A5023722931- Cooperative Communication and Network Coding
- Mobile Ad Hoc Networks
- Microbial Metabolic Engineering and Bioproduction
- Gene Regulatory Network Analysis
- Gene expression and cancer classification
- Wireless Networks and Protocols
- Wireless Communication Security Techniques
- Molecular Biology Techniques and Applications
- Forensic and Genetic Research
- Bacterial biofilms and quorum sensing
- Full-Duplex Wireless Communications
- Antimicrobial Resistance in Staphylococcus
- Algal biology and biofuel production
- bioluminescence and chemiluminescence research
- RNA and protein synthesis mechanisms
- Biofuel production and bioconversion
- Advanced Wireless Network Optimization
- Advanced Wireless Communication Techniques
- Photosynthetic Processes and Mechanisms
- Advanced Wireless Communication Technologies
- Bacillus and Francisella bacterial research
- Genomics and Phylogenetic Studies
- Single-cell and spatial transcriptomics
- Tuberculosis Research and Epidemiology
- Financial Risk and Volatility Modeling
Rutgers, The State University of New Jersey
2016-2025
Rutgers Sexual and Reproductive Health and Rights
2014-2024
University of South Australia
2009-2017
Australian Centre for Plant Functional Genomics
2009-2014
Broad Institute
2007-2009
Harvard University
2009
Massachusetts Institute of Technology
2002-2008
Decision Systems (United States)
2004-2007
University of Illinois Urbana-Champaign
2006-2007
U.S. National Science Foundation
2005
We consider the problem of establishing minimum-cost multicast connections over coded packet networks, i.e., networks where contents outgoing packets are arbitrary, causal functions received packets. both wireline and wireless as well static (where membership group remains constant for duration connection) dynamic changes in time, with nodes joining leaving group). For multicast, we reduce to a polynomial-time solvable optimization problem, present decentralized algorithms solving it. These...
Metabolism is central to cell physiology, and metabolic disturbances play a role in numerous disease states. Despite its importance, the ability study metabolism at global scale using genomic technologies limited. In principle, complete genome sequences describe range of reactions that are possible for an organism, but cannot quantitatively behaviour these reactions. We present novel method modeling states whole measurements gene expression. Our method, which we call E-Flux (as combination...
With the establishment of advanced technology facilities for high throughput plant phenotyping, problem estimating biomass individual plants from their two dimensional images is becoming increasingly important. The approach predominantly cited in literature to estimate a as linear function projected shoot area images. However, estimation error this model, which solely area, large, prohibiting accurate plants, particularly salt-stressed plants. In paper, we propose method based on specific...
Significance When starved for nutrients, diatoms redirect carbon toward biosynthesis of storage lipids, triacylglycerols (TAGs). We examined how this modification is achieved in the diatom Phaeodactylum tricornutum. Under nitrogen stress, cells cannibalized their photosynthetic apparatus while recycling intracellular and redirecting it to synthesize assimilation enzymes. Simultaneously, they allocated newly fixed lipids. In contrast, a nitrate reductase knocked-down strain shunted ∼40% more...
We present decentralized algorithms that compute minimum-cost subgraphs for establishing multicast connections in networks use coding. These algorithms, coupled with existing schemes constructing network codes, constitute a fully approach achieving multicast. Our is sharp contrast to the prevailing based on approximation directed Steiner tree problem, which suboptimal and generally assumes centralized computation full knowledge. also give extensions beyond basic problem of fixed-rate...
In this article we present CodeCast, a network-coding-based ad hoc multicast protocol. CodeCast is especially well-suited for multimedia applications with low-loss, low-latency constraints such as audio/video streaming. The key ingredient of random network coding, which transparently implements both localized loss recovery and path diversity very low overhead. Simulation results show that in typical setting, yields nearly 100 percent delivery ratio, compared to 94 ratio by traditional...
In this paper we consider the application of network coding to a multiple unicast setup. We present two suboptimal, yet practical code construction techniques. One consists linear program and other an integer with fewer variables constraints. discuss performance proposed techniques as well their complexity
In "On Coding for Reliable Communication over Packet Networks" (Lun, Medard, and Effros, Proc. 42nd Annu. Allerton Conf. Communication, Control, Computing, 2004), a capacity-achieving coding scheme unicast or multicast lossy wireline wireless packet networks is presented. We extend that paper's results in two ways: First, we the network model to allow packets received on link arrive according any process with an average rate, as opposed assumption of Poisson traffic i.i.d. losses was...
Multimedia (e.g., video) information exchange in VANET, if feasible, will help enhance vehicle navigation safety. We show that network coding allows very reliable and efficient data dissemination thus is suitable for multimedia safety dissemination. If the column has gaps, jointly with "data muling" on vehicles opposite direction can deliver files to disconnected components faster than other known schemes.
ABSTRACT Multidrug-resistant tuberculosis has emerged as a major threat to control. Phylogenetically related rifampin-resistant actinomycetes with mutations mapping clinically dominant Mycobacterium in the rpoB gene show upregulation of networks encoding secondary metabolites. We compared expressed proteomes and metabolomes two fully drug-susceptible clinical strains M. (wild type) those their respective rifampin-resistant, mutant progeny confirmed rifampin monoresistance following...
Summary Diatoms (Bacillarophyceae) are photosynthetic unicellular microalgae that have risen to ecological prominence in oceans over the past 30 million years. They of interest as potential feedstocks for sustainable biofuels. Maximizing production these will require genetic modifications and an understanding algal metabolism. These processes may benefit from genome‐scale models, which predict intracellular fluxes theoretical yields, well viability knockout knock‐in transformants. Here we...
ABSTRACT Staphylococcus aureus is a versatile bacterial pathogen that can cause significant disease burden and mortality. Like other pathogens, S. must adapt to its environment produce virulence factors survive the immune responses evoked by infection. Despite importance of environmental signals for pathogenicity, only limited number these have been investigated in detail their ability modulate virulence. Here we show pyruvate, central metabolite, causes alterations overall metabolic flux...
ABSTRACT Staphylococcus aureus is a formidable human pathogen that uses secreted cytolytic factors to injure immune cells and promote infection of its host. Of these proteins, the bicomponent family pore-forming leukocidins play critical roles in S. pathogenesis. The regulatory mechanisms governing expression toxins are incompletely defined. In this work, we performed screen identify transcriptional regulators involved leukocidin strain USA300. We discovered metabolic sensor-regulator,...
In this paper we examine possible ways that feedback can be used, in the context of systems with network coding capabilities. We illustrate, through a number simple examples, use employed for parameter adaptation to satisfy QoS requirements as well reliability purposes. also argue there are benefits applying packets themselves, and finally, design acknowledgment packets.
We consider the problem of establishing an efficient unicast connection over a wireless packet network. show how network coding, combined with distributed flow optimization, gives practicable approach that promises to significantly outperform present end-to-end or link-by-link retransmission route where performance may be measured in terms energy consumption, congestion, any other cost increases number transmissions made by each node. specific coding scheme and optimization techniques used...
We present CSDeconv, a computational method that determines locations of transcription factor binding from ChIP-seq data. CSDeconv differs prior methods in it uses blind deconvolution approach allows closely-spaced sites to be called accurately. apply novel data for DosR Mycobacterium tuberculosis and existing GABP humans show can discriminate separated by as few 40 bp.