Intriguing discussion with Steven Weinberg

Intriguing discussion with Steven Weinberg

My father has a degree in comparative religion. I’ve always been fascinated by the intersection of metaphysics and science. Dr. Weinberg talks about wave theory, the big bang theory, quantum mechanics, and more. It’s a long discussion ~1 hour 14 min. Cliff Harvey does a great job giving some of his insight on the discussion.

http://en.wikipedia.org/wiki/Steven_Weinberg

#ScienceSunday  

Originally shared by Cliff Harvey

Weinberg, Dawkins, and the universe

This is a great discussion exploring all kinds of questions, especially touching on some points of contact between physics and the ‘grand’ religious or quasi-religious questions, including the issue of fine-tuning of physical constants, anthropic selection from a larger reality, what we know about the early universe from experiments, and what we think we know. Its clear from the thunder in the first few minutes that they’ve angered the Gods….

In case you weren’t aware, Steven Weinberg is one of the main co-fathers of the Standard Model, a Nobel laureate, and wrote the book (all 3 volumes) on quantum field theory, so as someone very familiar with the currently most fundamental frameworks he’s among the most trustworthy and well-prepared to discuss these matters.

One of the physical issues they tackle early on is ‘dark energy’ or the vacuum energy. Here Weinberg does a good job clarifying some of the usual confusions often found in the press. We cannot, strictly speaking, calculate the value of the vacuum energy, but what we can do is calculate contributions to it, from fluctuations in various known fields down to whatever distance scales we decide to trust our current model, with the Planck scale being the absolute limit. When this is done we get an answer something around ~10^120 times too high (or possibly more like ~10^60 if there are some low-scale SUSY partners).  But strictly speaking this is not a “conflict with experiment” because there is still the freedom to add a simple constant to the whole thing. The assumption that this “constant part” is zero leads to a meaningful constraint on the particle content and ultimate high-energy laws of the universe, but so far we unfortunately don’t know how to do away with that extra freedom. I agree with Weinberg that it still seems natural to expect that (at least most of) this discrepancy will be addressed by contributions from new laws which must take over by the Planck scale at the latest, and also probably from more ordinary particles which haven’t yet been discovered. Still, absent some new and currently unknown principle, this remains a primary candidate for anthropic selection.

They spend some time on the “nightmare scenario” of not finding anything new at the LHC. I don’t plan on getting very worried about this until we see a fair amount of 14 TeV data analyzed, but more importantly, its not a scientist’s place to complain about the laws of nature. I agree that it might not be as enjoyable a time to be a theorist if we don’t find something else, but there is still so much good work to be done in understanding the current frameworks more deeply. Also, its important to recognize that negative results are important too, they constrain future attempts at model building in important ways. But in my opinion there is no avoiding the obvious fact that physics is objectively and dramatically closer to its defined goal of describing the fundamental laws of the universe, and at some point it just becomes unrealistic and unscientific to expect that this period of science has to be directly analogous to the one that existed 150 years ago. They’re qualitatively quite different. The process of science is all about trying to find new ways to test our current best understanding, and in some ways even to try and break it, but that doesn’t mean we’re entitled to a rewriting of all the laws every few years, as a startling number of people seem to believe. That is exactly the kind of unhealthy attachment to an idea (or feeling) that the skepticism that defines science is supposed to dissuade you from. The very assumption that there are laws of the universe implies that this scientific process will inevitably become more stable over time, particularly on the most fundamental end.

Around 54:00 they also venture into the question of interpreting quantum mechanics, and here its extremely clear that there inevitably should be a conflict between your scientific understanding of the fundamental laws and your intuitive understanding of newtonian physics that you use to walk down the street. Something would have to be wrong otherwise. Essentially, because any of the hypotheses that would prevent the “unsettling” implications of QM at human scales require some kind of dramatic revision of its content, even though no evidence supports such a revision. Here Weinberg himself confesses that he thinks the “best” outcome would be to find out that there is some mechanism that breaks QM as we know it when small systems interact with large systems, though he is at least straightforward about the lack of any support from evidence. He himself mentions the many entanglement experiments have proven that quantum mechanics does still operate at distances as far as meters or even kilometers, and should work to any arbitrary distance. I don’t think its rational to “hope” for a way to circumscribe quantum mechanics in this way.This is a big topic I’ve worked on, posted on, and will post again on…

Anyway those are just a few responses to a very far-reaching conversation.

#scienceeveryday  

http://www.youtube.com/watch?v=IZ40_LxDDt4

Here’s the motherload of Amazing Animal Facts

Here’s the motherload of Amazing Animal Facts

Happy birthday Lacerant Plainer #LPSAmazingAnimalFacts

I’ve compiled a ton of mostly my posts about amazing animal science.

You’ve been slimed

http://goo.gl/0edXq

Why are dogs better at some things than chimpanzees?

http://goo.gl/cFCnm

Eye of Horus

http://goo.gl/tKc3A

http://goo.gl/eFyb7

Am be stoner, hello sunshine

Solar powered vertebrate.

http://goo.gl/4ucrc

No Chiton on science

http://goo.gl/cdnkm

What can you sea with MRI?

http://goo.gl/TwfZZ

Alfa females: hyena hormones at work

http://goo.gl/rgZ5Q

Evolutionary forces – Working Together

http://goo.gl/k26Bj

Uncovering Merle

http://goo.gl/fhIni

I’m not cheetah-ing one #Caturday by posting this dog video

http://goo.gl/gtzIH

Rhinestone Cowboy

http://goo.gl/yZs30

Duck, duck, science

http://goo.gl/VUrUL

Water as a treat?

http://goo.gl/4EG7u

Made for Each Other

http://goo.gl/5IMDD

#HappyBirthdayLP_NoTinFoilHatRequired

#HappyAlienDayLacerantPlainer

#AliensAmongstUs

Originally shared by Chad Haney

Bobbit worm, Eunice aphroditois

Besides looking interesting, the bobbit worm has an interesting feature. It’s hemoglobin is extracellular.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1164035/

Hemoglobin is the oxygen carrying protein in our red blood cells (RBC), i.e., it is intracellular. What that means is, unlike our blood, the bobbit worm has free hemoglobin; just floating around. That might not seem amazing to you but here’s why it is amazing. In mammalian blood, hemoglobin is protected from oxidation inside the RBC by many other proteins  You’ve seen iron rust. That’s oxidation and hemoglobin’s oxygen binding component has iron. When iron is oxidized it can generate free radicals which are toxic. That’s why you hear people recommending anti-oxidant rich fruits/vegetables. When iron is oxidized and creates free radicals it is called Fenton chemistry.

http://en.wikipedia.org/wiki/Fenton’s_reagent#Fenton_Reaction.28Medicine.29

Additional interesting info on the bobbit worm from Wiki, which is where the image is from.

Armed with sharp teeth, it is known to attack with such speeds that its prey is sometimes sliced in half. Although the worm hunts for food, it is omnivorous. It is also covered in bristles that are capable of a sting that results in permanent numbness in humans.

http://en.wikipedia.org/wiki/Bobbit_worm

Edit Many invertebrates have extracellular hemoglobin. I haven’t had time to find out what mechanism the bobbit worm uses to project its heme from oxidation.

#ScienceEveryday  

You can’t silence science around Wonder Woman

You can’t silence science around Wonder Woman

Happy birthday Rajini Rao have a #punderstorm  day, especially #ScienceEveryday with the #Incorrigibles.

#Wolverine2WonderWomanHappyBD

Originally shared by Buddhini Samarasinghe

Interfering with RNA

A birthday tribute to someone I really admire here on G+, who is an amazing mentor and friend. Happy Birthday Rajini Rao, hope you have a wonderful year ahead and it’s been a pleasure knowing and working with you on our many projects together on G+!

A few days ago during our ENCODE Hangout on Air (http://goo.gl/H6KDE), I mentioned microRNAs. I wanted to write a post today about the general mechanism of how a gene can be ‘silenced’ through a process known as RNA interference.

• As we explained during the Hangout, the Central Dogma of Molecular Biology is DNA –> RNA –> Protein. This means the DNA blueprint makes a sequence-specific copy of RNA, which in turn acts as a blueprint for a specific sequence of amino acids which make up a protein. 

• So imagine if you could somehow destroy the RNA blueprint (known as the messenger RNA, or mRNA) for a particular protein. This would prevent the protein from being made – no blueprint, no protein. This is what RNA interference, or gene silencing is.

• It was first observed by plant scientists working on petunias in 1990. They were trying to make the color of the flower darker, so they introduced extra copies of the gene chalcone synthase, a key enzyme involved in the synthesis of pink and violet flower pigment (http://goo.gl/2A0Wk). Their logic makes sense – adding more copies of the gene for chalcone synthase should make more protein, which in turn should make flowers darker. But when they did the experiment, instead of darker flowers they got lighter flowers, or fully or partially white flowers absent of any color (see image below). Clearly, introducing extra copies of the chalcone synthase gene was decreasing the activity of chalcone synthase

• Similar phenomena were reported in fungi, and also in plant viruses. However, it was not until 1998 when Andrew Fire and Craig Mello formally identified the process as ‘RNA interference’ in their groundbreaking work on the nematode worm  Caenorhabditis elegans (http://goo.gl/XYId1). They injected sequence specific double-stranded DNA into the worm and then observed the silencing of the target gene (the mRNA blueprint went missing, and therefore so did the protein). This was the first time that double-stranded DNA was identified as the causative agent for the gene silencing phenomenon.

• The discovery completely revolutionized biology; Fire and Mello were awarded the Nobel Prize just eight short years after the publication of their work, which is very unusual (usually Nobel-prizes recognize work that is several decades old!). The work was so important because now we could silence any gene to see the effect it would have on the organism.

• Why is this important? Imagine you have a car, and you want to learn the function of the different parts. If you remove (or silence!) a wheel, the car cannot move. Therefore you can conclude that the wheel is necessary for motion. The same could be done within the organism; silence a gene, and you notice that the animal is now impaired in movement, so you can conclude that the gene may be involved in muscle development or coordination. Silence another gene, and you notice the eggs look strange, and you conclude that the gene was involved in egg development. RNA interference allowed scientists to assign a function to a gene; this has been and will remain an invaluable tool in molecular biology for decades ahead.

All the original research papers I’ve cited above are #openaccess  

Image credit: http://goo.gl/Ry6U3

#ScienceEveryday    #Wolverine2WonderWomanHappyBD

Bobbit worm, Eunice aphroditois

Bobbit worm, Eunice aphroditois

Besides looking interesting, the bobbit worm has an interesting feature. It’s hemoglobin is extracellular.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1164035/

Hemoglobin is the oxygen carrying protein in our red blood cells (RBC), i.e., it is intracellular. What that means is, unlike our blood, the bobbit worm has free hemoglobin; just floating around. That might not seem amazing to you but here’s why it is amazing. In mammalian blood, hemoglobin is protected from oxidation inside the RBC by many other proteins  You’ve seen iron rust. That’s oxidation and hemoglobin’s oxygen binding component has iron. When iron is oxidized it can generate free radicals which are toxic. That’s why you hear people recommending anti-oxidant rich fruits/vegetables. When iron is oxidized and creates free radicals it is called Fenton chemistry.

http://en.wikipedia.org/wiki/Fenton’s_reagent#Fenton_Reaction.28Medicine.29

Additional interesting info on the bobbit worm from Wiki, which is where the image is from.

Armed with sharp teeth, it is known to attack with such speeds that its prey is sometimes sliced in half. Although the worm hunts for food, it is omnivorous. It is also covered in bristles that are capable of a sting that results in permanent numbness in humans.

http://en.wikipedia.org/wiki/Bobbit_worm

Edit Many invertebrates have extracellular hemoglobin. I haven’t had time to find out what mechanism the bobbit worm uses to project its heme from oxidation.

#ScienceEveryday  

Wow, just #awesomesauce .

Wow, just #awesomesauce .

I’m posting this Richard Feynman video because my brain is overwhelmed with the kindness from my friends and people I don’t even know on G+ and I couldn’t think of something clever. So thank you all who participated in #HappyBirthdayMrMRI . Thank you for the good wishes.

There were so many clever and cute posts. I’ll respond more later. I have to walk my dog and get some work done. So I leave you with the scientific method from Richard Feynman. h/t Jennifer Ouellette 

In general, we look for a new law by the following process: First we guess it; then we compute the consequences of the guess to see what would be implied if this law that we guessed is right; then we compare the result of the computation to nature, with experiment or experience, compare it directly with observation, to see if it works. If it disagrees with experiment, it is wrong. In that simple statement is the key to science. It does not make any difference how beautiful your guess is, it does not make any difference how smart you are, who made the guess, or what his name is — if it disagrees with experiment, it is wrong.

from (Brain Pickings and Maria Popova) http://goo.gl/3Oa1l 

QualiaSoup has a great video on the burden of proof and other great videos on logic.

The burden of proof

#HappyBirthdayMrMRI

#ScienceEveryday  when it isn’t #ScienceSunday  

http://www.youtube.com/watch?v=EYPapE-3FRw

Chemophobia: irrational plague?

Chemophobia: irrational plague?

An article from Slate, Don’t Take Medical Advice From the New York Times Magazine http://goo.gl/EYaFh is being re-shared and discussed quite a bit on G+. So h/t to Gaythia Weis Jennifer Ouellette Mary Mangan and Google Plus Science Lab 

It’s a great article about chemophobia and discusses a story about a mother who would rather give her child some Chinese medicine rather than what the “Western doctor” prescribed. It points out that supplements are not heavily regulated and so the dose and composition of the supplements can vary wildly. So you actually don’t know what you are getting.

When I come across people who display signs of chemophobia or who try to promote only “natural” products, I try my best to politely remind them that snake bites are natural too. Arsenic, cyanide, carbon monoxide can be deadly and are very much natural. You can get any of those three chemicals, naturally from the environment. In fact you probably have traces of arsenic in your blood.

Here’s an old post about rhubarb, natural and delicious.

Rhubarb poisoning not from a rube

http://goo.gl/Y5546

I was going to use a belladonna plant for the main picture as belladonna can be poisonous. Atropa belladonna http://en.wikipedia.org/wiki/Belladonna_(plant)

Note that atropine is derived from belladonna and it can be used medicinally (Western medicine) for bradycardia (low heart rate) and ironically to counteract organophosphate poisoning (it’s not an antidote, it blocks the action of acetylcholine). http://en.wikipedia.org/wiki/Atropine

Which brings me to another one of my favorite comments when it comes to chemophobia.

Alle Ding’ sind Gift, und nichts ohn’ Gift; allein die Dosis macht, daß ein Ding kein Gift ist.

“All things are poison, and nothing is without poison; only the dose permits something not to be poisonous.” Paracelsus

The only real difference between medicine and poison is the dose….and intent. Oscar G. Hernandez, MD

Here’s another good article about chemophobia.

The best antidote for this irrational plague of fear is the same as it usually is: good science, clearly understood, and openly available to all. Seymour Garte, Ph.D.

Our Chemophobia Conundrum

http://goo.gl/ZUc15

The picture is from a NY Times article that was discussed here.

Who can resist?: #Chemophobia in the NYT

http://goo.gl/c5Bj0

Ultimately, this is a problem of psychology. In the age of high-investment parenting, threats to our children can overrun any rational defense a parent might be able to construct…  As a chemist, I find chemophobia pretty ridiculous. As a parent, I’m in sympathy — we all fear unknown threats to our kids. I merely ask that parents step back from genuine fear-mongering that we get from Environmental Working Group and the like and try to gain a rational, risk-based perspective on chemicals in the home.

Finally, here is another article that made the rounds on G+.

America’s Real Criminal Element: Lead

http://goo.gl/7RTdZ

#ScienceEveryday  when it isn’t #ScienceSunday  

I leave you with.

Culture Club – Church Of The Poison Mind

Foxo TRAIL

Foxo TRAIL

Dr. Wafik S. El-Deiry and colleagues at Penn State University developed a new drug, TRAIL-inducing compound 10 (TIC10). What is TRAIL and what’s the big deal?

TRAIL is tumor necrosis factor-related apoptosis-inducing ligand. It’s a protein in our immune system that induces apoptosis (programmed cell death) in tumors. The problem with recombinant versions, i.e., man-made versions intended to be given as an anti-tumor drug, is that TRAIL has a short half-life in serum and it has poor biodistribution (it doesn’t readily cross the blood-brain barrier). So TIC10 induces TRAIL and because TIC10 can cross the blood-brain barrier, it appears to be more efficacious than trying to administer TRAIL directly. Since TRAIL is part of the immune system, boosting it with TIC10 is thought to be less toxic than traditional chemotherapy. It remains to be seen what side effects there are from TIC10 itself.

What is FOXO and what does it have to do with this story? The TRAIL gene is transcriptionally regulated by Foxo3a. The FOXO3, also called, Forkhead box 03, is characterized by a distinct fork head DNA-binding domain and is likely a trigger for apoptosis.

Before you get too excited, the paper notes that the TIC10 group only had a 6% increase in survival compared to a more traditional anti-vascular drug, in a mouse model.

News blurb from Nature.com

Small-molecule drug drives cancer cells to suicide

http://goo.gl/rcQW8

Full article in Science Translational Medicine behind paywall.

http://goo.gl/heE1Y

Fox image from Dan Dinu: http://goo.gl/adqSb

#ScienceEveryday  when it isn’t #ScienceSunday  

Made for Each Other

Made for Each Other

NY Times review by Walter Vatter, http://goo.gl/MDw41, of 

What’s a Dog For?: The Surprising History, Science, Philosophy, and Politics of Man’s Best Friend by John Homans

(Amazon link: http://goo.gl/cOl94)

I haven’t read the book but I’m curious about the science claims. For example, that dogs understand gestures better than non-human primates.

#FidoFriday currated by mel peifer , Lisa Lisa, Suhaib Ayaz , and Wes Lum 

#ScienceEveryday  

Ground up myth

Ground up myth

I ♥ science and debunking myths. OK, I’m not doing the actual debunking but I really enjoyed this article.

In a conversation on Linda Hedrick’s post (http://goo.gl/GLpKF) Kirk Teetzel had the right answer as to why the McDonalds burger doesn’t rot, i.e., why it is a myth. I had the same gut feeling so here is the link. http://goo.gl/9qyUj

From the article:

Now don’t get me wrong—I don’t have a dog in this fight either way. I really couldn’t care less whether or not the McDonald’s burger rotted or didn’t. I don’t often eat their burgers, and will continue to not often eat their burgers. My problem is not with McDonald’s. My problem is with bad science.

For all of you McDonald’s haters out there: Don’t worry. There are still plenty of reasons to dislike the company! But for now, I hope you’ll have it my way and put aside your beef with their beef.

Image source: http://goo.gl/mbstf

#ScienceEveryday  when it isn’t #ScienceSunday  

Amateur and a pro

Amateur and a pro

Don’t take this the wrong way because I’m a scientist that does cancer research. I was driving home today and I was captivated by this story on NPR  So crazy it might work http://goo.gl/cAGXf

Dr. John Brody (http://goo.gl/Djbb5), an expert in pancreatic cancer, goes home to give a speech at his alma mater about thinking outside the box. After his talk, his old music teacher, Anthony Holland, approaches him about an idea. Anthony had been working in his garage on an idea from Royal Rife to use electromagnetic waves to make cells burst like a wine glass when the resonant frequency is used. What really captivated me is when Dr. Brody tried to explain to his friend that his results were meaningless without proper controls. He also tried to explain that when Mr. Holland got support from other scientists, it was also tainted because he had not explained that the control experiments had failed so far.

There are videos about the documentary on this website (I’m linking the synopsis). http://www.thecuredocumentary.com/synopsis

#ScienceEveryday  when it isn’t #ScienceSunday