Friday, 6 December 2013

A Date with Alan Dove: Writer (Science), Blogger, Podcaster, Eminent Science Philosopher !

UF had this chance today to have Alan Dove, PhD (for those who are unaware of Dr. Dove: http://alandove.com/content/)  with us for a tete-a-tete. Humility, simplicity, utter wisdom rflected from his frail but active and intelligible physical looks in the formals (not to mention- the baggage he had carried straight from airport to the McKnight Brain Institute to deliver  a talk to the UF Academia). Courtesy- Office of the Postdoctoral Affairs [http://postdoc.aa.ufl.edu/] and Assistant Provost and Director of the Office of Postdoctoral Affairs [Ms. Kim M. Kitagawa Pace] that I could capture this once-in-a-life-time opportunity to hear him LIVE !
[Thank you Alan for the Picture available from your Website!]


I was inspired from the circulating Email in the campus, so was prepared, did not get the snaks that was on offer (to keep me attentive), had a bottle of water and  yeah, a small notebook for notes- and grabbed one of the front line seats to have a  better view of him, his words (no mics there!) and his visions. I never heard about his before, but now feel that he is someone one can look up to- and get messages from his wisdom or follow him to do what he has achieved ! But, being a "average Postdoc" with limited dreams, I believe in doing non-conventional things- and then thinking, why not choose to write, advertise, analyze science and scientists than only doing science in a 4 walled office/ laboratory. Thus, the drive to attend his lecture.

In short, the talk was 'damn practical', full of humor, interesting stories and yes,  a BIG Take home message. And, let me first put the strong take home message first: In his words "The world needs more scientists- is a big BULL SHIT".

One of the first PDF screen shots were showing- the 'well-known' "academic pathways" from "birth, to school, to K2, to undergraduate, to PhD, to Postdoc, and Tenure Track, to Asst. Prof. to Professor, to DEATH! And then just about the time, I felt like yawning to this so-many-times-heard simily of academic perills, suddenly he leaves you with his amazing creations and outright humour ! He  says "and recently to this academic pathway, a SHUNT pathway has been hypoethesized, and discovered, and there exists this ALTERNATIVE career, but that too eventually leads to death, but then by-passes the Tenure, Asst. Prof (= the academic fights!)". OMG ! Reality bi(y)tes ! And, at that time, Alternative Careers in Industry was treated somewhat like "bullshit", but then it is norms  and with a steady increase with !20-30's trained doctorates embarking in the Industry business doing research !


Slide: 2: In 1973, after finishing a PhD most (~50-60%) were assured of Tenure Track Positions, and this stats have fallen to as low as 10% only in 2006 (the data based on NSF/ NIH studies), with another 10 % into "out of labor force" (the worse part!), while the %age of Postdocs have risen significantly since them from an odd ~10% to about 40-50% at our times. Alarms- in my head, in many grads in the lecture hall, but truth rings louder, is not it ? He was spot on and hence, convincing with this statistics. In this slide, he reaffirms the fact that in ~early 2000s when we had the NIH funding "doubling", had NO EFFECT on  increase/ rise in TT positions. Hmmm, a fact reflecting saturation in "that are being trained" and "deserving positions for the trained".


The out-of-labor force (the worse situation to face after unsuccessful stints as grad students and myraid of Postdocs!) can be beneficial to the concerned individual in realizing "parenthood" is not it ? This was convincing to some extent. 

In the Alternative Career options I was more convinced about moves to professional Schools as Lawyer (Intellectual property rights- Patent attorneys) or for an MBA for a more demanding industry needs. But then he emphasized that, in "industry as you get promotions, you get less and less into research" is not that obvious ?

He draws attention to the fact that "there are people who are immersed (excelling) in science, but are poor in communication" and he himself, was the opposite prototype and honed his skills to be in there, where he is right now. He, in a nutshell, described, how he started his life in science media after a PhD, followed by a paid internship at New York Office of Nature Biotechnology for the news sections and then moved on.  He did say about his initial NY city shared apartment deals and so on.

The image and dimensions of media has changed from "old to new" where Podcasts, peer review, "Science Fans" (people who are NOT trained in science, but are really really into it: his words!), public relations (journals  and universities have them equally). I would have never know what "science fans" meant until he explained this to us, and that a virology related story being followed by a "long distance trucker" as a science fan.

He then underscores some of his own recent achievements (rather highlights) in  terms of what he has written recently- in Science "Microbiomics: the Germ Theory of Everything", "one of his written piece from New York Academy of Science (Academy eBriefings)", "his writings in "This Week in Virology" and by this he shows us how the "advertiser supported models are more viable in longer runs than the subscriber supported models". An anecdotal example that he cites  is Nature Methods (supported by the industrial partners for maintenance and publishing). His examples, showed, how the modern world of science journalism amalgamates different aspects of an event into one "web-news" (by merging of pictures, write-ups, Podcasts, links, social networking, iTunes, RSS feeds onto one platform) leading to wider and more active audience participation than we had ever before.

Then he quickly says, the "print world of science journalism has moved to the WEB".

Coming to the self-raised question on "how much money' does he make, he explained in terms of "adjusted profit", much smartly, than anyone anticipated in the audience, to come out successful, without answering it directly and still answering it to the smart ones !

He concludes, that he did not have a "formal journalistic training, but now has 15 years of vast experience", but the science journalism now has various forms such as - news and web editors, audio/video producers, PR folks, research editor, staff writer and so on. So, opportunities are ample, but one has to find the suitable one.

Finally, he says, "writing is not art, but a craft" and should be honed gradually with passing time- not to be worried too much about writing skills, abilities and forms in the beginning. He said he loves to work on "1-3 assignments" at a time, but can sometimes painstakingly be 5-7 at a particular point of  time". And to write well, his 'gem of a advice'" "be a loner" (keeps repeating). Also that "self-discipline is required for free-lancing' and one "has to set hours to be able to do writing as a profession in a successful way".

I tried to ask him a question, unsure, that probably, I did not put it in right context/ wordings- "I am tempted to write all the time- but how to determine if what I am writing/ about to write qualifies for a good scientific review, a commentary, a letter to editor (all technical writings), a  blog post, or simply a comment to a bigger scientific article, a popular article or stays forever on my desktop" ? So, I followed it up with the clue- "if the themes rules or the structure is more important than the outcome". His terse reply was "it would be  a blog, as long as none is willign to pay you"- to a muffled laughter from the audience, but I wished he answered me more (I understood the 10s of curious raised up hands for other questions!). But, even that would have been my take-home-message as long as I was trying fit myself in his shoes/ similar profession. But, seems I am not yet ready. Earning by writing ? NAH. I am far from it as of now. But, yes, I do love to write on various aspects of "science, scientists, inventions, discoveries, updates" and so on.

To conclude, I did learn BIG TIME. I did learn about the alternative paths a lot. Especially, when he drew similarity between the "bacterial growth [same media, small population of bacteria grow to a log and then flat curve followed by death" with PIs/ Positions", and then he says, as money is limited, and so are positions, so does not matter how much PhDs and Postdocs we have trained, all are not going to be successful. The competition is tough in the present day and many many are BOUND to MISS OUT from positions and opportunities.   I immediately correlated this to my PhD supervisors statement that "publishing quality is also suffering from this cut-throat competition to find positions". It was a memorable experience with Alan, one that I can cherish for a long time, a true "philosopher" (esp. when he shares a  poignant family pic of his, showing his wife and daughter- that the checks he had been paid were all for his "adjusted profit" and how much is enough for a life?") in his own world, and been able to affect and touch the lives of a diverse number of scientists and a "science fan" like me.

There is a funny note as we were about one in the audience- Sofia (that is how she introduced herself at the meeting) and had noted some questions in a snacks plate ! To this end, Alan cunningly quipped "so you do in fact have  a plateful of questions" ! In fact, the questions were very practical and good ones that were eventually answered.

Owing to hectic Postdoc schedules, I was bound to miss on the following dinner meeting (on offer from UF) or lunch meeting (the next day) with him ! Beyond the meeting, I had to run to my laboratory back, to see my protoplasts are ready to be subjected to mass-spectrometry analyses or not ! But, i swear, I would again be in his audience sooner and would not miss that chance again for a one-to-one exchange of ideas in order to learn more on my shunt-pathway of life.

Note: Sorry Alan, if I have misquoted you anywhere, or have lingual/ spell mistakes. But, it is all in good spirits, that I have tried to summarize what I could gather during the talk, and re-write them the next day, based on the small notes I had taken and some unforgettable memories and mental-images".


Thursday, 26 January 2012

The Genome Lost It's Organelle: Lynn Margulis (1938–2011): In Fond Memories of 1 Of My Idols !

Well...Not a New News, but Enough Dreadful ! Remorseful, as always...these great losses to science are !

Cut2: Back in the Summer of 69...well, in 2003, during 1sy Year's of Master's in Botany, while going through the "Biochemistry by Stryer" or one of those classical books, I came across this name for the first time in life.

"Lynn Margulis"


Why ? Simple...1st person on this earth to concieve the greatest, "our organelles like mitchondria and plastids were free living prokaryotes out-side eukaryotic cells, and during course of evolution have been integrated to us, symbiotically"...and what was famouly known as "Margulis" hypothesis/ Endosymbiotic Thoery ! Awesome.


ENDOSYMBIOTIC THEORY


I felt, shattered, when I read the hypothesis ! Why ? Because, I felt, why this did not strike to any one, until she did it, not all those Biology greats, not to my Professor, or for that matter me !

And thats what most commoners like us, miss out and specials make it even more special, their ways !

And then with her sad demise, was again shattered [this time to more profound effective loss!].

Always used to ponder, to go for the Sigma Awards that is named after her, and in a life time may be see/ meet/ Email her, but not to be, missed out !





And since that day, I was one of her zillion admirers in the sciencitific world.

Why ?

To Quote her: "“If an organelle originated as a free-living cell, it is possible that naturally occurring counterparts still can be found among extant organisms".


Please find more: http://www.nature.com/nature/journal/v480/n7378/full/480458a.html [Nature's Own Dedication]...
And for the Naive's in Science: http://en.wikipedia.org/wiki/Lynn_Margulis [Guess, no BlackOut this time !]

And yes, also here: Schaechter, M. (2012). "Lynn Margulis (1938-2011)". Science 335 (6066): 302.

HAT'S OFF



For those, who like it with a bit of spice, once she said she does it: “tell bullshit from ... real authentic experience”, and imagine a Professor in Geosciences, untrained in molecular sciences, giving this once-unacceptable "so-called" "radical" hypothesis.


Ok ...then.....dear fellow-scientists,

Have to go off to hypothesize, something more "sense-making",  well and  a very simple hypothesis.................."Will me proteins denature if I donot store them in glycerol tonight ! Or, go back and start working tomorrow ?"..Awesome ! Lolz!


Catch ya, soon after I get my answers to the "hypothesis".

Ur Science-O-Nomist !












Raise a Toast in 3-Dimension for "Ankylography": New Kid on The Block !

Hello...

Well, for those who are caught unaware of Prof. John Miao, a physicist at the University of California, Los
Angeles, must take a note of "ankylography". Not a revolution in image science, but a method, to "pull out a rabbit in 3D, from a 2D Image of a Hat".

Yes, those of you get it right ! A technique that, according to its creators, could reveal the
structure of scientifically important subjects such as complex proteins that can be glimpsed only once before they are destroyed by the high-powered lasers used to image them.

Raines et al.  have proposed ‘ankylography’ as a three-dimensional tomographic modality with a single monochromatic beam.

For those, who are "dealing in depths", please follow here:

Non-uniqueness and instability of ‘ankylography’: http://www.nature.com/nature/journal/v480/n7375/full/nature10635.html

and here:


Fundamental limits of ‘ankylography’ due to dimensional deficiency: http://www.nature.com/nature/journal/v480/n7375/full/nature10634.html

Raines et al propose a method, which they call ‘ankylography’, for three-dimensional structure determination using single-shot diffractive imaging (SSDI).

and here as well ! http://arxiv.org/ftp/arxiv/papers/1112/1112.4459.pdf


"Ankylography is definitely an emergent advantage for X-ray technology called diffract and
destroy, which would use X-ray lasers.......take images of objects using a dose of radiation high enough to destroy them, forming an image from the X-rays scattered in the few dozen femto-seconds (10−15 seconds)
before the object explodes !!! The ideal application would be imaging biological samples such as proteins, viruses, cells or tissue that are very sensitive to radiation. Ankylography would allow researchers to extrapolate 3D structures."


 Am no Crystallography-Geek, but still can tell, it would help science, than those who think, otherwise. I am UP for anything, that grows ! Always, positive and to embrace newer technologies included into the mainstream science, without any double thoughts, as tools help grow our ideas with fresh Angles !

Well, and I would not mind loosing the structure of my "pullulanase" burning into pieces, after it's 3D has been exposed ! Huh !


Ok...That's it for now !

Got to stop a few running tools to rest and pack-up for the day !

Your science-feeder, gotcha feed himself !

Science-O-Nomist
















Tuesday, 10 January 2012

Indian science in need of overhaul...BUT, BUT, BUT !!!

Hello,
Back to Bog you !
Came across this story [most of you must have been!]:http://www.nature.com/news/indian-science-in-need-of-overhaul-1.9750
Indian Science in Need of Overhaul !
Question is: How ?
Points to Ponder:
1. Funding of whole R & D of the country is 1/3rd of what and USA University's Good Biological Sciences Laboratory gets.
2. Do our PM/ Politicians/ Establishment have enough time, resource thought for any Improvisations in the Scheme [with Annaji, 3G, Kolaveri, Scams lurking around !].
3. When will the agencies STOP FUNDING for projects like "Exploration of effect of Silicon on Rice yield" or "Biodiversity explorations in Similipal Forests"!
4. Until when our InBred Indian Post Docs will be keeping paid: INR 18-25,000 PM ?
5. When will our Publications not be evaluated by Impact Factor but by real IMPACT ?
6. When the Bosses will grow up, not promote wrong deeds, produce TOILET papers ?
7. What does CSIR/DBT/DST/INSA/ISC do to bring the TRAINED INDIAN back home ?
8. When will the B. Tech [Biotechnology] NOT BE OFFERED with a IT Sector JOB or an M.Sc. [Biology] looks for a BANKING PO/CA/RAILWAYS Job ?
9. When will the PARENTS/ PEERS STOP thinking that POST-DOC is NOT STUDYING and also is not a PERMANENT JOB ?
10. When will the NORMS / GUIDELINES be established for a COMMON CRITERIA for PH.D. ENTRANCE/ TIME FRAME FOR IT'S COMPLETION ?
11. When will the PI/ STUDENTS NOT WASTE CONTIGENCY in FLYING TICKETS/ LAVISH STAYS-DINNERS/ HARD DISKS-PENDRIVES ?
12. When will the CENTRALIZED UNIFIED RESEARCH INSTITUTIONS come into a single umbrella for collborative research ?
13. When will CONTACTS/ BUDDIES/ COUSINS of SCIENTISTS will STOP getting the coveted JOBS/ OFFERS from their own relatives ?
14. Above all how to discard BIAS IN SELECTION [REGIONALISM, Q-FACTOR etc.].
Any ANSWERS ? NO- RIGHT !
So we stop BOTHERING !
Time to grab BREAKFAST and be prepared for a Day's bench Work !
Catch ya soon,
Science-O-Nomist

Tuesday, 3 January 2012

miniSOG: From the Hauz of Nobel Laureate Roger Tsien who Gave GFP !!

Well, back to square one !

Geniuses cannot stop!

Nobel Laureate Roger Tsien who gave us the tag GFP [green florescent protein] has come up with yet another modified and improved verion of it !

It's now named as “miniSOG” (for mini Singlet Oxygen Generator), ~ half the size of GFP, binds to a suite of  proteins, and can faithfully tag a variety of cells in different organisms !

Read it here:

X. Shu, et al., “A genetically encoded tag for correlated light and electron microscopy of intact cells, tissues, and organisms,” PLoS Biology, 9:e1001041, 2011. Free F1000 Evaluation


Time to grab  a Lunch now !

Catch you sooner with yet-another Gem!


Your

Science-O-Nomist

Saturday, 24 December 2011

Publications in 2011


Well the Image, tells the "story" !

Published by Nature, this week, [Title: 365 days: 2011 in review; Link: http://www.nature.com/news/365-days-2011-in-review-1.9684] , this says the following Equations: Just a rough overview:

Publication Number-wise:

USA x 2 = China
China = India x 6
Japan = India x 1.5
UK = Germany= India x 2
India = South Korea = Australia
India= Singapore x 4 [Best scientific Hub in East ?]
India= Malaysia x 6 [Am presently here !!!]


Thus, compared to 2010, India has achieved a 10 % growth in scientific publications, which is the same as of Spain, Korea etc. While the growth is just 5 % in USA and UK [a decline ?]. Unsurprisingly, China registers a 15 % growth ! and Iran, with all issues around, still 20 % growth !!
Food for thought ? But certainly, doe snot reflect on the quality [my freinds would be glad to add on the Cumulative Impact Factor and then measure if India stands, even there or the decline in UK/USA are significant at all, and if Chinese declaration in R and D are really elephantine !].

Science-O-Nomist goes to grab a snack !

Catch ya all soon !