research research research-lab cancer-center H true

Haber Lab

Research topics include: genetics of cancer; breast cancer; Wilms tumor; somatic mutations linked to drug susceptibility in lung cancer
Daniel A. Haber, MD, PhD
Daniel A. Haber, MD, PhD

Explore the Haber Lab

Research Summary

The Haber laboratory focuses on understanding mutations that are acquired by tumors and render them susceptible to specific targeted drug therapies. In 2004, we identified mutations in the EGFR gene in lung cancers which confer dramatic sensitivity to drugs that specifically inhibit that pathway. This finding triggered the application of targeted therapies in lung cancer, and more generally pointed to the critical importance of mutational analysis for treatment selection in common epithelial cancers. Since then, we have collaborated with the bioengineering team led by Dr. Mehmet Toner, the molecular biology group of Dr. Shyamala Maheswaran, and the MGH Cancer Center clinical disease centers to develop, characterize and apply microfluidic devices to isolate rare circulating tumor cells (CTCs) in the blood of patients with cancer. Using these technologies, our lab seeks to explore:

  1. blood-based early detection of cancer
  2. noninvasive monitoring of cancer for the emergence of drug resistance
  3. understanding mechanisms of tumor cell dissemination and metastasis, with the ultimate goal of suppressing blood-borne spread of cancer.

Research Projects

Our laboratory is interested in the genetics of human cancer. Current projects include the use of a microfluidic device to capture circulating tumor cells (CTCs) and its application in early detection of invasive cancer, molecular-directed therapy, and in the study of human cancer metastasis.

Circulating Tumor Cells and Molecular Genetics Underlying Targeted Cancer Therapeutics

Activating mutations in the epidermal growth factor receptor (EGFR) were identified in our laboratory in the subset of non-small cell lung cancer (NSCLC) with dramatic responses to the tyrosine kinase inhibitor gefitinib. We have studied mechanisms underlying such oncogene addiction, as well as the pathways that lead to the acquisition of resistance to targeted therapies, including the application of irreversible kinase inhibitors to circumvent mutations that alter drug binding affinity. Following these efforts to monitor the emergence of drug resistance mutations, we established collaborations with the Toner and Maheswaran laboratories to characterize novel microfluidic devices capable of isolating CTCs from the blood of cancer patients. Our most advanced version of these CTC-Chips relies upon blood flow through a specialized chamber, which allows the high efficiency depletion of antibodytagged leukocytes, thereby enriching for intact CTCs without selection bias. We have shown that the number of captured CTCs correlates with clinical evidence of tumor response, and that the cells can be used to define molecular markers characteristic of the underlying malignancy, including EGFR mutations in lung cancer and measurements of androgen receptor (AR) activity in prostate cancer. We have applied next generation single-molecule RNA sequencing and RNA-in-situ hybridization to characterize the heterogeneous expression profiles of individual CTCs in breast, prostate and pancreatic cancers, as well as melanoma and glioblastoma. To facilitate CTC quantitation and provide the sensitivity and specificity required for early cancer detection, we have established a droplet digital PCR readout for CTC-derived RNA, with promising applications in the early detection of liver cancer.

In addition to noninvasive detecting and monitoring of cancer, CTCs provide a window to study the process of blood-borne metastasis. We demonstrated treatmentassociated epithelial-to-mesenchymal transitions (EMT) within CTCs from women with breast cancer. Using a combination of mouse models and patient-derived studies, we observed that tumor-derived fragments generate CTC-Clusters, which have greatly enhanced metastatic propensity compared with single CTCs. CTC-Clusters are held together by plakoglobin, whose knockdown dramatically suppresses CTCCluster formation and metastatic spread of breast cancer cells. We successfully established long-term in vitro cultures of CTCs from patients with estrogen-receptor (ER)-positive breast cancer, identifying treatment-associated mutations in the estrogen receptor (ESR1), as well as acquired mutations in druggable therapeutic targets, such as PIK3CA and FGFR. The development of such CTC-derived cultures may enable functional predictive drug testing, combined with detailed genetic analysis of tumor cells sampled noninvasively during the course of cancer treatment. In cultured CTCs from women with advanced ER+ breast cancer, we documented dramatic plasticity, with a proliferative HER2-expressing subpopulation interconverting spontaneously with a drug-resistant Notch1-expressing subset. Using mouse reconstitution models, we demonstrated the consequences of this phenotype switch for both tumorigenesis and drug response. Ongoing studies are directed at using patient-derived CTCs and mouse models to understand key steps in cancer metastasis, including the shift from cell quiescence to proliferation, viability during blood-borne transit, and resistance to targeted and immune therapies.

Publications

View a list of publications by researchers at the Haber Laboratory

Selected Publications

Zheng Y, Comaills V, Burr R, Boulay G, Miyamoto DT, Wittner BS, Emmons E, Sil S, Koulopoulos MW, Broderick KT, Tai E, Rengarajan S, Kukarni AS, Shioda T, Wu CL, Ramaswamy S, Ting DT, Toner M, Rivera MN, Maheswaran S*, Haber DA*. COX-2 mediates tumorstromal prolactin signaling to initiate tumorigenesis. Proc Natl. Acad. Sci USA 16: 5223-5232, 2019.

Jordan NV, Bardia A, Wittner BS, Benes C, Ligorio M, Zheng Y, Yu M, Sundaresan TK, Licausi JA, Desai R, O'Keefe RM, Ebright RY, Boukhali M, Sil S, Onozato ML, Iafrate AJ, Kapur R, Sgroi D, Ting DT, Toner M, Ramaswamy S, Haas W, Maheswaran S*, Haber DA*. HER2 expression identifies dynamic functional states within circulating breast cancer cells. Nature. 537(7618):102-106, 2016.

Miyamoto DT, Zheng Y, Wittner BS, Lee RJ, Zhu H, Broderick KT, Desai R, Fox DB, Brannigan BW, Trautwein J, Arora KS, Desai N, Dahl DM, Sequist LV, Smith MR, Kapur R, Wu C-L, Shioda T, Ramaswamy S, Ting DT, Toner M, Maheswaran S*, Haber DA*. RNA-Seq of single prostate CTCs implicates noncanonical Wnt signaling in antiandrogen resistance. Science 349 (6254): 1351-6, 2015.

Aceto N, Bardia A, Miyamoto DT, Donaldson MC, Wittner BS, Spencer JA, Yu M, Pely A, Engstrom A, Zhu H, Brannigan BW, Kapur R, Stott SL, Shioda T, Ramaswamy S, Ting DT, Lin CP, Toner M, Haber DA*, Maheswaran S*. Circulating tumor cell clusters are oligoclonal precursors of breast cancer metastasis. Cell. 158(5):1110- 22, 2014.

Yu M, Bardia A, Aceto N, Bersani F, Madden M, Donaldson MC, Desai R, Comaills V, Zheng Z, Wittner BS, Stojanov P, Brachtel E, Sgroi D, Kapur R, Shioda T, Ting, DT, Ramaswamy S, Getz G, Iafrate AJ, Benes C, Toner, M, Maheswaran S* and Haber DA*. Ex vivo culture of circulating breast tumor cells for individualized testing of drug susceptibility. Science. 346(6193): 216- 22, 2014.

*Co-corresponding authors

Research Image



Group Members

  • Risa Burr, PhD
  • Brian Chirn
  • Christina Costantino, MD
  • Valentine Comaills, PhD
  • Taronish Dubash, PhD
  • Richard Ebright**
  • Hongshan Guo, PhD
  • Xin Hong, PhD
  • Elad Horwitz, PhD
  • Maria Kessler**
  • Laura Libby
  • Doug Micalizzi, MD
  • Stefanie Morgan, PhD
  • Benjamin Nicholson
  • Brittany Reeves
  • Joanna Vuille**
  • Benjamin Wesley
  • Devon Wiley
  • Ben Wittner, PhD

* co-directed with Shyamala Maheswaran, PhD
** Graduate students