Alex K. Shalek

Alex K. Shalek

Background & Interests

Biology Biology
Chemistry Chemistry
Genomics Genomics
Getting Swole Getting Swole
Hot Stuff Hot Stuff
I Want a Hot Body, but I also Want Tacos I Want a Hot Body, but I also Want Tacos
Immunology Immunology
R&D R&D
Top Shelf Top Shelf

Biography

Alex K. Shalek, PhD, is the J. W. Kieckhefer Professor in the Institute for Medical Engineering & Science and the Department of Chemistry, and an Extramural Member of The Koch Institute for Integrative Cancer Research at MIT. He is also an Institute Member of the Broad Institute, a Member of the Ragon Institute, an Assistant in Immunology at MGB, and an Instructor in Health Sciences & Technology at HMS. Dr. Shalek received his bachelor’s degree summa cum laude from Columbia University and his Ph.D. from Harvard University in chemical physics under the guidance of Hongkun Park, and performed postdoctoral training under Hongkun Park and Aviv Regev (Broad/MIT). His lab’s research is directed towards the development and application of new approaches to elucidate cellular and molecular features that inform tissue-level function and dysfunction across the spectrum of human health and disease. Dr. Shalek and his work have received numerous honors including a NIH New Innovator Award, a Beckman Young Investigator Award, a Searle Scholar Award, a Pew-Stewart Scholar Award, the Avant-Garde (DP1 Pioneer) Award from the National Institute for Drug Abuse (NIDA), and an Alfred P. Sloan Research Fellowship in Chemistry, as well as the 2019-2020 Harold E. Edgerton Faculty Achievement Award at MIT and the 2020 HMS Young Mentor Award.

Publications

Scalable nonparametric clustering with unified marker gene selection for single-cell RNA-seq data
Scalable nonparametric clustering with unified marker gene selection for single-cell RNA-seq data
  • Nwizu et al.,
  • bioRxiv,
  • 2024
Computational Methods Computational Methods
Medicine Medicine
Alex K. Shalek Alex K. Shalek
Andrew Navia Andrew Navia
Michelle Ramseier Michelle Ramseier
Peter Winter Peter Winter
Epstein-Barr Virus Orchestrates Spatial Reorganization and Immunomodulation within the Classic Hodgkin Lymphoma Tumor Microenvironment
Epstein-Barr Virus Orchestrates Spatial Reorganization and Immunomodulation within the Classic Hodgkin Lymphoma Tumor Microenvironment
  • Yao et al.,
  • bioRxiv,
  • 2024
Biology Biology
Cancer Cancer
Alex K. Shalek Alex K. Shalek
Bokai Zhu Bokai Zhu
A Spatial Multi-Modal Dissection of Host-Microbiome Interactions within the Colitis Tissue Microenvironment
A Spatial Multi-Modal Dissection of Host-Microbiome Interactions within the Colitis Tissue Microenvironment
  • Zhu et al.,
  • bioRxiv,
  • 2024
Computational Methods Computational Methods
Immunology Immunology
Alex K. Shalek Alex K. Shalek
Bokai Zhu Bokai Zhu
Congenital T cell activation impairs transitional to follicular B cell maturation in humans
Congenital T cell activation impairs transitional to follicular B cell maturation in humans
  • Allard-Chamard et al.,
  • bioRxiv,
  • 2024
Computational Methods Computational Methods
Genomics Genomics
Immunology Immunology
Alex K. Shalek Alex K. Shalek
Michelle Ramseier Michelle Ramseier
Scalable nonparametric clustering with unified marker gene selection for single-cell RNA-seq data
Scalable nonparametric clustering with unified marker gene selection for single-cell RNA-seq data
  • Nwizu et al.,
  • bioRxiv,
  • 2024
Computational Methods Computational Methods
Genomics Genomics
Alex K. Shalek Alex K. Shalek
Andrew Navia Andrew Navia
Michelle Ramseier Michelle Ramseier
Peter Winter Peter Winter
Pro-inflammatory feedback loops define immune responses to pathogenic Lentivirus infection
Pro-inflammatory feedback loops define immune responses to pathogenic Lentivirus infection
  • Wilk et al.,
  • Genome Medicine,
  • 2024
Computational Methods Computational Methods
Genomics Genomics
Immunology Immunology
Infectious Disease Infectious Disease
Medicine Medicine
Alex K. Shalek Alex K. Shalek
Ira Fleming Ira Fleming
Jennyfer Galvez-Reyes Jennyfer Galvez-Reyes
Sam Kazer Sam Kazer
Vincent Miao Vincent Miao
Glycan-costumed virus-like particles promote type 1 anti-tumor immunity
Glycan-costumed virus-like particles promote type 1 anti-tumor immunity
  • Lensch et al.,
  • biorxiv,
  • 2024
Biology Biology
Cancer Cancer
Genomics Genomics
Immunology Immunology
Alex K. Shalek Alex K. Shalek
Ankit Basak Ankit Basak
CD4 + T cells are homeostatic regulators during Mtb reinfection
CD4 + T cells are homeostatic regulators during Mtb reinfection
  • Bromley et al.,
  • bioRxiv,
  • 2024
Biology Biology
Computational Methods Computational Methods
Immunology Immunology
Infectious Disease Infectious Disease
Alex K. Shalek Alex K. Shalek
Dennis Wang Dennis Wang
Josh Bromley Josh Bromley
Sarah Nyquist Sarah Nyquist
Son Nguyen Son Nguyen
Tobacco smoke exposure recruits inflammatory airspace monocytes that establish permissive lung niches for Mycobacterium tuberculosis
Tobacco smoke exposure recruits inflammatory airspace monocytes that establish permissive lung niches for Mycobacterium tuberculosis
  • Corleis et al.,
  • Science Translational Medicine,
  • 2023
Computational Methods Computational Methods
Infectious Disease Infectious Disease
Medicine Medicine
Alex K. Shalek Alex K. Shalek
Constantine Tzouanas Constantine Tzouanas
Marc Wadsworth II Marc Wadsworth II
Chronic metabolic stress drives developmental programs and loss of tissue functions in non-transformed liver that mirror tumor states and stratify survival
Chronic metabolic stress drives developmental programs and loss of tissue functions in non-transformed liver that mirror tumor states and stratify survival
  • Tzouanas et al.,
  • bioRxiv,
  • 2023
Biology Biology
Alex K. Shalek Alex K. Shalek
Ben Mead Ben Mead
Constantine Tzouanas Constantine Tzouanas
Evelyn Yuzhou Tong Evelyn Yuzhou Tong
Jay Prakadan Jay Prakadan
Kellie Kolb Kellie Kolb
Michelle Ramseier Michelle Ramseier
Tyler Dao Tyler Dao