Single-cell transcriptional landscapes reveal HIV-1–driven aberrant host gene transcription as a potential therapeutic target

Runxia Liu; Yang-Hui Jimmy Yeh; Ales Varabyou; Jack A. Collora; Scott Sherrill-Mix; C. Conover Talbot; Sameet Mehta; Kristen Albrecht; Haiping Hao; Hao Zhang; Ross A. Pollack; Subul A. Beg; Rachela M. Calvi; Jianfei Hu; Christine M. Durand; Richard F. Ambinder; Rebecca Hoh; Steven G. Deeks; Jennifer Chiarella; Serena Spudich; Daniel C. Douek; Frederic D. Bushman; Mihaela Pertea; Ya-Chi Ho

doi:10.1126/scitranslmed.aaz0802

Research ArticleHIV

Single-cell transcriptional landscapes reveal HIV-1–driven aberrant host gene transcription as a potential therapeutic target

View ORCID ProfileRunxia Liu¹,*,
View ORCID ProfileYang-Hui Jimmy Yeh¹,*,
View ORCID ProfileAles Varabyou²,*,
View ORCID ProfileJack A. Collora¹,
View ORCID ProfileScott Sherrill-Mix³,
C. Conover Talbot Jr.⁴,
View ORCID ProfileSameet Mehta⁵,
View ORCID ProfileKristen Albrecht¹,
View ORCID ProfileHaiping Hao⁴,
Hao Zhang⁶,
Ross A. Pollack⁷,
View ORCID ProfileSubul A. Beg⁷,
Rachela M. Calvi⁸,
Jianfei Hu⁹,
View ORCID ProfileChristine M. Durand⁷,
View ORCID ProfileRichard F. Ambinder⁷,
View ORCID ProfileRebecca Hoh¹⁰,
View ORCID ProfileSteven G. Deeks¹⁰,
Jennifer Chiarella⁸,
Serena Spudich⁸,
Daniel C. Douek⁹,
View ORCID ProfileFrederic D. Bushman³,
Mihaela Pertea²,¹¹ and
View ORCID ProfileYa-Chi Ho¹,†

¹Department of Microbial Pathogenesis, Yale University School of Medicine, New Haven, CT 06519, USA.
²Department of Computer Science, Whiting School of Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.
³Department of Microbiology, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA.
⁴Institute for Basic Biomedical Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.
⁵Yale Center for Genome Analysis, Yale University, New Haven, CT 06519, USA.
⁶Department of Molecular Microbiology and Immunology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA.
⁷Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
⁸Department of Neurology, Yale University School of Medicine, New Haven, CT 06519, USA.
⁹Vaccine Research Center, National Institute of Health, Bethesda, MD 20892, USA.
¹⁰Department of Medicine, University of California, San Francisco, CA 94110, USA.
¹¹Department of Biomedical Engineering, Whiting School of Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

↵†Corresponding author. Email: ya-chi.ho{at}yale.edu

↵* These authors contributed equally to this work.

See allHide authors and affiliations

Science Translational Medicine 13 May 2020:
Vol. 12, Issue 543, eaaz0802
DOI: 10.1126/scitranslmed.aaz0802

Runxia Liu

1Department of Microbial Pathogenesis, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Runxia Liu

Yang-Hui Jimmy Yeh

1Department of Microbial Pathogenesis, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Yang-Hui Jimmy Yeh

Ales Varabyou

2Department of Computer Science, Whiting School of Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Ales Varabyou

Jack A. Collora

1Department of Microbial Pathogenesis, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Jack A. Collora

Scott Sherrill-Mix

3Department of Microbiology, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Scott Sherrill-Mix

C. Conover Talbot Jr.

4Institute for Basic Biomedical Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for C. Conover Talbot Jr.

Sameet Mehta

5Yale Center for Genome Analysis, Yale University, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Sameet Mehta

Kristen Albrecht

1Department of Microbial Pathogenesis, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Kristen Albrecht

Haiping Hao

4Institute for Basic Biomedical Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Haiping Hao

Hao Zhang

6Department of Molecular Microbiology and Immunology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Ross A. Pollack

7Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Subul A. Beg

7Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Subul A. Beg

Rachela M. Calvi

8Department of Neurology, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Jianfei Hu

9Vaccine Research Center, National Institute of Health, Bethesda, MD 20892, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Christine M. Durand

7Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Christine M. Durand

Richard F. Ambinder

7Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Richard F. Ambinder

Rebecca Hoh

10Department of Medicine, University of California, San Francisco, CA 94110, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Rebecca Hoh

Steven G. Deeks

10Department of Medicine, University of California, San Francisco, CA 94110, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Steven G. Deeks

Jennifer Chiarella

8Department of Neurology, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Serena Spudich

8Department of Neurology, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Daniel C. Douek

9Vaccine Research Center, National Institute of Health, Bethesda, MD 20892, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Frederic D. Bushman

3Department of Microbiology, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Frederic D. Bushman

Mihaela Pertea

2Department of Computer Science, Whiting School of Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

11Department of Biomedical Engineering, Whiting School of Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site

Ya-Chi Ho

1Department of Microbial Pathogenesis, Yale University School of Medicine, New Haven, CT 06519, USA.

Find this author on Google Scholar
Find this author on PubMed
Search for this author on this site
ORCID record for Ya-Chi Ho
For correspondence: ya-chi.ho@yale.edu

Article
Figures & Data
Info & Metrics
eLetters
PDF

eLetters is an online forum for ongoing peer review. Submission of eLetters are open to all. Please read our Terms of Service before submitting your own eLetter.

Submit a Response to This Article

Compose eLetter

Title

Contents

More information about text formats

Plain text

Plain text
No HTML tags allowed.
Web page addresses and e-mail addresses turn into links automatically.
Lines and paragraphs break automatically.

Author Information

Contributors
First name and middle name First or given name, e.g. 'Peter'. Last Name Your last, or family, name, e.g. 'MacMoody'. Email Your email address, e.g. higgs-boson@gmail.com Role / Occupation Your role and/or occupation, e.g. 'Orthopedic Surgeon'. Affiliation Your organization or institution (if applicable), e.g. 'Royal Free Hospital'.

Statement of Competing Interests

Competing interests?

Yes

Please describe the competing interests

CAPTCHA

This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.

Vertical Tabs

No eLetters have been published for this article.

View Full Text

Single-cell transcriptional landscapes reveal HIV-1–driven aberrant host gene transcription as a potential therapeutic target

Plain text

Vertical Tabs

Science Translational Medicine

Article Tools