URI: http://hdl.handle.net/2144/974

Biomedical engineering is advancing rapidly and producing important innovations that improve our quality of life. From understanding the human genome to pioneering surgical tools, Boston University biomedical engineers are committed the advancement of research and education in biotechnology, biomolecular engineering, sensory systems, cardiopulmonary engineering, neuroscience, micro-and nano-systems and biomechanics and biomaterials.


Biomedical Engineering Solomon R. Eisenberg, Chairman Matthew Barber, Director 44 Cummington St., Room 403 Phone: (617) 353-2805 Fax: (617) 353-6766

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  • Awareness, interest, and preferences of primary care providers in using point-of-care cancer screening technology 

    Vanture, Sarah; Cho, Margaret; Wang, Catharine; Klapperich, Catherine; Huang, Franklin W.; Kim, Chloe S. (2016-01-15)
    Well-developed point-of-care (POC) cancer screening tools have the potential to provide better cancer care to patients in both developed and developing countries. However, new medical technology will not be adopted by ...
  • Microfluidic chip for molecular amplification of influenza A RNA in human respiratory specimens 

    Mahalanabis, Madhumita; Chang, Jessie; Carey, Brendan; Hsieh, Christopher; Stanley, Ahjegannie; Feldman, James; Mitchell, Patricia; Klapperich, Catherine; Odell, Christine A.; Pollock, Nira R.; Qingqing, Cao (2012-03-22)
    A rapid, low cost, accurate point-of-care (POC) device to detect influenza virus is needed for effective treatment and control of both seasonal and pandemic strains. We developed a single-use microfluidic chip that integrates ...
  • A Predictive Phosphorylation Signature of Lung Cancer 

    Wu, Chang-Jiun; Cai, Tianxi; Rikova, Klarisa; Merberg, David; Kasif, Simon; Steffen, Martin (Public Library of Science, 2009-11-25)
    BACKGROUND. Aberrant activation of signaling pathways drives many of the fundamental biological processes that accompany tumor initiation and progression. Inappropriate phosphorylation of intermediates in these signaling ...
  • Long-Range Correlations in Rectal Temperature Fluctuations of Healthy Infants during Maturation 

    Stern, Georgette; Beel, Julia; Suki, Béla; Silverman, Mike; Westaway, Jenny; Cernelc, Mateja; Baldwin, David; Frey, Urs (Public Library of Science, 2009-7-29)
    BACKGROUND. Control of breathing, heart rate, and body temperature are interdependent in infants, where instabilities in thermoregulation can contribute to apneas or even life-threatening events. Identifying abnormalities ...
  • Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains 

    Ku, Manching; Koche, Richard P.; Rheinbay, Esther; Mendenhall, Eric M.; Endoh, Mitsuhiro; Mikkelsen, Tarjei S.; Presser, Aviva; Nusbaum, Chad; Xie, Xiaohui; Chi, Andrew S.; Adli, Mazhar; Kasif, Simon; Ptaszek, Leon M.; Cowan, Chad A.; Lander, Eric S.; Koseki, Haruhiko; Bernstein, Bradley E. (Public Library of Science, 2008-10-31)
    In embryonic stem (ES) cells, bivalent chromatin domains with overlapping repressive (H3 lysine 27 tri-methylation) and activating (H3 lysine 4 tri-methylation) histone modifications mark the promoters of more than 2,000 ...
  • Molecular Weight Assessment of Proteins in Total Proteome Profiles using 1D-PAGE and LC/MS/MS 

    Ahmad, Q. Rushdy; Nguyen, Dat H.; Wingerd, Mark A.; Church, George M.; Steffen, Martin A. (BioMed Central, 2005-6-8)
    BACKGROUND. The observed molecular weight of a protein on a 1D polyacrylamide gel can provide meaningful insight into its biological function. Differences between a protein's observed molecular weight and that predicted ...
  • Distinct Functions for the Drosophila piRNA Pathway in Genome Maintenance and Telomere Protection 

    Khurana, Jaspreet S.; Xu, Jia; Weng, Zhiping; Theurkauf, William E. (Public Library of Science, 2010-12-16)
    Transposons and other selfish DNA elements can be found in all phyla, and mobilization of these elements can compromise genome integrity. The piRNA (PIWI-interacting RNA) pathway silences transposons in the germline, but ...
  • The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across the Human Genome 

    Fu, Yutao; Sinha, Manisha; Peterson, Craig L.; Weng, Zhiping (Public Library of Science, 2008-7-25)
    Chromatin structure plays an important role in modulating the accessibility of genomic DNA to regulatory proteins in eukaryotic cells. We performed an integrative analysis on dozens of recent datasets generated by ...
  • Experimental Validation of the Influence of White Matter Anisotropy on the Intracranial EEG Forward Solution 

    Bangera, Nitin B.; Schomer, Donald L.; Dehghani, Nima; Ulbert, Istvan; Cash, Sydney; Papavasiliou, Steve; Eisenberg, Solomon R.; Dale, Anders M.; Halgren, Eric (Springer US, 2010-1-9)
    Forward solutions with different levels of complexity are employed for localization of current generators, which are responsible for the electric and magnetic fields measured from the human brain. The influence of brain ...
  • Trichomonas Transmembrane Cyclases Result from Massive Gene Duplication and Concomitant Development of Pseudogenes 

    Cui, Jike; Das, Suchismita; Smith, Temple F.; Samuelson, John (Public Library of Science, 2010-8-3)
    BACKGROUND. Trichomonas vaginalis has an unusually large genome (∼160 Mb) encoding ∼60,000 proteins. With the goal of beginning to understand why some Trichomonas genes are present in so many copies, we characterized here ...
  • Chemical Combination Effects Predict Connectivity in Biological Systems 

    Lehár, Joseph; Zimmermann, Grant R.; Krueger, Andrew S.; Molnar, Raymond A.; Ledell, Jedediah T.; Heilbut, Adrian M.; Short, Glenn F.; Giusti, Leanne C.; Nolan, Garry P.; Magid, Omar A.; Lee, Margaret S.; Borisy, Alexis A.; Stockwell, Brent R.; Keith, Curtis T. (2007-02-27)
    Efforts to construct therapeutically useful models of biological systems require large and diverse sets of data on functional connections between their components. Here we show that cellular responses to combinations of ...
  • TB Database: An Integrated Platform for Tuberculosis Research 

    Reddy, T. B. K.; Riley, Robert; Wymore, Farrell; Montgomery, Phillip; DeCaprio, Dave; Engels, Reinhard; Gellesch, Marcel; Hubble, Jeremy; Jen, Dennis; Jin, Heng; Koehrsen, Michael; Larson, Lisa; Mao, Maria; Nitzberg, Michael; Sisk, Peter; Stolte, Christian; Weiner, Brian; White, Jared; Zachariah, Zachariah K.; Sherlock, Gavin; Galagan, James E.; Ball, Catherine A.; Schoolnik, Gary K. (Nucleic Acids Research, 2009-1)
    The effective control of tuberculosis (TB) has been thwarted by the need for prolonged, complex and potentially toxic drug regimens, by reliance on an inefficient vaccine and by the absence of biomarkers of clinical status. ...
  • COMBREX: A Project to Accelerate the Functional Annotation of Prokaryotic Genomes 

    Roberts, Richard J.; Chang, Yi-Chien; Hu, Zhenjun; Rachlin, John N.; Anton, Brian P.; Pokrzywa, Revonda M.; Choi, Han-Pil; Faller, Lina L.; Guleria, Jyotsna; Housman, Genevieve; Klitgord, Niels; Mazumdar, Varun; McGettrick, Mark G.; Osmani, Lais; Swaminathan, Rajeswari; Tao, Kevin R.; Letovsky, Stan; Vitkup, Dennis; Segrè, Daniel; Salzberg, Steven L.; DeLisi, Charles; Steffen, Martin; Kasif, Simon (2010-11-20)
    COMBREX (http://combrex.bu.edu) is a project to increase the speed of the functional annotation of new bacterial and archaeal genomes. It consists of a database of functional predictions produced by computational biologists ...
  • Identification and Characterization of Cell Type–Specific and Ubiquitous Chromatin Regulatory Structures in the Human Genome 

    Xi, Hualin; Shulha, Hennaed P.; Lin, Jane M.; Vales, Teresa R.; Fu, Yutao; Bodine, David M.; McKay, Ronald D. G.; Chenoweth, Josh G.; Tesar, Paul J.; Furey, Terrence S.; Ren, Bing; Weng, Zhiping; Crawford, Gregory E. (Public Library of Science, 2007-8-17)
    The identification of regulatory elements from different cell types is necessary for understanding the mechanisms controlling cell type–specific and housekeeping gene expression. Mapping DNaseI hypersensitive (HS) sites ...
  • Interpreting Expression Data with Metabolic Flux Models: Predicting Mycobacterium tuberculosis Mycolic Acid Production 

    Colijn, Caroline; Brandes, Aaron; Zucker, Jeremy; Lun, Desmond S.; Weiner, Brian; Farhat, Maha R.; Cheng, Tan-Yun; Moody, D. Branch; Murray, Megan; Galagan, James E. (Public Library of Science, 2009-8-28)
    Metabolism is central to cell physiology, and metabolic disturbances play a role in numerous disease states. Despite its importance, the ability to study metabolism at a global scale using genomic technologies is limited. ...
  • Signatures of Arithmetic Simplicity in Metabolic Network Architecture 

    Riehl, William J.; Krapivsky, Paul L.; Redner, Sidney; Segrè, Daniel (Public Library of Science, 2010-4-1)
    Metabolic networks perform some of the most fundamental functions in living cells, including energy transduction and building block biosynthesis. While these are the best characterized networks in living systems, understanding ...
  • Subspace Projection Approaches to Classification and Visualization of Neural Network-Level Encoding Patterns 

    Oşan, Remus; Zhu, Liping; Shoham, Shy; Tsien, Joe Z. (Public Library of Science, 2007-5-2)
    Recent advances in large-scale ensemble recordings allow monitoring of activity patterns of several hundreds of neurons in freely behaving animals. The emergence of such high-dimensional datasets poses challenges for the ...
  • Environments that Induce Synthetic Microbial Ecosystems 

    Klitgord, Niels; Segrè, Daniel (Public Library of Science, 2010-11-18)
    Interactions between microbial species are sometimes mediated by the exchange of small molecules, secreted by one species and metabolized by another. Both one-way (commensal) and two-way (mutualistic) interactions may ...
  • Integration of Relational and Hierarchical Network Information for Protein Function Prediction 

    Jiang, Xiaoyu; Nariai, Naoki; Steffen, Martin; Kasif, Simon; Kolaczyk, Eric D. (BioMed Central, 2008-8-22)
    BACKGROUND. In the current climate of high-throughput computational biology, the inference of a protein's function from related measurements, such as protein-protein interaction relations, has become a canonical task. Most ...
  • PFAAT Version 2.0: A Tool for Editing, Annotating, and Analyzing Multiple Sequence Alignments 

    Caffrey, Daniel R.; Dana, Paul H.; Mathur, Vidhya; Ocano, Marco; Hong, Eun-Jong; Wang, Yaoyu E.; Somaroo, Shyamal; Caffrey, Brian E.; Potluri, Shobha; Huang, Enoch S. (BioMed Central, 2007-10-11)
    BACKGROUND. By virtue of their shared ancestry, homologous sequences are similar in their structure and function. Consequently, multiple sequence alignments are routinely used to identify trends that relate to function. ...

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