Testbed

Basic formatting

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

External link

Internal link

italic text

bold text

strike-through text

Text with extra blank lines above and below

• list item a
• list item b
• list item c

1. ordered list item 1
2. ordered list item 2
3. ordered list item 3

1. top level list item
   • nested list item
     1. even deeper nested list item

Plain image:

Heading 1

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 2

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 3

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 4

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 5

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Heading 6

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

It was the best of times it was the worst of times. It was the age of wisdom, it was the age of foolishness. It was the spring of hope, it was the winter of despair.

// some code with syntax highlighting
const popup = document.querySelector("#popup");
popup.style.width = "100%";
popup.innerText =
  "Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.";

This sentence has inline code, useful for making references to variables, packages, versions, etc. within a sentence.

Lorem ipsum dolor sit amet.

Consectetur adipiscing elit.

Sed do eiusmod tempor incididunt.

Jekyll Spaceship

$ a * b = c ^ b $

$ 2^{\frac{n-1}{3}} $

$ \int_a^b f(x)\,dx. $

Components

Section

Section, background

Section, dark=true

Section, background dark=true

Section, size=wide

Section, size=full w/ figure

Figure

Button

Icon

Lorem Ipsum Dolor

Feature

Title

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Title

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

List

List citations

2026

2025

2024

2023

2022

2021

2020

2019

2015

List projects

Cool Dataset a subtitle

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

resource

Cool Package a subtitle

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

resource

Cool Tutorial a subtitle

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

resource publication

Cool Web App a subtitle

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

software

Cool Web Server a subtitle

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

software

List team members

Changya Chen（陈昌亚） Principal Investigator Ph.D in Genetics, University of Iowa

Daosen Fu（傅道森） Research Assistant M.S. in Basic Medical Science, Lanzhou University

Dongqing Su (苏冬晴) Postdoctoral Researcher Ph.D in College of Bioinformatics Science and Technology, Harbin Medical University

Jiawang Zhong（钟家旺） Master's Student B.M. in Anesthesiology, Jinzhou Medical University

Jintao Zhang（章金涛） Master's Student B.M. in Medical laboratory technology, Dalian medical university

Liyi Mao（毛丽怡） Master's Student B.M. in Clinical Medicine, Wuhan University of Science and Technology

Mengke Zhang（张梦珂） Master's Student B.M. in Clinical Medicine, ZhengZhou University

Qiong Xiao（肖琼） Master's Student B.M. in Clinical Medicine, Yichun University

Rui Jin（金睿） Master's Student B.M. in Medical college of Nanchang University

Sichong Han（寒偲翀） Research Assistant Professor Ph.D. in Chemical Engineering and Technology, Beijing University of Chemical Technology

Siqi Liu（刘思琪） Research Assistant M.S. in Medical Biochemistry and Molecular Biology, Tianjin Medical University

Xiaohuan Qin（覃小桓） PhD Student M.S. in Computational Hematology, Peking Union Medical College

Yang Yang（杨阳） Master's Student B.M. in Medical laboratory technology,Fenyang College,Shanxi Medical University

Yuzhe Hu (胡玉喆) Postdoctoral Researcher Ph.D in mmunology, Peking University

Ziying Yang (阳紫莹) Postdoctoral Researcher Ph.D in Genomics , University of Chinese Academy of Sciences

List blog posts

2025

Happy Teachers' Day

mengke-zhang September 10, 2025 September 15, 2026

lab-life

It was our second Teachers’ Day celebration with Prof. Chen! We surprised him with gifts and flowers, and of course, we couldn’t miss out on a delicious cake. Here’s to many more great moments together — and to Chen Lab growing stronger every day!

2024

Welcoming Our Inaugural Cohort

changya-chen May 27, 2024 September 15, 2026

lab-life

We are delighted to welcome our inaugural cohort of graduate students, along with our new postdoctoral fellows and staff, to the lab. This is a significant step in our growth, and we are grateful for the trust and enthusiasm our first team members have shown. We look forward to fostering a supportive, stimulating environment where everyone can thrive. Here’s to a shared journey of discovery and excellence.

Citation

Open collaborative writing with Manubot

Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter

PLOS Computational Biology  ·  24 Jun 2019  ·  doi:10.1371/journal.pcbi.1007128

Card

A Large Card A cool card

A cool description

manual-tag

A Small Card A cool card

Lorem ipsum

manual-tag

Portrait

Manual name

Post Excerpt

Alert

Tags

Float

Figures

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.

Code

const test = "Lorem ipsum dolor sit amet, consectetur adipiscing elit.";

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Nulla facilisi etiam dignissim diam quis. Id aliquet lectus proin nibh nisl condimentum id venenatis a. Tristique magna sit amet purus gravida quis blandit turpis cursus. Ultrices eros in cursus turpis massa tincidunt dui ut ornare. A cras semper auctor neque vitae tempus quam pellentesque nec. At tellus at urna condimentum mattis pellentesque. Ipsum consequat nisl vel pretium. Ultrices mi tempus imperdiet nulla malesuada pellentesque elit eget gravida. Integer vitae justo eget magna fermentum iaculis eu non diam. Mus mauris vitae ultricies leo integer malesuada nunc vel. Leo integer malesuada nunc vel risus. Ornare arcu odio ut sem nulla pharetra. Purus semper eget duis at tellus at urna condimentum. Enim neque volutpat ac tincidunt vitae semper quis lectus.

Grid

Regular

With Markdown images

Square

With figure components

Grid of citations

2026

Scalable data harmonization for single-cell image-based profiling with CytoTable

Dave Bunten, Jenna Tomkinson, Erik Serrano, Michael J. Lippincott, Kenneth I. Brewer, Vince Rubinetti, Faisal Alquaddoomi, Gregory P. Way

Patterns  ·  01 May 2026  ·  doi:10.1016/j.patter.2026.101514

2025

Scalable data harmonization for single-cell image-based profiling with CytoTable

Dave Bunten, Jenna Tomkinson, Erik Serrano, Michael J. Lippincott, Kenneth I. Brewer, Vince Rubinetti, Faisal Alquaddoomi, Gregory P. Way

openRxiv  ·  25 Jun 2025  ·  doi:10.1101/2025.06.19.660613

Single-cell panleukemia signatures of HSPC-like blasts predict drug response and clinical outcome

Changya Chen, Jason Xu, Jonathan H. Sussman, Tiffaney Vincent, Joseph S. Tumulty, …, David Frank, Jun J. Yang, Kathrin M. Bernt, David T. Teachey, Kai Tan

Blood  ·  05 Jun 2025  ·  doi:10.1182/blood.2024027270

2024

A multiomic atlas identifies a treatment-resistant, bone marrow progenitor-like cell population in T cell acute lymphoblastic leukemia

Jason Xu, Changya Chen, Jonathan H. Sussman, Satoshi Yoshimura, Tiffaney Vincent, …, Kathrin Bernt, Jun J. Yang, Charles G. Mullighan, Kai Tan, David T. Teachey

Nature Cancer  ·  25 Nov 2024  ·  doi:10.1038/s43018-024-00863-5

2023

The Monarch Initiative in 2024: an analytic platform integrating phenotypes, genes and diseases across species

Tim E Putman, Kevin Schaper, Nicolas Matentzoglu, Vincent P Rubinetti, Faisal S Alquaddoomi, …, Damian Smedley, Peter N Robinson, Christopher J Mungall, Melissa A Haendel, Monica C Munoz-Torres

Nucleic Acids Research  ·  24 Nov 2023  ·  doi:10.1093/nar/gkad1082

Integration of 168,000 samples reveals global patterns of the human gut microbiome

Richard J. Abdill, Samantha P. Graham, Vincent Rubinetti, Frank W. Albert, Casey S. Greene, Sean Davis, Ran Blekhman

openRxiv  ·  11 Oct 2023  ·  doi:10.1101/2023.10.11.560955

MyGeneset.info: an interactive and programmatic platform for community-curated and user-created collections of genes

Ricardo Avila, Vincent Rubinetti, Xinghua Zhou, Dongbo Hu, Zhongchao Qian, Marco Alvarado Cano, Everaldo Rodolpho, Ginger Tsueng, Casey Greene, Chunlei Wu

Nucleic Acids Research  ·  18 Apr 2023  ·  doi:10.1093/nar/gkad289

Hetnet connectivity search provides rapid insights into how two biomedical entities are related

Daniel S. Himmelstein, Michael Zietz, Vincent Rubinetti, Kyle Kloster, Benjamin J. Heil, …, David N. Nicholson, Yun Hao, Blair D. Sullivan, Michael W. Nagle, Casey S. Greene

openRxiv  ·  07 Jan 2023  ·  doi:10.1101/2023.01.05.522941

2022

Hetnet connectivity search provides rapid insights into how biomedical entities are related

Daniel S Himmelstein, Michael Zietz, Vincent Rubinetti, Kyle Kloster, Benjamin J Heil, …, David N Nicholson, Yun Hao, Blair D Sullivan, Michael W Nagle, Casey S Greene

GigaScience  ·  28 Dec 2022  ·  doi:10.1093/gigascience/giad047

Single-cell multiomics reveals increased plasticity, resistant populations, and stem-cell–like blasts in KMT2A -rearranged leukemia

Changya Chen, Wenbao Yu, Fatemeh Alikarami, Qi Qiu, Chia-hui Chen, …, Patrick A. Brown, Erin M. Guest, David M. Barrett, Kathrin M. Bernt, Kai Tan

Blood  ·  07 Apr 2022  ·  doi:10.1182/blood.2021013442

MolEvolvR: A web-app for characterizing proteins using molecular evolution and phylogeny

Faisal S Alquaddoomi, Joseph T Burke, Lo Sosinski, David A Mayer, Evan P Brenner, …, Vincent P Rubinetti, Shaddai Amolitos, Kellen M Reason, John B Johnston, Janani Ravi

openRxiv  ·  22 Feb 2022  ·  doi:10.1101/2022.02.18.461833

2021

Integrative Bulk and Single-Cell Profiling of Premanufacture T-cell Populations Reveals Factors Mediating Long-Term Persistence of CAR T-cell Therapy

Gregory M. Chen, Changya Chen, Rajat K. Das, Peng Gao, Chia-Hui Chen, …, Qin Zhu, Regina M. Myers, Stephan A. Grupp, David M. Barrett, Kai Tan

Cancer Discovery  ·  05 Apr 2021  ·  doi:10.1158/2159-8290.CD-20-1677

2020

Compressing gene expression data using multiple latent space dimensionalities learns complementary biological representations

Gregory P. Way, Michael Zietz, Vincent Rubinetti, Daniel S. Himmelstein, Casey S. Greene

Genome Biology  ·  11 May 2020  ·  doi:10.1186/s13059-020-02021-3

2019

Spatial Genome Re-organization between Fetal and Adult Hematopoietic Stem Cells

Changya Chen, Wenbao Yu, Joanna Tober, Peng Gao, Bing He, Kiwon Lee, Tuan Trieu, Gerd A. Blobel, Nancy A. Speck, Kai Tan

Cell Reports  ·  01 Dec 2019  ·  doi:10.1016/j.celrep.2019.11.065

Open collaborative writing with Manubot

Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter

PLOS Computational Biology  ·  24 Jun 2019  ·  doi:10.1371/journal.pcbi.1007128

Sequential compression of gene expression across dimensionalities and methods reveals no single best method or dimensionality

Gregory P. Way, Michael Zietz, Vincent Rubinetti, Daniel S. Himmelstein, Casey S. Greene

openRxiv  ·  11 Mar 2019  ·  doi:10.1101/573782

2015

A microfluidic device for epigenomic profiling using 100 cells

Zhenning Cao, Changya Chen, Bing He, Kai Tan, Chang Lu

Nature Methods  ·  27 Jul 2015  ·  doi:10.1038/nmeth.3488

Grid of blog posts

2025

Happy Teachers' Day

mengke-zhang September 10, 2025 September 15, 2026

lab-life

It was our second Teachers’ Day celebration with Prof. Chen! We surprised him with gifts and flowers, and of course, we couldn’t miss out on a delicious cake. Here’s to many more great moments together — and to Chen Lab growing stronger every day!

2024

Welcoming Our Inaugural Cohort

changya-chen May 27, 2024 September 15, 2026

lab-life

We are delighted to welcome our inaugural cohort of graduate students, along with our new postdoctoral fellows and staff, to the lab. This is a significant step in our growth, and we are grateful for the trust and enthusiasm our first team members have shown. We look forward to fostering a supportive, stimulating environment where everyone can thrive. Here’s to a shared journey of discovery and excellence.

Cols

Text

Images

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.

Code

const test = "Lorem ipsum dolor sit amet";

const test = "Lorem ipsum dolor sit amet";

const test = "Lorem ipsum dolor sit amet";

Search

Site Search