{"id":2,"date":"2018-05-31T14:38:57","date_gmt":"2018-05-31T18:38:57","guid":{"rendered":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/?page_id=2"},"modified":"2025-07-09T12:43:41","modified_gmt":"2025-07-09T16:43:41","slug":"sample-page","status":"publish","type":"page","link":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/","title":{"rendered":"Home"},"content":{"rendered":"
<\/div><\/div><\/div>
<\/div><\/div>
<\/div><\/div><\/div><\/div><\/div>

ISI 2025 Retreat–Aug 8th<\/div><\/h3>

ISI 2025 Retreat--Aug 8th @ Avery Point.\u00a0<\/a><\/p>\n

The <\/span>ISI retreat<\/span> <\/span>aims to enhance collaborative discoveries with cross-disciplinary strengths from Immunology (UCONN Health Center) and Computer Science (Storrs, UCONN), to develop innovative solutions to address critical biomedical challenges in applied immunological systems.<\/span><\/p>\n

\n<\/div><\/div>

High School Team in the lab Aarika, Aria, and Rohan will share their research on the ISI2025<\/div><\/h3>

Mentored by Alyssa: Aria from Farmington High School,\u00a0 Aarika Bhave and Gabo from Avon High School,\u00a0 Rohan Modi from Hopkins School will share their research project at the ISI 2025.<\/p>\n

 <\/p>\n

 <\/p>\n

 <\/p>\n

 <\/p>\n<\/div><\/div>

High School Team in the lab Gabo, Phydena and Lauren will share their research on the ISI2024!<\/div><\/h3>

Mentored by Alyssa and Keaton: Lauren from Darien High School,\u00a0 Gabo and Phydena from Avon High School will share their research project at the ISI 2024.<\/p>\n

 <\/p>\n

 <\/p>\n

 <\/p>\n

 <\/p>\n<\/div><\/div>

 <\/p>\n

Prior News and Announcements<\/a><\/strong><\/h3>\n

 <\/p>\n

 <\/p>\n<\/div><\/div><\/div><\/div><\/div>

<\/div>
<\/div><\/div>

MacSpectrum and MacBrowser<\/h2>\n<\/div><\/div>

Macrophage Annotation Programs–MacSpectrum, MacBrowser, AtheroSpectrum<\/div><\/h3>

MacSpectrum<\/a> (R package)<\/p>\n

MacSpectrum<\/strong>\u00a0is a macrophage annotation system that allows comprehensive analysis of heterogeneous subpopulations and their multifaceted activation states under various\u00a0<\/span>in vitro<\/em>\u00a0and\u00a0<\/span>in vivo<\/em>\u00a0conditions, including the identification of condition-specific signature genes. Each subpopulation identified by MacSpectrum can be further analyzed for cell function and intracellular signaling networks in conjunction with other programs, such as Ingenuity Pathway Analysis by Qiagen, NIH DAVID, and others.<\/span><\/p>\n

Citation: Chuan Li, Antoine Menoret, Cullen Farragher, Zhengqing Ouyang, Christopher Bonin, Paul Holvoet, Anthony T. Vella, Beiyan Zhou.\u00a0<\/span>\u00a0<\/sup>Single cell transcriptomics-based MacSpectrum reveals novel macrophage activation signatures in diseases. JCI insight.\u00a0<\/span>\u00a0April 16 2019<\/em>.\u00a0<\/span>PMID: 30990466<\/span><\/a><\/p>\n

 <\/p>\n

MacBrowser\u00a0<\/a><\/p>\n

You can check the MPI\/AMDI plots and gene expressions of murine bone marrow derived macrophages that were not stimulated (\u201cM0\u201d), or stimulated LPS+IFN\u03b3 (\u201cM1\u201d) or IL4+IL13 (\u201cM2\u201d). You can see their MPI\/AMDI distributions and expression patterns of any genes. Please refer to our JCI insight publication (<\/span>PMID: 30990466<\/span><\/a>) for more details of the dataset.<\/span><\/p>\n

 <\/p>\n

AtheroSpectrum (Coming soon)<\/p>\n

AtheroSpectrum Reveals Novel Macrophage Foam Cell Gene Signatures Associated With Atherosclerotic Cardiovascular Disease Risk<\/strong><\/a><\/p>\n

Chuan Li<\/strong>*,\u00a0 Lili Qu<\/strong>*,\u00a0Alyssa J. Matz<\/strong>*,\u00a0Patrick A. Murphy<\/strong>,\u00a0Yongmei Liu<\/strong>,\u00a0Ani W. Manichaikul<\/strong>,\u00a0Derek Aguiar<\/strong>,\u00a0Stephen S. Rich<\/strong>,\u00a0David M. Herrington<\/strong>,\u00a0David Vu<\/strong>,\u00a0W. Craig ohnson<\/strong>,\u00a0Jerome I. Rotter<\/strong>,\u00a0Wendy S. Post<\/strong>,\u00a0Anthony T. Vella<\/strong>,\u00a0Annabelle Rodriguez-Oquendo<\/strong>, and\u00a0 Beiyan Zhou<\/strong>#\u00a0 \u00a0Originally published <\/strong>16 Dec 2021 https:\/\/doi.org\/10.1161\/CIRCULATIONAHA.121.054285 \u00a0<\/a>Circulation. 2022;145:206\u2013218<\/p>\n

To request an R package--please contact us.<\/p>\n<\/div><\/div><\/div><\/div>

Due to server issues, We have changed the venue for those who want to use MacSpectrum for their research--request the R package<\/strong>.<\/em><\/p>\n

Email: bzhou@uchc.edu<\/a><\/p>\n

You can check out your gene of interest using MacBrowser\u00a0<\/strong>using the BMDM single cell seq data from our lab. MacSpectrum<\/strong> is a macrophage annotation system that allows comprehensive analysis of heterogeneous subpopulations and their multifaceted activation states under various in vitro<\/em> and in vivo<\/em> conditions, including the identification of condition-specific signature genes. Each subpopulation identified by MacSpectrum can be further analyzed for cell function and intracellular signaling networks in conjunction with other programs, such as Ingenuity Pathway Analysis by Qiagen, NIH DAVID, and others. Further information can be accessed on MacSpectrum<\/a> with step-by-step instructions.<\/em> For other functions, and specific questions, please contact us<\/a>.<\/p>\n<\/div><\/div><\/div>

<\/div><\/div><\/div>
<\/div><\/div><\/div>","protected":false},"excerpt":{"rendered":"

ISI 2025 Retreat–Aug 8th @ Avery Point.\u00a0 The ISI retreat aims to enhance collaborative discoveries with cross-disciplinary strengths from Immunology (UCONN Health Center) and Computer Science (Storrs, UCONN), to develop innovative solutions to address critical biomedical challenges in applied immunological systems. Mentored by Alyssa: Aria from Farmington High School,\u00a0 Aarika Bhave and Gabo from Avon […]<\/p>\n","protected":false},"author":38,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"open","template":"page-blank.php","meta":{"_acf_changed":false,"footnotes":""},"acf":[],"publishpress_future_action":{"enabled":false,"date":"2026-05-18 21:31:31","action":"change-status","newStatus":"draft","terms":[],"taxonomy":""},"_links":{"self":[{"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/pages\/2"}],"collection":[{"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/users\/38"}],"replies":[{"embeddable":true,"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/comments?post=2"}],"version-history":[{"count":137,"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/pages\/2\/revisions"}],"predecessor-version":[{"id":592,"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/pages\/2\/revisions\/592"}],"wp:attachment":[{"href":"https:\/\/health.uconn.edu\/beiyan-zhou-lab\/wp-json\/wp\/v2\/media?parent=2"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}