Senior Epidemiologist & Research Head at Taiwan CDC since 2002. Principal Investigator of COVID and Emerging Infectious Diseases. Views are my own.
Taipei, Taiwan
Joined May 2009
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Cheng-Yi Lee, PhD. retweeted
11/5日、韓国が44件のseq データを提出。検体採取は9/3~10/7。44件中43件がNB.1.8.1系統（他の1件はXFG*のSW.2.1)で、内訳は下表の通りです。最下位の系統名 (Sub-lineage）はNextcladeの分類に従いました。
NB.1.8.1系統が圧倒的なシェアを占めているのは韓国に限らず、中国、シンガポールなどアジア地域で広く見られ、日本でもBA.3.2からNB.1.8.1*への置き換わりが進みつつあります。これは、XFGの多様な亜系統が分化し、支配的なシェアを占める多くの欧米諸国の状況とは対照的です。
Cheng-Yi Lee, PhD. retweeted
SARS-CoV-2 mit einer 3- bis 4-mal höheren Sterblichkeitsbelastung verbunden als Influenza A vor der Pandemie
»Atemwegsviren tragen maßgeblich zur Sterblichkeit in der Bevölkerung bei, doch die Todesursachenkodierung erfasst ihren Einfluss nur unzureichend. Die Daten legen nahe,
ALT Fig. 3 Population attributable fraction (PAF) of mortality for respiratory viruses, by modelling approach and time period. Forest plot of stratum-specific PAF estimates with 95% confidence intervals for all respiratory viruses combined, influenza A, influenza B, respiratory syncytial virus (RSV), and SARS-CoV-2. For each virus, estimates are shown with and without Fast Fourier Transform (FFT) seasonal adjustment, for the pre-pandemic (Jan. 1993–Feb. 2020) and pandemic (March 2020–February 2025) periods. For SARS-CoV-2, estimates are shown for the combined pandemic period and, as exploratory analyses, for the PHEIC (March 2020–April 2023; n = 38 months) and post-PHEIC (May 2023–February 2025; n = 22 months) sub-periods; primary inference rests on the combined pandemic estimate. Points represent PAF estimates and horizontal lines indicate 95% confidence intervals. FFT, Fast Fourier Transform; PAF, population attributable fraction; PHEIC, Public Health Emergency of International Concern.
New paper out in Lancet Regional Health Americas, with Alicia Grima, Natalie Wilson, Simran Mann, Ashleigh Tuite and Clara Lee. How many Ontario deaths are attributable to respiratory viruses, and how does SARS-CoV-2 compare to flu? 🧵 doi.org/10.1016/j.lana.2026.…
Cheng-Yi Lee, PhD. retweeted
Death certificates undercount viral deaths. Flu kills people through heart attacks, strokes and secondary bacterial infections that never get coded as flu. So we used 30+ years of monthly all-cause deaths (1993-2025) for Ontario and asked how mortality moves when each virus circulates.
Cheng-Yi Lee, PhD. retweeted
New paper out in Lancet Regional Health Americas, with Alicia Grima, Natalie Wilson, Simran Mann, Ashleigh Tuite and Clara Lee. How many Ontario deaths are attributable to respiratory viruses, and how does SARS-CoV-2 compare to flu? 🧵 doi.org/10.1016/j.lana.2026.…
Cheng-Yi Lee, PhD. retweeted
Nieuwe studie in The Lancet: Covid-19 is niet "zoals griep".
Covid-19 heeft een 3-4x hogere sterftelast dan influenza A.
Na mei 2023 is Covid-19 nog steeds verantwoordelijk voor 9,8% van alle sterfgevallen.
thelancet.com/journals/lanam…
New paper out in Lancet Regional Health Americas, with Alicia Grima, Natalie Wilson, Simran Mann, Ashleigh Tuite and Clara Lee. How many Ontario deaths are attributable to respiratory viruses, and how does SARS-CoV-2 compare to flu? 🧵 doi.org/10.1016/j.lana.2026.…
Cheng-Yi Lee, PhD. retweeted
Covid Hospital Admissions in England
In Week 43, ending 25 October 2026, the SARI weekly hospital admission rate for Covid-19 increased to 2.8 per 100,000.
Modelling based on the ONS WCIS data suggests a SARS-CoV-2 infection prevalence of 1 in 71.
(UKHSA data, @gwladwr chart)
Cheng-Yi Lee, PhD. retweeted
Well this is interesting
After 2y we abandoned Covid precautions in the community
Sent lots of Covid cases to Emergency Dept,
And lots of Covid-assisted cases,
Then stopped wearing masks in hospital,
And our EDs have since become backed up beyond recognition
I wonder if there is any connection
Hmm
🤨 🧐 🤔
Cheng-Yi Lee, PhD. retweeted
When Sen. Chris Murphy, 53, was hospitalized after a stroke Saturday, he became a high-profile example of what may be a troubling trend: Strokes seem to be more common in younger adults than they were in the past. wapo.st/4zIDqRn
Cheng-Yi Lee, PhD. retweeted
H5 tree with "newly added" sequence
A/Washington/UW-110701/2026 | 10/29/26
Closely related to
A/Washington/198/2026 | 10/12/26
May be 2nd collection (sequenced by University of Washington)
from 1st patient (sequenced by CDC)
Cheng-Yi Lee, PhD. retweeted
H5N1 Bird Flu continues spreading among US dairy cattle. Washington has reported 6 more infected herds, bringing the total to 40 since October 8. Indiana has confirmed its first H5N1-infected dairy herd.
afludiary.blogspot.com/2026/…
🤖 Made with AI
Cheng-Yi Lee, PhD. retweeted
A new meta-analysis of 58 studies involving 196,863 people found persistent symptoms after COVID-19.
Fatigue affected 29%, breathing difficulties 16%, and joint pain 12%.
Years into this pandemic, the burden of Long COVID remains substantial.
onlinelibrary.wiley.com/doi/…
Cheng-Yi Lee, PhD. retweeted
Three human H5N1 cases in Washington, and 1 death. Eventually, this is going to escalate. We’ve had 4 years to prepare since the first human case was reported in 2022, but sadly our elected officials don’t work for us. komonews.com/news/local/yaki…
Cheng-Yi Lee, PhD. retweeted
A/Washington/UW-110701/2026 | 10/29/26
closely related to the first human B3.13 genotype sequence from Washington State
A/Washington/198/2026 | 10/12/26
Neither have significant H5 changes
The latter case does have PB2 A676T which is a mammalian adaptation
May be from fatal case
Cheng-Yi Lee, PhD. retweeted
PB2 tree with "newly added" sequence A/Washington/UW-110701/2026 | 10/29/26
Closely related to A/Washington/198/2026 | 10/12/26
May be 2nd collection (sequenced by University of Washington) from 1st patient (sequenced by CDC)
Cheng-Yi Lee, PhD. retweeted
ワシントン州で10/29日、ヤマキ郡の乳牛からの2例目のH5N型鳥インフルのヒトへの感染事例が発生。感染者は基礎疾患があり、重症化し入院していたが11/1日に死亡。さらに3人目の感染者の陽性例も確認されたが、軽症で入院はしていない。outbreaknewstoday.substack.c…
ワシントン州で10/8日にH5N1型高病原性鳥インフルエンザの乳牛への感染とその1週間後に感染乳牛からヒトへの感染事例が確認されました。10/23日にゲノムseqがGISAIDへアップロード。感染者は重症化しておらず自宅で隔離措置。州保健局は一般市民への感染リスクは低いと評価。
natureworldnews.com/articles…
Cheng-Yi Lee, PhD. retweeted
We spent decades teaching people that cancer is mostly bad luck, bad genes, or bad habits.
Then you find out 2.3 million cases in a single year were attributable to infections.
Infections were responsible for 2.3 million new cancer cases in 2024, 12% of total global cases that year, a study has found.
The research found Helicobacter pylori to be the leading infectious cause of cancer
bmj.com/content/395/bmj-2026…
Cheng-Yi Lee, PhD. retweeted
Two human cases of bird flu in Yakima County, including one patient hospitalized with severe illness, are concerning reminders that this threat continues even as attention fades.
We need timely information on:
1️⃣ Genomic sequencing from both cases to assess relatedness and any concerning viral changes.
2️⃣ Detailed exposure histories, including any shared exposures or possible epidemiologic links.
3️⃣ Patients’ symptoms and clinical course.
4️⃣Treatments received and outcomes.
Just because we want to ignore infectious diseases doesn’t mean they’ve gone away. The pathogens remain and continue to evolve which is why surveillance is critical.
yakimacounty.us/DocumentCent…
