June 17, 2015

Super 15 Predictions for Round 19

Team Ratings for Round 19

The basic method is described on my Department home page.

Here are the team ratings prior to this week’s games, along with the ratings at the start of the season.

Current Rating Rating at Season Start Difference
Crusaders 10.77 10.42 0.40
Hurricanes 8.31 2.89 5.40
Waratahs 7.48 10.00 -2.50
Highlanders 5.29 -2.54 7.80
Chiefs 3.91 2.23 1.70
Brumbies 3.76 2.20 1.60
Stormers 1.74 1.68 0.10
Bulls 0.39 2.88 -2.50
Lions -0.55 -3.39 2.80
Sharks -0.65 3.91 -4.60
Blues -4.49 1.44 -5.90
Rebels -4.89 -9.53 4.60
Force -7.16 -4.67 -2.50
Cheetahs -8.22 -5.55 -2.70
Reds -8.70 -4.98 -3.70

 

Performance So Far

So far there have been 120 matches played, 79 of which were correctly predicted, a success rate of 65.8%.

Here are the predictions for last week’s games.

Game Date Score Prediction Correct
1 Blues vs. Highlanders Jun 12 7 – 44 -2.10 TRUE
2 Rebels vs. Force Jun 12 11 – 13 7.50 FALSE
3 Brumbies vs. Crusaders Jun 13 24 – 37 -1.00 TRUE
4 Chiefs vs. Hurricanes Jun 13 13 – 21 0.70 FALSE
5 Waratahs vs. Reds Jun 13 31 – 5 19.30 TRUE
6 Bulls vs. Cheetahs Jun 13 29 – 42 15.70 FALSE
7 Sharks vs. Stormers Jun 13 34 – 12 -1.00 FALSE

 

Predictions for Round 19

Here are the predictions for Round 19. The prediction is my estimated expected points difference with a positive margin being a win to the home team, and a negative margin a win to the away team.

Game Date Winner Prediction
1 Highlanders vs. Chiefs Jun 20 Highlanders 5.40
2 Stormers vs. Brumbies Jun 20 Stormers 2.50

 

Chocolate: the new health food?

A UK cohort study published a paper yesterday with the title “Habitual chocolate consumption and risk of cardiovascular disease among healthy men and women.”  In contrast to the last chocolate study to make headlines, this is actual research, involving 20,000 people followed up for twelve years, and was published in a respectable medical journal.

The study found that people who ate more chocolate back in the mid-1990s had less cardiovascular disease over the period to 2008. Of course, this makes for a great press release and headlines

  • StuffEating chocolate every day linked to lower heart disease and stroke
  • NZ Herald (from the Telegraph): Two choc bars a day keeps doctor away
  • One News: Is chocolate good for you? New study suggests 100g a day may be beneficial

Are the findings of the paper true? Well, that depends on what you mean by ‘true’, which is important to remember when you see claims that 90% of scientific results are false.

On the one hand, it’s true that the EPIC study recruited all these people and asked them questions about their diet in the 1990s, and it’s presumably true that the proportion getting cardiovascular disease was lower among those who ate more chocolate and that the study included people who ate up to 100g/day.  These are historical facts, not health claims.

The conclusion of the research paper was

Cumulative evidence suggests that higher chocolate intake is associated with a lower risk of future cardiovascular events, although residual confounding cannot be excluded. There does not appear to be any evidence to say that chocolate should be avoided in those who are concerned about cardiovascular risk.

This is also probably true: there is a correlation; it could be due to confounding; there doesn’t seem to be any big extra risk from eating chocolate (instead of something else with similar calorie content).

At the other extreme, though, the Herald and One News headlines are misleading: they imply that adding 100g/day of chocolate to your existing diet would be beneficial. First, while the maximum consumption was 100g/day, 95% of the study participants consumed less than 40g/day, and 90% less than 25g/day. Second, and more important, the study looked at people’s normal diet, not at changes in diet.

If you add 100g/day of chocolate to your diet, you either need to cut more than 500 Calories of other foods, or exercise a lot more, to avoid gaining weight. The study participants basically did this: the high-chocolate and low-chocolate groups had similar BMI and waist:hip ratio, and the high-chocolate group exercised more.

Third, there is confounding. The people who ate more chocolate might have been healthier for other reasons. For example, those who ate no chocolate were more likely to have diabetes, which is probably why some of them ate no chocolate. The difference in cardiovascular disease rates was far too small for confounding to be ruled out as an explanation, no matter how carefully the analysis was done (and it was done pretty well).

Fourth, and in some ways most important, is the role of chance. This was a big study, but it still came up with only moderately strong evidence that the correlation was real, and that’s considering the study on its own. We don’t know whether there was any publication bias leading positive results about chocolate to be easier to publish in the scientific journals, but we can be sure there was publication bias in the media coverage. Always, if you see a diet and health study on TV, it must have had unusually interesting results. Even when it’s valuable as a component in the cumulative scientific literature, the biased selection for interesting results usually means you can’t believe it in application to your own life.

I got up at 5:15 today in order to be on breakfast TV to talk about this study. That would never have happened if the results had been different.

June 16, 2015

Briefly

  • NZ Defence Force say they have seized “260kg of high-grade heroin worth about $235m” (via Stuff). That would be $900/gram. Presumably the figure is supposed to be street price ignoring any distribution costs and assuming it’s all sold. Even so it seems steep. NZDF also say “they were destined for east Africa and likely into Europe.” European street prices for heroin vary depending on who you ask, but they aren’t anywhere near that high.
  • 3News had a story on the rise in Indian-style weddings in New Zealand. I noticed the line “The average Indian wedding costs up to $100,000 – that is more than three times the average New Zealanders spend on tying the knot.” We know the figure of $30,000 for an average NZ wedding is bogus; it’s hard to tell whether the figure for Indian weddings is more or less inflated.
  • When the FDA doesn’t approve an application to market a new drug, it sends what it calls a “complete response letter”.  An analysis in the medical journal BMJ compares the letters to company press releases. In 21% of cases no information in the press release matched the letter. In 19 of 32 cases where the FDA had said more clinical trials would be needed, there was no mention of this in the press release.
  • The top ten finalists from a competition for optical illusions. Knowing about optical illusions is useful for data visualisation: they are extreme versions of things you want to avoid.
  • From the Washington Post, an illustration of why you want to avoid the optical illusion of 3-d in your graphics. The box on the right is 21% smaller than the box on the left. Really. Do the maths.
    CHFiVSwW8AMf0zf
  • A good example of risk communication, from the British NHS:
    breast-200-tree
    (via David Spiegelhalter who also writes about the conflict between targeting information at the people who theoretically need it versus the people who will actually take advantage of it)
June 15, 2015

Verbal abuse the biggest bullying problem at school: Students

StatsChat is involved with the biennial CensusAtSchool / TataurangaKiTeKura, a national statistics education project for primary and secondary school students. Supervised by teachers, students aged between 9 and 18 (Year 5 to Year 13) answer 35 questions in English or te reo Māori about their lives, then analyse the results in class. Already, more than 18,392 students from 391 schools all over New Zealand have taken part.

This year, for the first time, CAS asked students about bullying, a persistent problem in New Zealand schools.

School students think verbal mistreatment is the biggest bullying issue in schools – higher than cyberbullying, social or relational bullying such as social exclusion and spreading gossip, or physical bullying.

Students were asked how much they agreed or disagreed with statements about each type of bullying.  A total of 36% strongly agreed or agreed that verbal bullying was a problem among students at their school, followed by cyberbullying (31% agreed or strongly agreed), social or relational bullying (25% agreed or strongly agreed) and physical bullying (19% agreed or strongly agreed).

Read the rest of the press release here.

 

 

Stat of the Week Competition: June 13 – 19 2015

Each week, we would like to invite readers of Stats Chat to submit nominations for our Stat of the Week competition and be in with the chance to win an iTunes voucher.

Here’s how it works:

  • Anyone may add a comment on this post to nominate their Stat of the Week candidate before midday Friday June 19 2015.
  • Statistics can be bad, exemplary or fascinating.
  • The statistic must be in the NZ media during the period of June 13 – 19 2015 inclusive.
  • Quote the statistic, when and where it was published and tell us why it should be our Stat of the Week.

Next Monday at midday we’ll announce the winner of this week’s Stat of the Week competition, and start a new one.

(more…)

June 13, 2015

In a bit of a pickle

Q: Isn’t this microbiome stuff cool?

A: <suspiciously> Yes?

Q: In the Herald. “Eating sauerkraut, pickles and yoghurt may be the answer for young adults suffering from social anxiety.” We didn’t know that before scientists starting measuring gut microbes, did we?

A: I’m not sure we know that now.

Q: They even found “the effect was greatest among those at genetic risk for social anxiety disorder as measured by neuroticism”.  This sort of interdisciplinary approach is a real step forward, surely? Genes and microbes and personality changes?

A: Yes, in principle, but there weren’t any genes or microbes or personality changes measured in this research.

Q: Not any?

A: No

Q: Oh.

A: They asked, on one occasion, about what they called ‘fermented foods’ and measured social anxiety, and found a correlation.

Q: How strong?

A: ‘Fermented food’ intake explained nearly 2% of the variation in social anxiety

Q: You mean nearly 20%?

A: I mean nearly 2%. The correlation was -0.13, and you square it to get proportion of variation explained.

Q: Oh. Um. Sometimes the story says ‘fermented’ and sometimes it says ‘pickles’ and then there’s this mention of chocolate? What’s up with that?

A: They asked about ten food classes: fruit and veg, and nine things they lumped together into ‘fermented foods’. From the research paper

2. yogurt, 3. kefir, or food or beverages that contain yogurt; 4. soy milk, or foods or beverages that contain soy milk; 4. miso soup; 5. sauerkraut; 6. dark chocolate; 7. juices that contain microalgae; 8. pickles; 9. tempeh; and 10. kimchi

Q: But soy milk isn’t fermented. Or dark chocolate. And what do they include in ‘pickles’?

A: Whatever a US undergraduate student would include, so probably more vinegar-preserved cucumbers and peperoncini than real lactic-fermented pickles

Q: And they just added these all up?

A: Yes. And then took the inverse hyperbolic sine.

Q: The what now?

A: Some people reported eating much more fermented food than the rest, so they used a mathematical transformation to reduce the impact of these measurements. The effect is that they’re focusing mostly on low levels of consumption (weekly), not high levels (multiple per day).

Q: Is that a problem?

A: No, it’s fine. It’s just that they seemed to have done it because they have a thing about Normal distributions rather than because that’s what they wanted to focus on.

Q: I thought it was statisticians who had a thing about Normal distributions?

A: Not for a few decades now, but yes, our bad originally.

Q: Ok, how about the genes. How did they avoid measuring any genes?

A: Look more carefully at what you quoted. They defined “at genetic risk of social anxiety” by a measure of neuroticism

Q: How genetic is … no, wait, we’ve been there. You’re going to tell me the estimated heritability, then explain it doesn’t answer my question.

A: Glad to see someone’s paying attention.

Q: Could it just be that there are cultural differences in reporting social anxiety and also in eating things like tempeh, miso, and kimchi?

A: It’s not out of the question.

June 11, 2015

Comparing all the treatments

This story didn’t get into the local media, but I’m writing about it because it illustrates the benefit of new statistical methods, something that’s often not visible to outsiders.

From a University of Otago press release about the work of A/Prof Suetonia Palmer

The University of Otago, Christchurch researcher together with a global team used innovative statistical analysis to compare hundreds of research studies on the effectiveness of blood-pressure-lowering drugs for patients with kidney disease and diabetes. The result: a one-stop-shop, evidence-based guide on which drugs are safe and effective.

They link to the research paper, which has interesting looking graphics like this:

netmeta

The red circles represent blood-pressuring lowering treatments that have been tested in patients with kidney disease and diabetes, with the lines indicating which comparisons have been done in randomised trials. The circle size shows how many trials have used a drug; the line width shows how many trials have compared a given pair of drugs.

If you want to compare, say, endothelin inhibitors with ACE inhibitors, there aren’t any direct trials. However, there are two trials comparing endothelin inhibitors to placebo, and ten trials comparing placebo to ACE inhibitors. If we estimate the advantage of endothelin inhibitors over placebo and subtract off the advantage of ACE inhibitors over placebo we will get an estimate of the advantage of endothelin inhibitors over ACE inhibitors.

More generally, if you want to compare any two treatments A and B, you look at all the paths in the network between A and B, add up differences along the path to get an estimate of the difference between A and B, then take a suitable weighted average of the estimates along different paths. This statistical technique is called ‘network meta-analysis’.

Two important technical questions remain: what is a suitable weighted average, and how can you tell if these different estimates are consistent with each other? The first question is relatively straightforward (though quite technical). The second question was initially the hard one.  It could be for example, that the trials involving placebo had very different participants from the others, or that old trials had very different participants from recent trials, and their conclusions just could not be usefully combined.

The basic insight for examining consistency is that the same follow-the-path approach could be used to compare a treatment to itself. If you compare placebo to ACE inhibitors, ACE inhibitors to ARB, and ARB to placebo, there’s a path (a loop) that gives an estimate of how much better placebo is than placebo. We know the true difference is zero; we can see how large the estimated difference is.

In this analysis, there wasn’t much evidence of inconsistency, and the researchers combined all the trials to get results like this:

netmeta-ci

The ‘forest plot’ shows how each treatment compares to placebo (vertical line) in terms of preventing death. We can’t be absolutely sure than any of them are better, but it definitely looks as though ACE inhibitors plus calcium-channel blockers or ARBs, and ARBs alone, are better. It could be that aldosterone inhibitors are much better, but also could be that they are worse. This sort of summary is useful as an input to clinical decisions, and also in deciding what research should be prioritised in the future.

I said the analysis illustrated progress in statistical methods. Network meta-analysis isn’t completely new, and its first use was also in studying blood pressure drugs, but in healthy people rather than people with kidney disease. Here are those results

netmeta-me

There are different patterns for which drug is best across the different events being studied (heart attack, stroke, death), and the overall patterns are different from those in kidney disease/diabetes. The basic analysis is similar; the improvements since this 2003 paper are more systematic and flexible ways of examining inconsistency, and new displays of the network of treatments.

‘Innovative statistical techniques’ are important, but the key to getting good results here is a mind-boggling amount of actual work. As Dr Palmer put it in a blog interview

Our techniques are still very labour intensive. A new medical question we’re working on involves 20-30 people on an international team, scanning 5000-6000 individual reports of medical trials, finding all the relevant papers, and entering data for about 100-600 reports by hand. We need to build an international partnership to make these kind of studies easier, cheaper, more efficient, and more relevant.

At this point, I should confess the self-promotion aspect of the post.  I invented the term “network meta-analysis” and the idea of using loops in the network to assess inconsistency.  Since then, there have been developments in statistical theory, especially by Guobing Lu and A E Ades in Bristol, who had already been working on other aspects of multiple-treatment analysis. There have also been improvements in usability and standardisation, thanks to Georgia Salanti and others in the Cochrane Collaboration ‘Comparing Multiple Interventions Methods Group’.  In fact, network meta-analysis has grown up and left home to the extent that the original papers often don’t get referenced. And I’m fine with that. It’s how progress works.

 

Women and dementia risk

A Herald story headlined “Women face greater dementia risk – study” has been nominated for Stat of the Week, I think a bit unfairly. Still, perhaps it’s worth clarifying the points made in the nomination.

People diagnosed with dementia are more likely to be women, and the story mentions three reasons. The first is overwhelmingly the most important from the viewpoint of population statistics: dementia is primarily a disease of old people, the majority of whom are women because women live longer.

In addition, and importantly from the viewpoint of individual health, women are more likely to have diagnosed dementia than men in  a given age range

European research has indicated that although at age 70, the prevalence of dementia is the same for men and women, it rapidly diverges in older age groups. By 85, women had a 40 per cent higher prevalence than men.

There could be many reasons for this. A recent research paper lists possibilities related to sex (differences in brain structure, impact of changes in hormones after menopause) and to gender (among current 85-year-olds, women tend to be less educated and less likely to have had intellectually demanding careers).

The third statistic mentioned in the Stat of the Week nomination was that “Women with Alzheimer’s disease (AD) pathology have a three-fold risk of being diagnosed with AD than men.”  This is from research looking at people’s brains.  Comparing people with similar amounts of apparent damage to their brains, women were more likely to be diagnosed with Alzheimer’s disease.

So, the differences in the summary statistics are because they are making different comparisons.

Statistical analysis of Alzheimer’s disease is complicated because the disease happens in the brain, where you can’t see. Definitive diagnosis and measurement of the biological disease process can only be done at autopsy. Practical clinical diagnosis is variable because dementia is a very late stage in the process, and different people take different amounts of neurological damage to get to that point.

 

June 10, 2015

Availability bias

Nathan Rarere, on this week’s Media Take, Mãori TV (video, about 18:35)

Everybody outside of Auckland thinks that Auckland is this incredible crime wave. Because you work in a newsroom and you’ve basically got a day to do the story, and you’ve got the car — “Where’re you taking it?” — you’ve got to sign it out and fill in the book, so whatever crime you can get to within about 55k of work.

NRL Predictions for Round 14

Team Ratings for Round 14

The basic method is described on my Department home page.

Here are the team ratings prior to this week’s games, along with the ratings at the start of the season.

Current Rating Rating at Season Start Difference
Roosters 8.81 9.09 -0.30
Broncos 6.79 4.03 2.80
Rabbitohs 6.46 13.06 -6.60
Cowboys 6.35 9.52 -3.20
Storm 5.38 4.36 1.00
Dragons 2.70 -1.74 4.40
Bulldogs -0.35 0.21 -0.60
Warriors -1.02 3.07 -4.10
Raiders -1.36 -7.09 5.70
Panthers -1.40 3.69 -5.10
Sea Eagles -3.17 2.68 -5.80
Knights -3.94 -0.28 -3.70
Eels -4.62 -7.19 2.60
Sharks -5.92 -10.76 4.80
Titans -6.02 -8.20 2.20
Wests Tigers -7.37 -13.13 5.80

 

Performance So Far

So far there have been 99 matches played, 57 of which were correctly predicted, a success rate of 57.6%.

Here are the predictions for last week’s games.

Game Date Score Prediction Correct
1 Broncos vs. Sea Eagles Jun 05 44 – 10 9.60 TRUE
2 Wests Tigers vs. Titans Jun 05 20 – 27 3.10 FALSE
3 Knights vs. Raiders Jun 06 22 – 44 3.90 FALSE
4 Panthers vs. Storm Jun 06 0 – 20 -1.20 TRUE
5 Rabbitohs vs. Warriors Jun 06 36 – 4 8.20 TRUE
6 Sharks vs. Roosters Jun 07 10 – 4 -14.60 FALSE
7 Bulldogs vs. Dragons Jun 08 29 – 16 -2.20 FALSE
8 Eels vs. Cowboys Jun 08 30 – 36 -8.30 TRUE

 

Predictions for Round 14

Here are the predictions for Round 14. The prediction is my estimated expected points difference with a positive margin being a win to the home team, and a negative margin a win to the away team.

Game Date Winner Prediction
1 Wests Tigers vs. Rabbitohs Jun 12 Rabbitohs -10.80
2 Warriors vs. Roosters Jun 13 Roosters -5.80
3 Titans vs. Bulldogs Jun 14 Bulldogs -2.70
4 Storm vs. Eels Jun 15 Storm 13.00