Showing posts with label incidence. Show all posts
Showing posts with label incidence. Show all posts

Wednesday, May 20, 2009

Mapping H1N1

A QUANTUM OF SCIENCE

Where in the world is H1N1?

The spread of H1N1 around the world has significant implications for the etiology and epidemiology of the disease, as well as the global health infrastructure’s response to it. Raw numbers alone do not tell the story as well as this single image, taken from the WHO pandemic alert and response website.

This map is current: as of today there are a global total of 10,243 laboratory-confirmed cases of H1N1 influenza that have been reported to the WHO, including 80 deaths (making the global mortality rate one death out of every 128 cases). While the actual number of total cases is inevitably somewhat higher due to the lagging nature of lab confirmations and reporting, what is more interesting is the distribution of the cases – and deaths – and what this might tell us about the past and future of H1N1.

Originally dubbed as Swine Flu, the official name for this strain of H1N1 is North American influenza, and indeed the overwhelming majority of the cases are in North America (93.8%). What is interesting to note is that 79 of the 80 confirmed deaths are also in North America (98.75%). Digging a little deeper into the distribution of deaths, we find that this is due to the large contribution of deaths from H1N1 in Mexico, where the mortality rate is one death for every 50.6 cases. That is two and a half times the global mortality rate, and eighteen times the mortality rate in the adjacent United States. With the sequencing of the H1N1 genome in Canada that was announced yesterday, no significant differences were found in strains isolated in Mexico versus those in the United States or Canada. While this is somewhat reassuring because it means there is not a more virulent strain on the loose in Mexico, it requires a different explanation. Some authorities have suggested Mexico has deficiencies in its health infrastructure, but others cite a cultural inhibition that may play a more pervasive role in preventing infected persons from seeking help until it is too late. In either case, however, countries with similar health infrastructures and cultures would be expected to have a similar mortality rate, and this has not yet been borne out (as the map’s number for Central and South America show).

Another point of interest brought out by the map of H1N1 cases to date are the non-North American hot spots. Japan is the leader of these, with 210 cases, followed almost evenly by Spain (107) and the United Kingdom (102). What is interesting about this is the far-flung locations of the hotspots outside North America. Nothing like the close distribution of cases in Mexico-US-Canada have been seen in these Asian and European hotspots. This could mean that there is something particular to North America that supports the infectivity of the viral strain; or it could mean that it is simply too soon, and the neighbors of these hotspots will soon show a commensurate rise in cases. It is worth noting that strains of influenza are known to show a strong geographical preference; the deadly Bird flu (H5N1) is almost unknown outside of the Far East, for reasons that scientists are still trying to elucidate. This also brings up the potential for reassortment of viral genes between H1N1 and H5N1, now that the former has entered the latter’s territory. Still, Japan has been aggressive about treating flu cases and currently Roche (the maker of Tamiflu) estimates that 35 million of the 50 million people who have been treated with Tamiflu are in Japan. It can be hoped that this aggressive treatment schedule will be effective in containing the possible hybridization of H1N1 with H5N1.

For more information:
WHO Epidemic and Pandemic Alert and Response

WHO H1N1 map (20-May-2009 version)

Tamiflu (Oseltamivir) information, including use in Japan

© A Quantum of Science / Peter Smalley (2009)
Reproduction with attribution is appreciation

Monday, May 18, 2009

Quantum: Counting H1N1

A QUANTUM OF SCIENCE

First let's tackle the jargon.

Prevalence is the total number of cases of a disease or infection in a given population. The important thing to remember about prevalence is that it is all the cases, not just the new ones, so the longer it takes to recover from a particular infection, the higher the prevalence will be. Most of the H1N1 figures you hear or read about are prevalence numbers, and as such are not as accurate a reflection as they might be.

Incidence is the rate at which new cases occur in a population, and is a better measure of how fast a disease is spreading because it takes out the duration-of-illness factor included in prevalence. Incidence is usually reported per capita ("3 new infections per 1000 people") or even with a time-element ("14 per 1000 persons-years"). The latter is useful because it lets researchers compare the instantaneous rate of a disease’s spread even in disparate time periods (for example, an incidence of 14 per 1000 persons-years could mean 14 cases would be expected for 1000 persons observed for 1 year, or 50 persons observed for 20 years). The only caveat to this use of incidence is the assumption that the rate will always be linear over the period in question, so longer time periods are more susceptible to incidence errors.

Finally there is the reproduction ratio, which is a measure of how many people each infected person will spread the disease to before they recover. In order for a disease to spread at all that ratio has to be greater than 1 (such that each infected person infects at least one more person). Up to now the ratios estimated for H1N1 Swine flu have been between 1.4 and 1.6. Recently, however, researchers at the National Institute of Health and Medical Research in Paris have re-estimated the ratio using some different assumptions and found it to be between 2.2 and 3.1 in Mexico, well within the range of numbers required for a pandemic. With the recent report of 135 new cases of H1N1 in Japan, the World Health Organization still denies an official pandemic is underway but evidence is mounting that H1N1 may have a higher incidence than previously thought.

For more information:
http://blogs.sciencemag.org/scienceinsider/2009/05/swine-flus-rate.html

http://blogs.sciencemag.org/scienceinsider/2009/05/h1n1-rocks-japa.html

http://www.eurosurveillance.org/ViewArticle.aspx?ArticleId=19205

© A Quantum of Science / Peter Smalley (2009)
Reproduction with attribution is appreciation