Center for Computational and Integrative Biology

About our Center

Faculty in the Center for Computational and Integrative Biology (CCIB) apply interdisciplinary approaches and new technologies to answer enduring biological questions and provide insights into human disease. Novel chemical, genomics and computational tools are developed to probe signaling pathways, identify mediators of host-microbe interactions, understand and simulate the conditions associated with the emergence of life, and design therapeutic disease interventions. Center investigators also conduct translational research to explore the potential utility of early-stage drug candidates in phase 1 studies carried out in small populations of individuals with the target disease indication. 

The CCIB provides support for investigators at Mass General Hospital and across the greater Boston area through a variety of autonomous cores that provide services in DNA sequencing, oligonucleotide synthesis and research laboratory automation. 

In the News

The Cell Press webinar, Multi-omics in drug discovery, is now freely available to view on demand. Omics technologies have emerged as powerful tools that are used to investigate broad scientific questions. This webinar delves into how omics has been used to identify leads in drug discovery. Listen to Deb Hung discuss using omics to identify therapeutic options for bacterial pathogens.

Welcome Chris Smillie, our new faculty member! Chris is an Assistant Professor in the Department of Medicine at Harvard Medical School.  His research program in CCIB will focus on mechanistically understanding how microbial perturbations alter host tissues and impact disease. You can learn more about his program in his website: https://www.smillielab.org/

Congratulations to Nitya Jain on receiving the Mass General Center for Faculty Development’s Anne Klibanski Visiting Scholars Award! This award is given to women faculty clinicians, educators, researchers and postdocs at MGH who have shown exceptional promise as leaders in their field and whose careers would specifically benefit from speaking, mentoring and networking opportunities.

Congratulations to Keith Joung on being awarded the Samsung Ho-Am Prize in Medicine! This award is presented each year to individuals of Korean heritage who have furthered the welfare of humanity through distinguished accomplishments in the field of medicine. This year’s award recognizes contributions the Joung laboratory has made in innovating genome editing approaches for basic, clinical and translational science.

 

Publications

  • The landscape of immune dysregulation in Crohn's disease revealed through single-cell transcriptomic profiling in the ileum and colon. Immunity. 2023;:ePub

  • Bacterial droplet-based single-cell RNA-seq reveals antibiotic-associated heterogeneous cellular states. Cell. 2023;:ePub

  • Mobile genetic elements from the maternal microbiome shape infant gut microbial assembly and metabolism. Cell. 2022;185(26):4921-4936.e15

  • The Caenorhabditis elegans ARIP-4 DNA helicase couples mitochondrial surveillance to immune, detoxification, and antiviral pathways. Proc Natl Acad Sci U S A. 2022;119(49):e2215966119

  • Phase 2 Trial of Baxdrostat for Treatment-Resistant Hypertension. N Engl J Med. 2022;388(5):395-405

  • A distinct clade of Bifidobacterium longum in the gut of Bangladeshi children thrives during weaning. Cell. 2022;185(23):4280-4297.e12

  • Folding and Duplex Formation in Sequence-Defined Aniline Benzaldehyde Oligoarylacetylenes. J Am Chem Soc. 2022;144(40):18350-18358

  • Engineered CRISPR prime editors with compact, untethered reverse transcriptases. Nat Biotechnol. 2022;:ePub

  • Inflammation-associated nitrate facilitates ectopic colonization of oral bacterium Veillonella parvula in the intestine. Nat Microbiol. 2022;7(10):1673-1685

  • NIN-like protein 7 transcription factor is a plant nitrate sensor. Science. 2022;377(6613):1419-1425

  • Glucose-driven TOR-FIE-PRC2 signalling controls plant development. Nature. 2022;609(7929):986-993

  • Hybridization kinetics of out-of-equilibrium mixtures of short RNA oligonucleotides. Nucleic Acids Res. 2022;50(17):9647-9662

  • The CD4+ T cell response to a commensal-derived epitope transitions from a tolerant to an inflammatory state in Crohn's disease. Immunity. 2022;55(10):1909-1923.e6

  • Identification of trypsin-degrading commensals in the large intestine. Nature. 2022;609(7927):582-589

See all publications