• Tips gratefully accepted here. Thanks!:

  • Recent Comments

    CeeBee on Harris
    lililam on Here’s the plan, Nancy
    Ivory Bill Woodpecke… on Here’s the plan, Nancy
    HerstoryRepeating on Here’s the plan, Nancy
    Ga6thDem on Here’s the plan, Nancy
    Ivory Bill Woodpecke… on Here’s the plan, Nancy
    lililam on Here’s the plan, Nancy
    riverdaughter on Here’s the plan, Nancy
    Ga6thDem on Here’s the plan, Nancy
    riverdaughter on Here’s the plan, Nancy
    William on Here’s the plan, Nancy
    Kathleen A Wynne on Everyone can read his thought…
    William on Everyone can read his thought…
    Ivory Bill Woodpecke… on When will I get the Covid-19…
    William on Harris
  • Categories


  • Tags

    abortion Add new tag Afghanistan Al Franken Anglachel Atrios bankers Barack Obama Bernie Sanders big pharma Bill Clinton cocktails Conflucians Say Dailykos Democratic Party Democrats Digby DNC Donald Trump Donna Brazile Economy Elizabeth Warren feminism Florida Fox News General Glenn Beck Glenn Greenwald Goldman Sachs health care Health Care Reform Hillary Clinton Howard Dean John Edwards John McCain Jon Corzine Karl Rove Matt Taibbi Media medicare Michelle Obama Michigan misogyny Mitt Romney Morning Edition Morning News Links Nancy Pelosi New Jersey news NO WE WON'T Obama Obamacare OccupyWallStreet occupy wall street Open thread Paul Krugman Politics Presidential Election 2008 PUMA racism Republicans research Sarah Palin sexism Single Payer snark Social Security Supreme Court Terry Gross Texas Tim Geithner unemployment Wall Street WikiLeaks women
  • Archives

  • History

    August 2020
    S M T W T F S
     1
    2345678
    9101112131415
    16171819202122
    23242526272829
    3031  
  • RSS Paul Krugman: Conscience of a Liberal

  • The Confluence

    The Confluence

  • RSS Suburban Guerrilla

  • RSS Ian Welsh

    • The Left Wing “Shit Sandwich” Dilemma
      Kamala Harris and Joe Biden each have terrible records. There is no reason to believe they will do much that is good, and every reason to believe they will do much that is bad. Trump will, at least for Americans, probably be even worse. (It is less clear he will be better for foreigners.) The […]
  • Top Posts

More Whineter, STEM and being a dick with peppers

It’s March already. Why is it still snowing? Why is it 15º outside?? The other day, it rained and melted some of the snow. The sump pump was going off every 90 seconds. I timed it. I started to see the ground. This morning, I woke up and there’s another layer of snow out there. WTF?? I have about a cup of rock salt left and there’s none to be had for miles. It’s too much. Make it stooooop.

********************************

In other news, PA Governor Tom Wolf visited a school in Chester yesterday to find out about its STEM programs.

Ok, I know Wolf didn’t ask for my opinion but when has that ever stopped me from giving it? (There’s a proposal at the end of this little rant so stay with me.) Here it goes:

There’s no living wage in STEM jobs. Even the people who have good jobs are constantly worried about losing them. They’re forced to move to very expensive parts of the country and can never relax. The fear of losing a job just after they might have already lost one is not a good way to live. This happened recently to people I used to work with who were transferred to Massachusetts after the layoff, and then lost their jobs- again.

Jumping from job to job after a short period of time means people in pharma and biotech R&D will not achieve the degree of experience that they need to be really good at their jobs. It takes a long time for R&D professionals to gain enough experience to be really useful to their company. That means starting and staying with a project over a long period of time, like, 5-6 years. At that point in time, they will have just about enough seasoning to be useful to the company and laying them off is a tragic waste of talent. There is no cheap substitute, as this country will begin to realize (and may already realize, judging from the ads I’m seeing for computational chemists with at least 5 years of industrial experience).

Unfortunately, this is not what the finance industry had in mind. It thinks we can all work under their crazy employment rules like they do on Wall Street. That means flexibility at all costs. That’s a losing game for the R&D professional in terms of living standards, skills and passion for research.

If the R&D professional doesn’t get a good paying job in Cambridge or San Francisco, the alternatives can be grim. Academic research associates with PhDs and industrial experience make between $37-$54K/year. I know because I have the job postings to prove it. You can live on this in the midwest but academic research is subject to grant availability. If the grants don’t materialize, the jobs don’t either.

A potential place where a governor can productively intervene is at the small start up level. Pennsylvania would be a good place for startups, especially in the Pittsburgh area, which has a university/medical culture and a renaissance in the east end. There’s good mass transit, affordable real estate, and an educated population. BUT what every state of the country lacks at this point is access to affordable R&D resources. That is, there are some things that any start up is going to need access to but probably can’t afford. In my case, as a consultant, I can’t get access to a lot of scientific literature. I don’t have a license to Elsevier, ACS publications, etc, which can cost millions of dollars to a large university. I also can’t afford the vendor licenses to do my modeling work. I can ask vendors to give me demo licenses, for which I must sign an agreement to not use them for research. They’re only for evaluation purposes and to keep myself current. If I want a license so I can make money, well, I can’t afford the license.

So, verily I say unto Tom Wolf, if you want to attract STEM startups to Pennsylvania, (and why not? It’s a heck of a lot more affordable than Cambridge) you need to fund a license bank. Ok, I don’t know what else to call it. Make it more affordable for startups and consultants to access the licenses they need to get their work done. At this point in time, the only entities that can afford licenses for literature and proprietary software are large multinational companies and universities, leaving the rest of us to smuggle papers and cobble together software solutions from publicly available sources. That leaves us at a disadvantage in the beginning phases of research where the start up costs are already astronomical.

I don’t know if a license bank has ever been done or what a configuration might look like but here’s one possibility: Put the licenses on a PA server, start a consortium, and allow startups and consultants to ping the licenses for a fee based on number of papers downloaded or amount of time licenses are checked out. Or make us fork over a cut of anything we discover to the state. I could agree to that. Wouldn’t Tom Wolf like to be a partial recipient of the next antibiotic patent? Yes, this would be an investment for the state. It could cost several millions of dollars. No, Republicans won’t like it because… I don’t know why they wouldn’t like it. They’re always going on about helping small businesses but they want us to somehow use magic to afford the start up costs. I’m beginning to think that Republicans aren’t being honest with us about their love of entrepreneurs and small business people… Is that possible?

But the payoff could be substantial for the state if it attracts businesses and the patents generate money. That money could be used to fund education while some of it could be used to buy other things early discovery researchers might need. It could be self funding down the road because if you run for two consecutive terms, you could leave a nice little pile of patent shares for the state by the end of your them.

And since I need a real job, I will gladly work for the state setting up this system for a decent living wage. No, no, don’t thank me. See my LinkedIn profile.

So, there you have it. I have given you a possible solution to a pressing problem that doesn’t involve the governor making pointless visits to schools to encourage innocent children to go into professions in which they can’t make a living. As for teachers of STEM subjects, that’s where some of my former colleagues are going now that they can’t make a living in research. So, you know, you’ll have plenty to choose from.

***************************

Finally, Titli Nihaan has a recipe for a hot dip on a cold day. Pay attention. 😉

Tuesday: The state of science

Staph Aureas colonies growing on what looks like a blood agar plate

Guys, the state of science in this country is truly messed up.  Pharmageddon continues with the big research companies still laying off in high numbers, especially here in the US, and getting out of certain research areas. (Jeez, 2009 was a very bad year for US scientists.  58,000+ of us let go in an industry where hiring freezes have been the norm for over a decade.) Some of those research areas might be important to you even if you don’t know it right now.

For example, did you ever wonder how your great grandparents coped without antibiotics?  We’re only a couple of generations away from the dark ages when unchecked infections lead to gangrene and amputation, sepsis and death.  But have you ever wondered how little it would take to get that whole ball rolling?  Well, here’s one modern account that should chill you to the bone.

Meet Lucy Eades, youtuber extraordinaire.  Lucy has been documenting her family’s evolution in intimate detail for several years now.  Lucy and I have wildly dissimilar lives.  She’s young, blond, pretty and busy with three children under the age of five.  She’s into homebirths, cloth diapers and attachment parenting.  I like dropping in on her channel because it’s like watching a documentary on some exotic culture I will never visit.

Last November, just after Thanksgiving, her daughter Jacelyn scratched herself below the waistband of her underwear.    No biggie, right?  Wrong:

The day after on Saturday she asked why it was so itchy as she was trying to find comfort while rubbing & scratching at it. I talked to her about how wounds can itch as it heals & it’s best not to touch because any open wound could become infected & that would result in an ouchie…more so in kid friendly terms.

Sunday she pointed the area saying it hurt & upon inspection I noticed a pimple. Not sure if it was a pimple or not, ant bite, or what, but a small pimple look alike bump that hurt. Nothing more.

Monday morning after she woke we immediately looked it over & noticed a small black dot in the middle of it. Aside from that nothing else had changed. We were thinking maybe a spider bite? Never know when you stay in a hotel. Called the Dr and we brought her in later that day during one of their open “sick” appointment time frames. Dr said it could be staph, we’ll keep an eye on it. Since we had just battled staph (what 2 weeks ago? if that?) that it was a likely that even if it wasn’t staph it could turn to staph. She prescribed us some oral & topical antibiotics and gave us instructions for hibiclens, etc. for if we needed to use them eventually we wouldn’t have to bring her back in & expose her to more winter illnesses being passed around. She was fine at this point. Nothing hurt, we went about our day.

Tuesday-Wednesday is when my memory starts to fail me. At some point she becomes uncomfortable & it’s confirmed staph. We were told staph is on every surface every person & we naturally have it on our skin because of this.Some are effected while others are not. Some people with open wounds are more susceptible to staph than others for no known reason. Jacelyn is one I guess. We go fill the script at the pharmacy on Wednesday and resort back to warm soaks in the tub & attempting to squeeze out the infection with no success. Dr office swapped patient information & called in wrong prescriptions. We received anti-fungal meds.

Thursday we call the Dr office back still trying to get the right meds & to inform them that the infection appeared to be spreading. She had a fever, her hip/leg hurt, & it was no longer draining the way it should resulting in a massive hard rock like lump. Her skin was even starting to look raw in that area. They said she needed the antibiotics for a while & it would help. That evening I told Joel I wasn’t comfortable with the situation & I was taking her to the children’s hospital.

It was officially Friday by the time we arrived here (still here). She was running a 102 fever at arrival. They set up the IV’s & talked about procedure in depth with me. They had to sedate her using three different types of medicine. We talked about all our options, pros, cons, side effects, etc. The whole works. I apologized for being annoying but told him I wanted to be as informed in this process as I could be.

In walks 2 nurses, the Dr, a medic & 2 other employees. This goes from being scary to serious feeling. It was like one those ER episodes where 50 rush in the room all doing something different. One dose of sedation was enough to put a grown 200+ lb guy under.

What follows is a nightmare of bad reactions to sedation, two surgeries to remove dead tissue and drain the wound, and a hospital quarantine.  Jacelyn has MRSA, Methicillin Resistant Staphylococcus Aureus.  MRSA has developed resistance to standard antibiotics and some strains of MRSA are resistance to Vancomycin, which has been considered the last line of defense.  Ironically, MRSA is dangerous because of the overuse and improper use of antibiotics.  Nevertheless, you would think that the drug companies would be all over this area of research, designing new antibiotics or different approaches to combatting bacterial infections.

You would be wrong.  This is one of the therapeutic areas that big pharma can’t wait to dump, along with reproductive health and central nervous system (CNS) drugs.  That’s because they’re difficult, expensive to develop, have narrow safety profiles, or, in the case of women’s reproductive health, prone to class action lawsuits.  Women have been their own worst enemies when it comes to reproductive health.  Some feminists have a tendency to see every therapeutic agent as a weapon of the patriarchy to control their bodies.  As if.  And side effects are unavoidable, although we’re getting better.  But the cost of defending what was intended to cure has become so expensive that pulling out of these areas is more cost effective than sinking more money into research.

It takes a long time and a lot of clinical trials to get a new antibiotic approved.  Not so much with oncology where the life or death nature of the disease leads to speedier approval of new drugs. And in the case of cancer treatments, there are far fewer lawsuits when the drug doesn’t work out quite as well as hoped.  Patients’ families are grateful for any extension of life.  So, that’s where pharmaceutical companies are putting their money. It’s a callous and mercenary business decision.  It wasn’t always like this but this is what results after mergers, quarterly earning mania, a quirky, capricious, anachronistic FDA and the high cost of defending lawsuits have worked their own special magic for a couple of decades.  No more research on antibiotics.  Don’t expect that big pharma will care about your staph infections or birth control after you’ve sued their asses off.

Yes, they’re greedy bastards at the top but that’s a different topic.  They weren’t always this bad.

So, sports fans, we’re getting perilously close to the days when a simple break in the skin could kill you.  Lovely.

********************************

Katiebird sent me a link to this article about scientific publishing and plagiarism by two University of Kansas bioinformatics researchers.

In the technical world of bioinformatics, the two University of Kansas computer scientists were riding high in 2009.

Mahesh Visvanathan and Gerald Lushington published three articles with an international audience. They were invited to make a poster presentation at a conference in Sweden.

Although a lack of airfare kept them from going, their real problem wasn’t a tight travel budget — it was plagiarism.

Portions of all three of their articles had been lifted from other scientists’ work. The entire summarizing statement in their presentation had come from someone else’s journal article.

In an endeavor such as science that relies on original work and trustworthy information, plagiarism and fraud seem out of place. But misconduct is being detected with increasing frequency. And while it may be that the scientific community is just getting better at sussing out fraudsters, some scientists fear the problem is growing.

Competition among researchers has taken on a harder edge, they say. More scientists are competing for limited grant money, faculty appointments and publication in top journals. This intense rivalry makes it tempting for some to cut corners and fudge results.

The number of scientists caught committing fraud remains small, but each case can cause real harm, from wasting time and resources of other scientists who follow false leads to putting lives in jeopardy with bogus health findings.

There is a difference between the kind of plagiarism that the Research Works Act is supposedly trying to address where researchers frequently lift methods, diagrams and pictures from other papers routinely.  That’s a kind of excusable plagiarism because new work frequently is dependent on older work.  In that respect, the RWA could have a chilling effect on scientific publishing if it were rigorously enforced.  It’s quite another thing when your conclusions and whole paragraphs of explanatory text are lifted straight out of someone else’s publication.

But the pressure to publish is intense and, unfortunately, there are a lot of unscrupulous people out there who rationalize about what they’re doing.  While I can’t comment on how rife the academic world is with examples of plagiarism from other people’s publications, I suspect that the practice is alive and well in the corporate setting where the Wall Street financier’s value system has trickled down to the laboratories.  Well, you can hardly blame the more senior people for doing it or rationalizing about it later.  Their pedigree and PhD creates a field of excellent and  superior brainwaves around them that the more junior people can’t help but pick up and be influenced by even when the senior person has done little to nothing on the project.  Sort of like Lady Catherine DeBourgh in Pride and Prejudice who credits herself with a sensitive prodigy’s talent in music and would have been a great musician had she only learned to play.  Or the rationalizer’s work/family circumstances are more important than the person’s who actually did the work.  Or the rationalizer needs a green card.  Or <fill in the blank>.

If you have the power to steal a colleague’s work, the reasons for doing so aren’t hard to conjure up.  It’s your word against theirs.  With the patent lawyers sitting on publications and project data for so long, it’s easy to slap your name on a paper or patent when the actual inventor is out of the way.  All the skullduggery and credit stealing happens before the paper ever hits the journal or patent office.  Who’s going to know?  I’ve even heard that in some companies and departments credit is awarded to favorite underlings like a reward for loyalty.   Those favorites can swoop down on a project in its final stages and hog all of the years of credit to themselves at the last minute.  You’d think this would be an ethical problem requiring accountability and punishment. Not so.  It’s just the way things are done.  Not all companies operate this way but the current layoff environment makes it more common and brazen.  Yep, research is a sick business.

Well, it will all sort itself out in the end and the researchers who are left can always go into sales if they are ever exposed.

Science is baaaaaad  for you, children, Very bad.  You’ll spend years working and studying on project for which you will get no credit and end up flipping burgers at McDonald’s. Run away! Run Away!

*************************************

Susie Madrak cites a post today about how 3 female regulators’ warnings about the impending financial crisis were ignored.

Bies was a central bank board member from 2001 to 2007. Several times in the transcripts she said she was worried about the housing bubble.

Bies warned fellow board members that exotic mortgages — for instance, negative amortization loans in which balances become bigger and not smaller over time — were too dangerous for consumers.

She warned about the Wall Street-created securities backed by risky mortgages.

“I just wonder about the consumer’s ability to absorb shocks,” she said at Fed meeting in May 2006.

“The growing ingenuity in the mortgage sector is making me more nervous as we go forward in this cycle, rather than comforted that we have learned a lesson. Some of the models the banks are using clearly were built in times of falling interest rates and rising housing prices. It is not clear what may happen when either of those trends turns around.”

Later in 2006 she told Fed board members: “A lot of the private mortgages that have been securitized during the past few years really do have much more at risk than investors have been focusing on.”

Bies is an economist and was a former Tennessee banker. But the two most powerful men at the Fed and the Fed staff dismissed her concerns.

That May meeting was Ben Bernanke’s second as chairman of the Fed. He said the cooling off of the housing market was a “healthy thing.” And that “so far, we are seeing, at worst, an orderly decline in the housing market.”

In June 2006, Tim Geithner, then president of the Federal Reserve Bank of New York, said that “we see a pretty healthy adjustment process under way. … The world economy still looks pretty robust to us.”

A Fed staff report said: “We have not seen — and don’t expect — a broad deterioration in mortgage credit quality.”

Tim Geithner, Tim Geithner… Where have I heard that name before?  No, no don’t tell me.  Let me work this out…

Tol’ja

White House vs Women: Joe Biden Does it Wrong

Obama and Women: Two views

Um, I’m glad that the rest of the blogosphere is starting to pay attention to the way womens’ expertise is ignored in the public sphere and especially by the Democratic White House and party in general.  We here at The Confluence have been covering this very thing for a couple of years now, including one post that cited the story about the female musicians who get orchestra seats after they’ve auditioned behind a screen.   Wow, that’s an old reference.  You’d have to look long and hard to find it, unless someone already found it for you in other posts, like:

The Gender Gap and Female Bodied People

Yeah, why *did* we do that?

WTF?? Another example of how Sexism costs us all

Bairly Downgrading the FDIC

There are many more on the topic.  Try keywords “Sexism Costs” or “Costs of Sexism”.  Well, it’s not like it’s plagiarism or anything.

Unless someone is going to say they invented the Plum Line Metric too.  (that would be here, and here as well) Then I will have to raise a snit.

Welcome Susie!  We will send out our complimentary new members package complete with white sheet (‘cos an accusation of racism is just around the corner) and you starter pack of hormone replacement therapy.   No, no, don’t thank us.  Most members don’t.