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Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
Late today, 2014-01-07, a deposit arrived at <strong>GISAID</strong> dated 2014-01-06 by the <span style="color: #783f04;"><b>United States CDC</b></span> of 10 <b><span style="color: #632423; font-family: "Trebuchet MS";">pH1N1</span></b> sequences sampled from mid-September to early December 2013. Geographic surveillance shows a 50 / 50 split between <b>America</b> and several<b> tropical nations.</b>
. . .
Read the Open-Access, Full-Text
Investigational Analytic
including Genetic Details
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1Drug ResistantVaccine Escape
Winter 2013
Data Sparsity
2014-01-08-16:30
Close of Business, Atlanta
Although Drug Resistance and Vaccine Escape continue to be reported around the country, including the US Navy, NO sequences have been deposited covering the geography and time period for American states that are experiencing severe and fatalpH1N1 Influenza.
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1Drug ResistantVaccine Escape
Winter 2013
Data Sparsity
2014-01-09-16:30
Close of Business, Atlanta
Although Drug Resistance and Vaccine Escape continue to be reported around the country, including the US Navy, NO sequences have been deposited covering the geography and time period for American states that are experiencing severe and fatalpH1N1 Influenza.
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1Drug ResistantVaccine Escape
Winter 2013
Data Sparsity
2014-01-10-20:00
Close of Business / Close of Week, Atlanta
Although Drug Resistance and Vaccine Escape continue to be reported around the country, including the US Navy, NO sequences have been deposited covering the geography and time period for American states that are experiencing severe and fatalpH1N1 Influenza.
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1Drug ResistantVaccine Escape
Winter 2013
Data Sparsity
2014-01-13-17:30
Close of Business, Atlanta
Although Drug Resistance and Vaccine Escape continue to be reported around the country, including the US Navy, NO sequences have been deposited covering the geography during 2013 Weeks 51 and 52 for American states that are experiencing severe and fatalpH1N1 Influenza.
Today, 2014-01-13, the United States CDC released sequences that are variously backdated as having been published on 2014-01-09 and 2014-01-10. The most current sequence was sampled on 2013-12-09, a week prior to the major escalation.
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1Drug ResistantVaccine Escape
Winter 2013
Data Sparsity
2014-01-15-17:30
Close of Business, Atlanta
Although Drug Resistance and Vaccine Escape continue to be reported around the country, including the US Navy, NO sequences have been deposited covering the geography during 2013 Weeks 51 and 52 for American states that are experiencing severe and fatalpH1N1 Influenza.
On 2014-01-13, the United States CDC released sequences that were variously backdated as having been published on 2014-01-09 and 2014-01-10. The most current sequence was sampled on 2013-12-09, a week prior to the major escalation.
Today, 2014-01-15, the WHO Chinese National Influenza Center released sequences dated 2014-01-15 with multiple manifestations of Vaccine Escape via Receptor Binding Variance and multiple mechanisms of TamiFlu Resistance.
A sequence from Chongqing, China demonstrates GenoTypic Vaccine EscapeANDTamiFlu Resistance in a toddler during October 2013.
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1Drug ResistantVaccine Escape
Winter 2013
Data Sparsity
2014-01-16-20:00
Close of Business, Atlanta
Although Drug Resistance and Vaccine Escape continue to be reported around the country, including the US Navy, ONE sequence has been deposited covering the geography during 2013 Weeks 51 and 52 for American states that are experiencing severe and fatalpH1N1 Influenza.
On 2014-01-13, the United States CDC released sequences that were variously backdated as having been published on 2014-01-09 and 2014-01-10. The most current sequence was sampled on 2013-12-09, a week prior to the major escalation.
At Close of Business today, 2014-01-16, the United States CDC released sequences that were backdated as having been published on 2014-01-15. Of the 20 carefully selected sequences, exactly zero are annotated as to clinical outcome and vaccination status. Precisely that same number were grown in a passage strategy employing egg media.
Five sequences were deemed ideal for deposit with sample dates at the beginning of December's third week, ONE in a state experiencing high morbidity:
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1Drug ResistantVaccine Escape
Winter 2013
Data Sparsity
2014-01-17-19:30
Close of Business Week, Atlanta
Although Drug Resistance and Vaccine Escape continue to be reported around the country, including the US Navy, ONE sequence has been deposited covering the geography during 2013 Weeks 51 and 52 for American states that are experiencing severe and fatalpH1N1 Influenza.
GISAID Delta
2014-01-13
On 2014-01-13, the United States CDC released sequences that were variously backdated as having been published on 2014-01-09 and 2014-01-10. The most current sequence was sampled on 2013-12-09, a week prior to the major escalation.
GISAID Delta
2014-01-16
At Close of Business yesterday, 2014-01-16, the United States CDC released sequences that were backdated as having been published on 2014-01-15. Of the 20 carefully selected sequences, exactly zero are annotated as to clinical outcome and vaccination status. Precisely that same number were grown in a passage strategy employing egg media.
Five sequences were deemed ideal for deposit with sample dates at the beginning of December's third week, ONE in a state experiencing high morbidity:
Texas and California, geographies undergoing High Case Fatality events, are not represented in the 2014-01-16 United States CDC deposit.
GISAID Delta
2014-01-17
At Close of Business today, 2014-01-17, the United States CDC added 2 new international sequences that were backdated and interspersed as having been published on 2014-01-15*. Additionally at Close of Business today, 2014-01-17, the United States CDC added 5 new US sequences that were backdated and interspersed as having been published on 2014-01-10* and 2014-01-09*. Each new sequence also had a delta modification date indicated as 2014-01-17. One of the 20 carefully selected sequences from yesterday's backdated deposit was also marked with a modification date of 2014-01-17, although no modification is seen on the entry metadata or sequence information.
Kenya *
Vietnam *
Iowa
Alabama *
Arkansas *
Mississippi *
Oregon *
Nevada *
When we saw today's stated update, we were hopeful of at least one annotation for clinical outcome or vaccination status.
But our hope was misplaced.
GISAID
Audit Standards
Evidently, the larger organisations understand how to exploit the lack of basic audit standards within GISAID systems.
The existing ability for organisations to slip in current work that they backdate with an arbitrary earlier date creates openings for data abuse, research anomaly and the potential for misleading the public using fraudulent research. No argument needs to made that point-in-time snapshots, factual observations, are the bedrock of scientific progress.
We have made multiple, detailed enquiries to GISAID concerning these significant holes that prevent basic research conclusions and comprehensive analyses. No revision schedule has been communicated; although, system revision is occurring with various updates installed from time to time without announcement, including recent system software mods during this peak season of usage.
Perhaps system design is outsourced to the larger member organisations who have a vested interest in preserving the security flaws and the backdoors around audits? The lack of transparency, this hegemony of monopoly, generally points to a foundational, even philosophical, error in the institution's experimental basis . . . intentions notwithstanding.
*New Sequence on 2014-01-17 at Close of Business with a backdatedarbitrary Submission Date of 2014-01-15 *New Sequence on 2014-01-17 at Close of Business with a backdatedarbitrary Submission Date of 2014-01-10 *New Sequence on 2014-01-17 at Close of Business with a backdatedarbitrary Submission Date of 2014-01-09
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1
Data Sparsity Egg Passage Winter 2013
2014-01-18-21:30
At the WeekEnd, Atlanta
A December Void
During the minimal pH1N1 case count in the Northern Hemisphere's 2012 season and post-season, the US CDC demonstrated the experimental importance of Egg Passage strategies. Variant polymorphisms known to drive deep lung involvement in humans were surfaced repeatedly from quasi-species. That egg-based experimentation was considered valuable and was pursued throughout much of 2013, but evidently not to quantify the actual circulating pH1N1 viral population . . . because the production came to a full halt at the moment that the US flu season's high fatality rates became public due to an unexpected re-emergence of pH1N1.
Prior to the beginning of the present US season, experimental devotion was clear with seventeen sequences published on Egg Passaging having sample dates BETWEEN seasons, a much-appreciated and long overdue analysis bed. That high interest from the depositing organisation, however, waned just as the infective period of actionable usefulness began. After the four mid-November US samples from egg-based passages (concentrated six day period), no further information has been provided.
Silence isNOTGolden
Few explanations satisfy the fact of publication quiescence . . .
Few indeed, unless we consider that the intent of this egg-based benchwork may have been to suggest that the dangerous polymorphisms were "artifacts", a managed message stream flowing from these agencies since 2009 via all outbound portals. Even a passing view of their results shows genetic incongruity to that hypothesis. The public health monopoly's campaign to marginalise the experimental evidence with their tiresome, "artifact of egg passaging" explanation cannot be supported by their genetic outputs.
Flashfires of dominantpH1N1 populations carrying accumulations of those dangerous polymorphisms began as early as the summer of 2013 and then impacted with full force in December 2013. The High-CFRUpsilon subclade's polymorphic set re-emerged. As individual geographies moved into the highest fatality and severity yet seen since modern records have been collected, the public health leaders responded by markedly reducing usable surveillance.
Eight Weeks
During the period from November 19, 2013 to today, no sample has been published with a sequence generated upon an Egg-Based Passage strategy.
During this predictable epidemic with geographically-focal high severity and high fatality, the most relevant information has been withheld for eight weeks.
By those we've trusted to protect our children's lives.
During 4 weeks of fatality intensity, only one sequence has been deposited covering the geography and time period of the high intensity events.
Are we able to measure intent from these actions? Are we satisfied with political utility being the primary measure of our public health organisations?
More importantly, is mission failure driving this silence?
Re: Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
pH1N1 Risk Factor Assessment
Data Sparsity Winter 2013
2014-01-23-19:00
Close of Business, Atlanta
Although Drug Resistance and Vaccine Escapecontinue to be reported around the country, including the US Navy [FT#519276], a single sequence has been deposited covering the geography during 2013 Weeks 51 and 52 for American states that are experiencing severe and fatalpH1N1 Influenza. Federal health officials did recently find the resources to selectively make public 77 more sequences for the United States sampled during November and early December 2013 - prior to the High Intensity events.
One sequence is not enough to build an understanding of the virus placing vaccinated, healthy young adults into Critical Care units around the nation.
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Analysis - pH1N1 US and Tropical Nations: CDC Fall 2013
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