All News

2024

  • The Johns Hopkins News reports on STalign. on February 20, 2024
  • Caleb Hallinan successfully completes his rotations and will join the lab for his PhD! Glad to have you on the team Caleb! on February 19, 2024
  • Lyla gives a talk at the Spatial Multi-Omics for Cancer Systems Biology workshop at Dana Farber. on February 12, 2024
  • Kalen gives an interview about spatial transcriptomics and STalign for an episode of the podcast CompBio Cafe produced by the Black Women Comp Bio network. on February 12, 2024
  • JEFworks lab members present their work at the DOM/WSE Research Retreat! on February 9, 2024
  • JEFworks lab members go ice skating! on February 7, 2024
  • Prof. Fan is interviewed for The Johns Hopkins News-Letter. on February 6, 2024
  • Gohta presents his work at the JHU Genomics Floor Meeting. on January 24, 2024
  • We welcome back Mayling and also Vivien as new undergraduate students in the lab! on January 22, 2024
  • Prof. Fan teaches Genomic Data Visualization again this semester! on January 8, 2024
  • 2023

  • Prof. Fan gives an invited talk at the JHU Epigenomics Workshop. on December 11, 2023
  • Prof. Fan gives an invited talk at the Stanford Biostatistics Workshop in the Department of Biomedical Data Science. on November 30, 2023
  • Prof. Fan gives a keynote talk at RECOMB/ISCB Conference on regulatory and systems genomics at UCLA. on November 29, 2023
  • JEFworks Lab members present their work at the 3rd Annual JHU SIngle Cell Symposium. on November 10, 2023
  • JEFworks Lab members present their work at the Cold Spring Harbor Single Cell Analysis conference. on November 8, 2023
  • JEFworks Lab members carve pumpkins at a fall lab retreat. on October 29, 2023
  • We welcome Caleb Hallinan to the lab! Welcome Caleb! on October 24, 2023
  • Dr. Fan hosts Dr. Jingyi Jessica Li for the Johns Hopkins Biomedical Engineering Seminar series. on October 23, 2023
  • Dr. Fan speaks to prospective graduate students at the Explore Hopkins Presentation - Future of Medicine seminar. on October 20, 2023
  • Rafael gives an invited virtual talk on CRAWDAD at the Sao Paulo Workshop on Spatial Omics. on October 17, 2023
  • Dr. Fan gives an invited talk at Single Cell Genomics Conference. on October 11, 2023
  • Dr. Fan hosts Dr. Yun Li for the Johns Hopkins Biomedical Engineering Seminar series. on September 25, 2023
  • Dr. Fan gives the keynote talk in the Machine Learning algorithms for advancing spatial biology session at the Basel Computational Biology Conference. on September 12, 2023
  • We welcome Srujan (Sami) Singh to the lab! Welcome Sami! on September 7, 2023
  • We welcome Dee Velazquez to the lab! Welcome Dee! on August 28, 2023
  • Lab alumni Mayling starts as an undergraduate student in BME at Hopkins! Welcome (back) to the nest Mayling! on August 18, 2023
  • Manju presents and wins a best poster award at the Cerebellum Gordon Research Conference! Congrats Manju! on August 7, 2023
  • Kalen passes her PhD qualifying exam with flying colors! Congratulations Kalen! on July 27, 2023
  • Dr. Fan gives an invited talk on How to be Successful as an Undergraduate in Biomedical Engineering at the Hop-In Summer Workshop series for first generation and limited-income college students. on July 26, 2023
  • Iris completes her summer internship and presents her results at lab meeting. Great job Iris! on July 21, 2023
  • Dr. Fan gives an invited talk at the CSHL Single Cell Analysis course. on July 10, 2023
  • We welcome Rabira Dosho to the lab! Welcome Rabira! on July 3, 2023
  • Dr. Fan gives an invited talk at the Keystone Conference - Single Cell Biology from Development to Cancer. on June 20, 2023
  • Nikita successfully completes her rotations and has joined a lab for her PhD work focusing on agent-based modeling in aging. Best of luck in your future pursuits Nikita! on June 14, 2023
  • Gohta graduates from Hopkins and continues with the lab as a software developer! on May 30, 2023
  • We welcome Iris Kwon to the lab! Welcome Iris! on May 22, 2023
  • Feiyang Huang graduates from Hopkins and will be heading to New York City to pursue his PhD at the Tri-Institutional Computational Biology and Medicine program! Thanks for being a part of the team and best of luck in your future pursuits! on May 19, 2023
  • Dr. Fan shares her views on why it's worth making computational methods easy to use in a Nature Careers column. on April 27, 2023
  • Dr. Fan gives an invited talk at BME Seminar Series at Columbia University. on April 21, 2023
  • Brendan Miller transitions to a new role as a Spatial Transcriptomics Computational Biologist at Merck! Thanks for being a part of the team and best of luck in your future pursuits! on April 13, 2023
  • Prospective BME PhD student Ruiyang visits the JEFworks Lab! on March 31, 2023
  • Manju receives an Honorable Mention for her NSF GRFP. Congratulations Manju! on March 30, 2023
  • Dr. Fan gives a talk at the HuBMAP Demo Day. on March 27, 2023
  • Manju presents her work at the JHU Genomics Floor Meeting. on March 22, 2023
  • Manju passes her PhD qualifying exam with flying colors! Congratulations Manju! on March 10, 2023
  • Kalen and Manju give guest lectures for Prof. Fan's course on Genomic Data Visualization. on March 6, 2023
  • Rafael dos Santos Peixoto successfully completes his rotations and will join the lab for his PhD! Glad to have you on the team Rafael! on February 20, 2023
  • Brendan gives an invited talk for the Bioinformatics Training and Education Program at the National Cancer Institute on February 17, 2023
  • Lyla present her research at the DOM/WSE Research Retreat! on February 17, 2023
  • Prof. Fan is featured in the latest edition of JHU Engineering Magazine. on January 31, 2023
  • We welcome Gohta Aihara to the lab! Welcome Gohta! on January 27, 2023
  • Prof. Fan teaches Genomic Data Visualization again this semester! on January 23, 2023
  • 2022

  • Happy holidays from the JEFworks Lab! on December 19, 2022
  • Dr. Fan gives an invited talk at the Spectra of Life EMBL PhD Symposium. on December 7, 2022
  • Brendan gives an invited talk at the Single Cell Club at NYU Langone ABL (Applied Bioinformatics Laboratories). on November 14, 2022
  • Dr. Fan gives an invited talk at the Institute for Basic Biomedical Sciences (IBBS) 21st anniversary sympsoium. on November 10, 2022
  • Dr. Fan gives an invited talk at the Translational Data Science Seminar Series at Fred Hutch. on November 3, 2022
  • We welcome Rafael dos Santos Peixoto to the lab! Welcome Rafael! on November 1, 2022
  • Dr. Fan hosts Dr. Michalina Janiszewska for the Johns Hopkins Biomedical Engineering Seminar series. on October 17, 2022
  • Vikram successfully completes his rotations and has joined a lab for his PhD work focusing on genomics. Best of luck in your future pursuits Vikram! on October 15, 2022
  • JEFworks Lab members give invited talks as part of the Partnering Towards Discovery seminar series. on October 11, 2022
  • Dr. Fan speaks to the current cohort of NCI F99/K00 awardees as a panelist at the annual fellows meeting. on September 23, 2022
  • JEFworks Lab members present their research at the DOM/WSE Research Retreat! Congrats to Brendan for winning the WSE Trainee Award! on September 20, 2022
  • JEFworks Lab joins the HuBMAP consortium!. Dr. Fan meet other consortia members at the annual Kickoff Meeting! on September 13, 2022
  • Mayling successfully completes her lab internship and will be writing up her research results for the Regeneron Science Talent Search competition. Best of luck Mayling! on August 19, 2022
  • Dr. Fan gives an invited talk at the UNC Gillings School of Global Public Health Department of Biostatistics Seminar series. on August 18, 2022
  • JEFworks Lab members paint their science at a summer lab retreat. on August 2, 2022
  • Dr. Fan teaches highschool summer students about spatial transcriptomics and data analysis as part of the ISPEED program. on July 27, 2022
  • Dr. Fan gives an invited talk at the Workshop in Computational Biology at ICML. on July 22, 2022
  • JEFworks Lab members give invited talks and poster presentations at Bioengineering Solutions for Biology and Medicine in Munich Germany. on July 6, 2022
  • Kalen presents her work at the JHU Genomics Floor Meeting. on June 29, 2022
  • JEFworks Lab members make tie dye shirts! on June 28, 2022
  • We welcome Mayling Chen to the lab! Welcome Mayling! on June 21, 2022
  • Manju Anant successfully completes her rotations and will join the lab for her PhD! Glad to have you on the team Manju! on June 20, 2022
  • Lyla gives an invited talk for the virtual forum on Understanding Cells in Context - Spatial Transcriptomics organized by The Jackson Laboratory. on May 23, 2022
  • Arpan Sahoo graduates from Hopkins and will be pursuing his MD at the Morsani College of Medicine, University of South Florida! Thanks for being a part of the team and best of luck in your future pursuits! on May 20, 2022
  • Dr. Fan co-chairs the Single Cell and Developmental Biology session at the Biology of Genomes conference at Cold Spring Harbor. on May 12, 2022
  • Irika successfully completes her rotations and has joined a lab for her PhD work focusing on neurodegeneration and glia. Best of luck in your future pursuits Irika! on May 4, 2022
  • Dr. Fan gives an invited talk at the Biomedical Engineering Seminar at AUB. on April 25, 2022
  • Dr. Fan speaks with the Boston-area Women in Bioinformatics group as part of their Fireside Chat series. on April 7, 2022
  • We welcome Vikram Shivakumar to the lab! Welcome Vikram! on April 4, 2022
  • Dr. Fan gives a talk at ENAR as part of the session on Recent Advances in Statistical Methods for Spatially Resolved Transcriptomics Data Analysis. on March 30, 2022
  • We welcome Kalen Clifton to the lab! Welcome Kalen! on March 21, 2022
  • Brendan gives an invited talk as part of the CNS Research Showcase at Indiana University. on March 21, 2022
  • Prospective BME PhD students Jodi and Nikita visit the JEFworks Lab! on March 18, 2022
  • Brendan and Lyla give guest lectures for Prof. Fan's course on Genomic Data Visualization. on March 9, 2022
  • Lyla passes her PhD qualifying exam with flying colors! Congratulations Lyla! on February 24, 2022
  • Arpan presents his work at the JHU Genomics Collective meeting. on February 23, 2022
  • Brendan gives an update to his work at the JHU Genomics Collective meeting. on February 9, 2022
  • Dr. Fan joins the BICCN as an affiliate member and gives a talk on common coordinate frameworks for aligning spatially resolved transcriptomics data. on February 7, 2022
  • Prof. Fan teaches a new course on Genomic Data Visualization this semester! on January 24, 2022
  • Dr. Fan gives an invited talk at the Maths in Life Sciences Seminar Series jointly run by the Applied Maths and Biostats/Data Science departments here at the University of Manchester in the UK. on January 17, 2022
  • 2021

  • Happy holidays from the JEFworks Lab! on December 20, 2021
  • Lyla gives an invited talk at the Learning Meaningful Representations of Life conference at NeurIPS 2021. on December 14, 2021
  • Dr. Fan gives a grand rounds presentation at Weill Cornell Medicine's department of Pathology. on December 13, 2021
  • We welcome Irika Sinha to the lab! Welcome Irika! on December 7, 2021
  • Jose Delgado successfully completes his ICR Internship with the lab. Best of luck in your future pursuits Jose! on December 6, 2021
  • Congrats to the 2021 Rising Stars in Engineering in Health! on November 21, 2021
  • Dr. Fan gives an invited talk at the Worcester Polytechnic Institute Bioinformatics and Comp Bio Seminar series. on November 18, 2021
  • Dr. Fan hosts Dr. Elham Azizi for the Johns Hopkins Biomedical Engineering Seminar series. on November 15, 2021
  • Dr. Fan kicks off day 3 of the CSHL Single Cell Analysis meeting with her invited talk on Computational Approaches for Spatial Transcriptomic Data Analysis. on November 12, 2021
  • Lyla gives a lightning talk on VeloViz at the CSHL Single Cell Analysis meeting. on November 10, 2021
  • Have a fun and spooky Halloween from the JEFworks Lab! on October 29, 2021
  • The JEFworks lab goes on a lab hike! on October 24, 2021
  • Dr. Fan gives an invited talk at the MIT Bioinformatics Seminar series. on October 20, 2021
  • Lyla presents VeloViz at the JHU Symposium on Genomics and Bioinformatics 2021. on October 14, 2021
  • Dr. Fan gives an invited talk at The SBP Medical Discovery Institute for the C3 Single Cell Space Force seminar series. on October 4, 2021
  • Dr. Fan gives an invited talk at Next Generation Genomics 2021. on September 27, 2021
  • We welcome Jose Delgado to the lab as part of the Introduction to Computing Research (ICR) program. Welcome Jose! on September 21, 2021
  • We welcome Manjari (Manju) Anant to the lab! Welcome Manju! on September 14, 2021
  • Brendan presents his work at the University of Sydney Statistical Bioinformatics Seminar series. on September 13, 2021
  • Dr. Fan talks with JHU graduate students and post-docs about Research Intensive [STEM] Positions at the PHutures Academic Job Search Series. on September 2, 2021
  • The JEFworks lab receives support from the NIH/NIGMS Maximizing Investigators' Research Award (R35 MIRA). on September 1, 2021
  • Dr. Fan gives an invited talk with Daniel Tward and Michael Miller on Multi-scale representations of the molecular and tissue continuum at the BICCN morphology working group meeting. on September 1, 2021
  • The JEFworks Lab is slowly transitioning to in-person. Welcome back! on August 30, 2021
  • Dr. Fan gives the Keynote address at the Harvard Graduate Women in Science and Engineering (HGWISE) + Learn with Leaders Summer Research Workshop to a group of highschool girls. on August 23, 2021
  • Leela successfully completes her summer internship with the JEFworks Lab under the mentorship and guidance of Lyla. Best of luck Leela! on August 22, 2021
  • Local JEFworks Lab members meet for the first time in person for Lab Lunch! on July 15, 2021
  • We welcome Leela Mehta-Harwitz to the lab! Welcome Leela! on June 22, 2021
  • Dr. Fan gives an invited seminar at the Spatial Omics Seminar series. on June 11, 2021
  • Dr. Fan participates in the Break Through Cancer panel on Spatial Profiling. on June 9, 2021
  • The JEFworks lab receives support from the NSF CAREER awards. on June 8, 2021
  • Lab alumni Catherine graduates from highschool! Congrats Catherine! on June 2, 2021
  • Dr. Fan gives an invited seminar at the USC Biostatistics Division. on May 20, 2021
  • Brendan presents his work at the JHU Genomics Collective meeting. on May 19, 2021
  • Dr. Fan gives an invited talk to the Pfizer Single Cell working group. on April 26, 2021
  • Lyla presents her work at the Broad Single Cell Working Group. on April 20, 2021
  • Dr. Fan teaches undergraduate students about analyzing single cell spatially resolved transcriptomics data in a hands-on coding workshop. on April 10, 2021
  • Lyla presents her work at the Women of Whiting Symposium Women in STEM Symposium on April 9, 2021
  • Congratulations to Tobi Adelaja on the new position in his home city of Chicago. Best of luck Tobi! on March 26, 2021
  • Dr. Fan gives an invited talk at the Single Cell Biology Keystone eSymposium. on March 18, 2021
  • Dr. Fan hosts Dr. David Van Valen for the Johns Hopkins Biomedical Engineering Seminar series. on March 15, 2021
  • Dr. Fan gives an invited seminar at the Brigham and Women's Hospital Channing Division of Network Medicine. on March 9, 2021
  • Dr. Fan gives an invited seminar at the UCLA Brain Mapping Center. on March 4, 2021
  • Dr. Fan gives an invited seminar and spends the day virtually with the SKCCC Research Program in Quantitative Sciences at JHMI on February 18, 2021
  • Lyla presents her work on VeloViz at the JHU Genomics Collective meeting on February 10, 2021
  • 2020

  • Happy holidays from the JEFworks Lab! on December 18, 2020
  • Dr. Fan gives an invited seminar and spends the day virtually with the Biochemistry and Molecular Biology Department at JHSPH on December 7, 2020
  • We welcome Feiyang Huang to the lab. Welcome Feiyang! on November 13, 2020
  • Catherine Lo successfully completes her lab internship and will be writing up her research results for the Regeneron Science Talent Search competition. Best of luck Catherine! on November 9, 2020
  • Dr. Fan gives a virtual invited talks as part of the Cold Spring Harbor Asia conference, the JHU Symposium on Genomics and Bioinformatics, and the Kavli NDI Breakfast Club on October 27, 2020
  • Dr. Fan gives a virtual invited talk as part of the Keck Seminar Series. on October 2, 2020
  • Lyla Atta successfully completes her rotations and will join the lab for her PhD! Glad to have you on the team Lyla! on September 19, 2020
  • We welcome Tobi Adelaja to the lab as a visiting post-doctoral fellow. Welcome Tobi! on September 8, 2020
  • We welcome Lyla Atta to the lab! Welcome Lyla! on August 10, 2020
  • We welcome Brendan Miller to the lab! Welcome Brendan! on July 15, 2020
  • The JEFworks Lab officially launches at Johns Hopkins University! on July 1, 2020
  • We welcome Catherine Lo to the lab! Welcome Catherine! on June 19, 2020
  • We welcome Arpan Sahoo to the lab! Welcome Arpan! on June 1, 2020
  • 2019

  • Congrats to Dr. Fan for being in the Forbes 30 Under 30 Healthcare List! on December 3, 2019
  • Dr. Fan wins the 2019 Nature Research Award for Inspiring Science. on October 15, 2019
  • Dr. Fan gives invited talks at KOGO and SGI. on September 5, 2019
  • Dr. Fan gives invited talks at Bio-IT World and the MCTB Symposium at ASU. on April 21, 2019
  • 2018

  • NCI approves Dr. Fan's K00 grant to continue her work in developing statistical methods for characterizing tumor heterogeneity at the single cell level on April 20, 2018
  • Dr. Fan starts her post-doctoral fellowship in Dr. Xiaowei Zhuang's lab at Harvard University on March 1, 2018