned this idea to a guy from the NSF I know and he vowed to establish a grant lottery. - Björn Brembs
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