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PostPosted: Wed Sep 07, 2011 1:13 pm 
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http://www.recombinomics.com/News/09071 ... demic.html

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PostPosted: Wed Sep 07, 2011 1:39 pm 
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The sequences from all three PA patients are virtually identical to each other and the sequences from Indiana, signaling the trH3N2 pandemic.

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PostPosted: Wed Sep 07, 2011 2:26 pm 
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The title of the thread has been changed, since the earliest isolate was from a sample collected July 27 and a second sample was from August 25, while the fair was only open from August 13-20.

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PostPosted: Wed Sep 07, 2011 2:28 pm 
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niman wrote:
The title of the thread has been changed, since the earliest isolate was from a sample collected July 27 and a second sample was from August 25, while the fair was only open from August 13-20.

If one of these patients is still recovering, she has been infected with trH3N2 for almost 6 weeks.

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PostPosted: Wed Sep 07, 2011 3:04 pm 
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http://www.recombinomics.com/News/09071 ... r_NOT.html

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PostPosted: Wed Sep 07, 2011 3:38 pm 
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niman wrote:
NA from PA/09 somewhat different

EPI335612 A/Pennsylvania/09/2011 (A/H3N2) segment 6 (NA) 2564.3 0.000000e+00 1388/1388 (100%)
EPI314799 A/swine/Pennsylvania/602170-3/2010 (A/H3N2) segment 6 (NA) 2525.5 0.000000e+00 1381/1388 (99%)
EPI314797 A/swine/Pennsylvania/602170-1/2010 (A/H3N2) segment 6 (NA) 2525.5 0.000000e+00 1381/1388 (99%)
EPI291871 A/Pennsylvania/14/2010 (A/H3N2) segment 6 (NA) 2525.5 0.000000e+00 1381/1388 (99%)
EPI291869 A/Pennsylvania/14/2010 (A/H3N2) segment 6 (NA) 2525.5 0.000000e+00 1381/1388 (99%)
EPI291863 A/Pennsylvania/14/2010 (A/H3N2) segment 6 (NA) 2525.5 0.000000e+00 1381/1388 (99%)
EPI335620 A/Pennsylvania/11/2011 (A/H3N2) segment 6 (NA) 2514.4 0.000000e+00 1379/1388 (99%)
EPI324819 A/swine/North Carolina/A01049436/2011 (A/H3N2) segment 6 (NA) 2514.4 0.000000e+00 1379/1388 (99%)
EPI335631 A/Indiana/08/2011 (A/H3N2) segment 6 (NA) 2508.9 0.000000e+00 1378/1388 (99%)
EPI317026 A/swine/Indiana/A0109091/2010 (A/H3N2) segment 6 (NA) 2508.9 0.000000e+00 1378/1388 (99%)
EPI314798 A/swine/Pennsylvania/602170-2/2010 (A/H3N2) segment 6 (NA) 2508.9 0.000000e+00 1378/1388 (99%)
EPI314786 A/swine/Minnesota/A01047604/2010 (A/H1N2) segment 6 (NA) 2508.9 0.000000e+00 1378/1388 (99%)
EPI333151 A/Indiana/08/2011 (A/H3N2) segment 6 (NA) 2505.2 0.000000e+00 1377/1388 (99%)
EPI317022 A/swine/Iowa/A0109071/2010 (A/H1N2) segment 6 (NA) 2503.3 0.000000e+00 1377/1388 (99%)
EPI298488 A/swine/South Dakota/3/2010 (A/H1N2) segment 6 (NA) 2503.3 0.000000e+00 1377/1388 (99%)
EPI298485 A/swine/South Dakota/2/2010 (A/H1N2) segment 6 (NA) 2503.3 0.000000e+00 1377/1388 (99%)
EPI324820 A/swine/Iowa/A01049450/2011 (A/H1N2) segment 6 (NA) 2497.8 0.000000e+00 1376/1388 (99%)
EPI314800 A/swine/Pennsylvania/602170-4/2010 (A/H3N2) segment 6 (NA) 2497.8 0.000000e+00 1376/1388 (99%)
EPI307830 A/swine/South Dakota/4/2010 (A/H1N2) segment 6 (NA) 2497.8 0.000000e+00 1376/1388 (99%)
EPI220797 A/swine/Oklahoma/010710-9/2008 (A/H1N2) segment 6 (NA) 2420.2 0.000000e+00 1362/1388 (98%)
EPI220781 A/swine/Oklahoma/010226-17/2008 (A/H1N2) segment 6 (NA) 2420.2 0.000000e+00 1362/1388 (98%)
EPI220885 A/swine/Oklahoma/020736-2/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220877 A/swine/Oklahoma/020736-1/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220869 A/swine/Oklahoma/020734-3/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220837 A/swine/Oklahoma/011521-5/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220821 A/swine/Oklahoma/011289-9/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220813 A/swine/Oklahoma/011289-8/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220805 A/swine/Oklahoma/011289-10/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220789 A/swine/Oklahoma/010710-8/2008 (A/H1N2) segment 6 (NA) 2414.7 0.000000e+00 1361/1388 (98%)
EPI220853 A/swine/Oklahoma/016179-9/2008 (A/H1N2) segment 6 (NA) 2409.2 0.000000e+00 1360/1388 (97%)
EPI220845 A/swine/Oklahoma/016179-8/2008 (A/H1N2) segment 6 (NA) 2409.2 0.000000e+00 1360/1388 (97%)
EPI220773 A/swine/Oklahoma/010226-16/2008 (A/H1N2) segment 6 (NA) 2409.2 0.000000e+00 1360/1388 (97%)
EPI292300 A/swine/Oklahoma/44837-5/2010 (A/H1N2) segment 6 (NA) 2403.6 0.000000e+00 1359/1388 (97%)
EPI220934 A/swine/Texas/050625/2008 (A/H1N2) segment 6 (NA) 2403.6 0.000000e+00 1359/1388 (97%)
EPI220893 A/swine/Oklahoma/032726/2008 (A/H1N2) segment 6 (NA) 2403.6 0.000000e+00 1359/1388 (97%)
EPI220861 A/swine/Oklahoma/020734-2/2008 (A/H1N2) segment 6 (NA) 2403.6 0.000000e+00 1360/1389 (97%)
EPI220926 A/swine/Texas/050593/2008 (A/H1N2) segment 6 (NA) 2398.1 0.000000e+00 1358/1388 (97%)
EPI220829 A/swine/Oklahoma/011521-4/2008 (A/H1N2) segment 6 (NA) 2398.1 0.000000e+00 1358/1388 (97%)
EPI220909 A/swine/Oklahoma/053259/2008 (A/H1N2) segment 6 (NA) 2387.0 0.000000e+00 1357/1389 (97%)
EPI220901 A/swine/Oklahoma/042169/2008 (A/H1N2) segment 6 (NA) 2364.8 0.000000e+00 1352/1388 (97%)
EPI312699 A/swine/Minnesota/239106/2010 (A/H1N2) segment 6 (NA) 2359.3 0.000000e+00 1351/1388 (97%)
EPI219362 A/swine/Kansas/015252/2009 (A/H3N2) segment 6 (NA) 2359.3 0.000000e+00 1351/1388 (97%)
EPI219370 A/swine/Oklahoma/001142/2009 (A/H3N2) segment 6 (NA) 2353.8 0.000000e+00 1350/1388 (97%)
EPI315843 A/swine/South Dakota/5/2011 (A/H1N2) segment 6 (NA) 2331.6 0.000000e+00 1346/1388 (96%)
EPI315846 A/swine/South Dakota/6/2011 (A/H1N2) segment 6 (NA) 2320.5 0.000000e+00 1344/1388 (96%)
EPI292291 A/swine/North Carolina/44837-2/2009 (A/H1N2) segment 6 (NA) 2298.4 0.000000e+00 1341/1389 (96%)
EPI229374 A/turkey/OH/313053/2004 (A/H3N2) segment 6 (NA) 2276.2 0.000000e+00 1336/1388 (96%)
EPI101393 A/turkey/Ohio/313053/04 (A/H3N2) segment 6 (NA) 2276.2 0.000000e+00 1336/1388 (96%)
EPI235273 A/swine/North Carolina/2003 (A/H3N2) segment 6 (NA) 2259.6 0.000000e+00 1334/1389 (96%)
EPI228924 A/turkey/Illinois/2004 (A/H3N2) segment 6 (NA) 2259.6 0.000000e+00 1334/1389 (96%)
EPI227576 A/turkey/NC/353568/2005 (A/H3N2) segment 6 (NA) 2259.6 0.000000e+00 1334/1389 (96%)
EPI103158 A/swine/British Columbia/28103/2005 (A/H3N2) segment 6 (NA) 2259.6 0.000000e+00 1333/1388 (96%)
EPI182818 A/swine/Quebec/4001/2005 (A/H3N2) segment 6 (NA) 2248.5 0.000000e+00 1331/1388 (95%)
EPI314333 A/turkey/BC/1529-3/2005 (A/H3N2) segment 6 (NA) 2243.0 0.000000e+00 1331/1389 (95%)
EPI234591 A/swine/SD/31813/2009 (A/H1N2) segment 6 (NA) 2243.0 0.000000e+00 1330/1388 (95%)
EPI168652 A/turkey/North Carolina/353568/2005 (A/H3N2) segment 6 (NA) 2243.0 0.000000e+00 1331/1389 (95%)
EPI103194 A/swine/Ontario/33853/2005 (A/H3N2) segment 6 (NA) 2243.0 0.000000e+00 1330/1388 (95%)
EPI103176 A/swine/Manitoba/12707/2005 (A/H3N2) segment 6 (NA) 2243.0 0.000000e+00 1330/1388 (95%)
EPI103122 A/Ontario/RV1273/2005 (A/H3N2) segment 6 (NA) 2243.0 0.000000e+00 1330/1388 (95%)
EPI103212 A/turkey/Ontario/31232/2005 (A/H3N2) segment 6 (NA) 2237.4 0.000000e+00 1330/1389 (95%)
EPI225757 A/swine/Minnesota/66960/2006 (A/H3N2) segment 6 (NA) 2231.9 0.000000e+00 1329/1389 (95%)
EPI222962 A/swine/Minnesota/761/2007 (A/H3N2) segment 6 (NA) 2231.9 0.000000e+00 1328/1388 (95%)
EPI158878 A/turkey/MN/366767/2005 (A/H3N2) segment 6 (NA) 2231.9 0.000000e+00 1329/1389 (95%)
EPI222956 A/swine/Minnesota/1300/2007 (A/H3N2) segment 6 (NA) 2226.3 0.000000e+00 1328/1389 (95%)
EPI168647 A/turkey/Minnesota/366767/2005 (A/H3N2) segment 6 (NA) 2226.3 0.000000e+00 1328/1389 (95%)
EPI103140 A/swine/Alberta/14722/2005 (A/H3N2) segment 6 (NA) 2226.3 0.000000e+00 1328/1389 (95%)
EPI39270 A/Waikato/31/2002 (A/H3N2) segment 6 (NA) 2226.3 0.000000e+00 1328/1389 (95%)
EPI38479 A/Wellington/9/2002 (A/H3N2) segment 6 (NA) 2226.3 0.000000e+00 1328/1389 (95%)
EPI35097 A/Waikato/21/2002 (A/H3N2) segment 6 (NA) 2226.3 0.000000e+00 1328/1389 (95%)
EPI161351 A/Hong Kong/CUHK23111/2002 (A/H3N2) segment 6 (NA) 2220.8 0.000000e+00 1327/1389 (95%)
EPI161274 A/Hong Kong/CUHK13216/2002 (A/H3N2) segment 6 (NA) 2215.3 0.000000e+00 1326/1389 (95%)
EPI52667 A/New York/14/2003 (A/H3N2) segment 6 (NA) 2215.3 0.000000e+00 1325/1388 (95%)
EPI320283 A/Missouri/NHRC0002/2004 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI319018 A/California/NHRC0006/2003 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI234733 A/Florida/23/2003 (A/H0N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI222653 A/swine/Minnesota/1145/2007 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI161329 A/Hong Kong/CUHK21582/2002 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1325/1389 (95%)
EPI161275 A/Hong Kong/CUHK13249/2002 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1325/1389 (95%)
EPI139315 A/Denmark/4/2002 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1325/1389 (95%)
EPI139304 A/Denmark/01/2002 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1325/1389 (95%)
EPI94378 A/Canterbury/56/2002 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1325/1389 (95%)
EPI54074 A/New York/58/2003 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI52383 A/New York/46/2003 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI38498 A/Waikato/25/2002 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1325/1389 (95%)
EPI27762 A/New York/31/2004 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI27705 A/New York/15/2003 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI27059 A/New York/47/2003 (A/H3N2) segment 6 (NA) 2209.7 0.000000e+00 1324/1388 (95%)
EPI234964 A/Washington/27/2003 (A/H0N2) segment 6 (NA) 2206.0 0.000000e+00 1323/1388 (95%)
EPI318658 A/Missouri/NHRC0001/2002 (A/H3N2) segment 6 (NA) 2204.2 0.000000e+00 1324/1389 (95%)
EPI291821 A/Michigan/09/2007 (A/H1N2) segment 6 (NA) 2204.2 0.000000e+00 1324/1389 (95%)
EPI234830 A/New Mexico/23/2003 (A/H0N2) segment 6 (NA) 2204.2 0.000000e+00 1323/1388 (95%)
EPI234828 A/New Mexico/17/2003 (A/H0N2) segment 6 (NA) 2204.2 0.000000e+00 1323/1388 (95%)
EPI234722 A/Colorado/7/2003 (A/H0N2) segment 6 (NA) 2204.2 0.000000e+00 1323/1388 (95%)
EPI234667 A/Arizona/43/2003 (A/H0N2) segment 6 (NA) 2204.2 0.000000e+00 1323/1388 (95%)
EPI234666 A/Arizona/32/2003 (A/H0N2) segment 6 (NA) 2204.2 0.000000e+00 1323/1388 (95%)
EPI222960 A/swine/Minnesota/578/2007 (A/H3N2) segment 6 (NA) 2204.2 0.000000e+00 1324/1389 (95%)
EPI184450 A/swine/North Carolina/R08-001877-D08-013371/2008 (A/H3N2) segment 6 (NA) 2204.2 0.000000e+00 1324/1389 (95%)
EPI182825 A/mink/Nova Scotia/1055488/2007 (A/H3N2) segment 6 (NA) 2204.2 0.000000e+00 1325/1390 (95%)
EPI161483 A/Hong Kong/CUHK6210/2002 (A/H3N2) segment 6 (NA) 2204.2 0.000000e+00 1324/1389 (95%)
EPI161482 A/Hong Kong/CUHK6206/2002 (A/H3N2) segment 6 (NA) 2204.2 0.000000e+00 1324/1389 (95%)

NA differences suggest patient from Schuylkill County may have been infected in EASTERN Pennsylvania.

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PostPosted: Wed Sep 07, 2011 4:38 pm 
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http://www.recombinomics.com/News/09071 ... pread.html

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PostPosted: Thu Sep 08, 2011 1:21 am 
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The CDC has updated to age of the Indiana case to 2, consistent with media reports. There are two isolates from this case. One is a clone from Indiana and the other is an original from University of Pittsburgh. Most or all gene segments are identical.

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PostPosted: Thu Sep 08, 2011 1:39 am 
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niman wrote:
The CDC has updated to age of the Indiana case to 2, consistent with media reports. There are two isolates from this case. One is a clone from Indiana and the other is an original from University of Pittsburgh. Most or all gene segments are identical.

I just went through all gene segments. There is one difference in NA and two diiferences in MP. The other six gene segments are identical (no internet babble required).

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PostPosted: Thu Sep 08, 2011 12:48 pm 
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niman wrote:
niman wrote:
The CDC has updated to age of the Indiana case to 2, consistent with media reports. There are two isolates from this case. One is a clone from Indiana and the other is an original from University of Pittsburgh. Most or all gene segments are identical.

I just went through all gene segments. There is one difference in NA and two diiferences in MP. The other six gene segments are identical (no internet babble required).

For those who may be confused by some of the utter nonsense posted on babble boards regarding multiple cases or a link between the Indiana case and Pennsylvania, the nonsense is PURE internet babble by those who can't read entries, or those who rely on the nonsense to create more nonsense.

This case is a 2M. The CDC originally listed the age and gender as 1M. Two samples were collected, on July 24 and July 27 in Indiana. The July 24 sample was cloned 3X and sequenced by the CDC. That full sequence for all 8 gene segments was published last month and it is virtually identical to the 3 cases in PA (including M gene from H1N1). The July 27 sample was sent to the University of Pittsburgh and then to the CDC, who sequenced the original sample. Both sequences have the same name, A/Indiana/08/2011, and both sets of sequences are virtually identical.

These two sets of sequences represent 1 case (2M) who was described a week ago in the eaarly release MMWR. The story is VERY straight forward - no hidden / unreported cases, and no connection to Pennsylvania, Washington County, fairs in PA ir anywhere else, or Pittsburgh / UPMC, or any additional nonsense posted on the babble boards.

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