Publications 1992 2016

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  • 110 Article
  • 22 Conference contribution
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Article
2010
46 Citations

Designing highly active siRNAs for therapeutic applications

Patrick Walton, S., Wu, M., Gredell, J. A. & Chan, C. Dec 2010 In : FEBS Journal. 277, 23, p. 4806-4813 8 p.

Research output: Research - peer-reviewArticle

Small Interfering RNA
Therapeutics
RNA Interference
RNA
Thermodynamics
2 Citations

Erratum: Time controlled protein release from layer-by-layer assembled multilayer functionalized agarose hydrogels (Advanced Functional Materials (2010) 20 (247) 10.1002/adfm.200901172)

Mehrotra, S., Lynam, D., Maloney, R., Pawelec, K. M., Tuszynski, M. H., Lee, I., Chan, C. & Sakamoto, J. Mar 24 2010 In : Advanced Functional Materials. 20, 6, p. 878 1 p.

Research output: Research - peer-reviewArticle

29 Citations
Cell Separation
Mesenchymal Stromal Cells
Stem cells
Rats
Hematopoietic Stem Cells
5 Citations
Cell Separation
Mesenchymal Stromal Cells
Stem cells
Rats
Hematopoietic Stem Cells
32 Citations

Recognition of siRNA asymmetry by TAR RNA binding protein

Gredell, J. A., Dittmer, M. J., Wu, M., Chan, C. & Walton, S. P. Apr 13 2010 In : Biochemistry. 49, 14, p. 3148-3155 8 p.

Research output: Research - peer-reviewArticle

Small Interfering RNA
trans-activation responsive RNA-binding protein
RNA-Induced Silencing Complex
RNA Interference
Proteins
24 Citations

Synergistic effect of cAMP and palmitate in promoting altered mitochondrial function and cell death in HepG2 cells

Zhang, L., Seitz, L. C., Abramczyk, A. M. & Chan, C. Mar 10 2010 In : Experimental Cell Research. 316, 5, p. 716-727 12 p.

Research output: Research - peer-reviewArticle

Palmitates
Hep G2 Cells
Cell Death
Organelle Biogenesis
Reactive Oxygen Species
24 Citations

The double-stranded RNA-dependent protein kinase differentially regulates insulin receptor substrates 1 and 2 in HepG2 cells

Yang, X., Nath, A., Opperman, M. J. & Chan, C. Oct 1 2010 In : Molecular Biology of the Cell. 21, 19, p. 3449-3458 10 p.

Research output: Research - peer-reviewArticle

eIF-2 Kinase
Insulin Receptor Substrate Proteins
Double-Stranded RNA
Hep G2 Cells
Phosphorylation
65 Citations

Time controlled protein release from layer-by-layer assembled multilayer functionalized agarose hydrogels

Mehrotra, S., Lynam, D., Maloney, R., Pawelec, K. M., Tuszynski, M. H., Lee, I., Chan, C. & Sakamoto, J. Jan 22 2010 In : Advanced Functional Materials. 20, 2, p. 247-258 12 p.

Research output: Research - peer-reviewArticle

Hydrogels
Sepharose
Multilayers
Proteins
proteins
30 Citations

Withanolide a and asiatic acid modulate multiple targets associated with amyloid-β precursor protein processing and amyloid-β protein clearance

Patil, S. P., Maki, S., Khedkar, S. A., Rigby, A. C. & Chan, C. Jul 23 2010 In : Journal of Natural Products. 73, 7, p. 1196-1202 7 p.

Research output: Research - peer-reviewArticle

Withanolides
Amyloid beta-Protein Precursor
Amyloid beta-Peptides
Alzheimer Disease
asiatic acid
2009
21 Citations

A dynamic analysis of IRS-PKR signaling in liver cells: A discrete modeling approach

Wu, M., Yang, X. & Chan, C. 2009 In : PLoS One. 4, 12, e8040

Research output: Research - peer-reviewArticle

Liver
Dynamic analysis
hepatocytes
Insulin
insulin

Integrative analysis of cancer pathway progression and coherence

Dalkic, E., Walter Nash, D. E., Fassia, M. K. & Chan, C. 2009 In : Proteomics - Clinical Applications. 3, 4, p. 473-485 13 p.

Research output: Research - peer-reviewArticle

Colorectal Neoplasms
Neoplasms
Genes
Encyclopedias
Genome
39 Citations

Multilayer mediated forward and patterned siRNA transfection using linear-PEI at extended N/P ratios

Mehrotra, S., Lee, I. & Chan, C. Jun 2009 In : Acta Biomaterialia. 5, 5, p. 1474-1488 15 p.

Research output: Research - peer-reviewArticle

Polyetherimides
Small Interfering RNA
Multilayers
RNA
Transfection
14 Citations

Reconstruct modular phenotype-specific gene networks by knowledge-driven matrix factorization

Yang, X., Zhou, Y., Jin, R. & Chan, C. 2009 In : Bioinformatics. 25, 17, p. 2236-2243 8 p.

Research output: Research - peer-reviewArticle

Gene Networks
Matrix Factorization
Phenotype
Gene
Knowledge
25 Citations

Repression of PKR mediates palmitate-induced apoptosis in HepG2 cells through regulation of Bcl-2

Yang, X. & Chan, C. Apr 2009 In : Cell Research. 19, 4, p. 469-486 18 p.

Research output: Research - peer-reviewArticle

Palmitates
Hep G2 Cells
Phosphorylation
Apoptosis
Proteins
25 Citations

The role of fatty acid unsaturation in minimizing biophysical changes on the structure and local effects of bilayer membranes

Leekumjorn, S., Cho, H. J., Wu, Y., Wright, N. T., Sum, A. K. & Chan, C. Jul 2009 In : Biochimica et Biophysica Acta - Biomembranes. 1788, 7, p. 1508-1516 9 p.

Research output: Research - peer-reviewArticle

Unsaturated Fatty Acids
Fatty Acids
Membranes
Oleic Acid
Liposomes
2008
4 Citations

A bayesian framework for knowledge driven regression model in micro-array data analysis

Jin, R., Si, L. & Chan, C. 2008 In : International Journal of Data Mining and Bioinformatics. 2, 3, p. 250-267 18 p.

Research output: Research - peer-reviewArticle

Linear regression
data analysis
regression
Linear Models
Gene expression
10 Citations

A novel method incorporating gene ontology information for unsupervised clustering and feature selection

Srivastava, S., Zhang, L., Jin, R. & Chan, C. Dec 4 2008 In : PLoS One. 3, 12, e3860

Research output: Research - peer-reviewArticle

Gene Ontology
Cluster Analysis
Genes
Ontology
Feature extraction
28 Citations

Application of metabolic flux analysis to identify the mechanisms of free fatty acid toxicity to human hepatoma cell line

Srivastava, S. & Chan, C. Feb 1 2008 In : Biotechnology and Bioengineering. 99, 2, p. 399-410 12 p.

Research output: Research - peer-reviewArticle

Metabolic Flux Analysis
Nonesterified Fatty Acids
Hepatocellular Carcinoma
Fatty Acids
Cell Line
14 Citations

Brain region-specificity of palmitic acid-induced abnormalities associated with Alzheimer's disease

Patil, S., Balu, D., Melrose, J. & Chan, C. 2008 In : BMC Research Notes. 1, 20

Research output: Research - peer-reviewArticle

Palmitic Acid
Alzheimer Disease
Brain
Astrocytes
Cerebellum
25 Citations

Experimental and computational studies investigating trehalose protection of HepG2 cells from palmitate-induced toxicity

Leekumjorn, S., Wu, Y., Sum, A. K. & Chan, C. Apr 2008 In : Biophysical Journal. 94, 7, p. 2869-2883 15 p.

Research output: Research - peer-reviewArticle

Trehalose
Palmitates
Hep G2 Cells
Hepatocytes
Cell Membrane
59 Citations

Gene module level analysis: identification to networks and dynamics

Wang, X., Dalkic, E., Wu, M. & Chan, C. Oct 2008 In : Current Opinion in Biotechnology. 19, 5, p. 482-491 10 p.

Research output: Research - peer-reviewArticle

Gene Regulatory Networks
Genes
Biological systems
Molecular Medicine
Inborn Genetic Diseases
35 Citations
Oxidative stress
Polyelectrolytes
Neurons
Astrocytes
neurons
26 Citations

Short time-series microarray analysis: Methods and challenges

Wang, X., Wu, M., Li, Z. & Chan, C. Jul 7 2008 In : BMC Systems Biology. 2, 58

Research output: Research - peer-reviewArticle

Microarray Analysis
Time Series Analysis
Time Series Data
Microarrays
Time series
15 Citations
glycols
ethylene
templates
acids
Polyelectrolytes
10 Citations

Using dynamic gene module map analysis to identify targets that modulate free fatty acid induced cytotoxicity

Li, Z., Srivastava, S., Findlan, R. & Chan, C. Jan 2008 In : Biotechnology Progress. 24, 1, p. 29-37 9 p.

Research output: Research - peer-reviewArticle

free fatty acids
cytotoxicity
gene regulatory networks
Gene Regulatory Networks
Nonesterified Fatty Acids
2007
18 Citations

A hierarchical approach employing metabolic and gene expression profiles to identify the pathways that confer cytotoxicity in HepG2 cells

Li, Z., Srivastava, S., Yang, X., Mittal, S., Norton, P., Resau, J., Haab, B. & Chan, C. May 11 2007 In : BMC Systems Biology. 1, 21

Research output: Research - peer-reviewArticle

Cytotoxicity
Gene Expression Profile
Fatty Acids
Pathway
Cell
18 Citations

A three stage integrative pathway search (TIPS©) framework to identify toxicity relevant genes and pathways

Li, Z., Srivastava, S., Mittal, S., Yang, X., Sheng, L. & Chan, C. Jun 14 2007 In : BMC Bioinformatics. 8, 202

Research output: Research - peer-reviewArticle

Toxicity
Pathway
Gene
Framework
Metabolites
54 Citations

Cell adhesion on polyelectrolyte multilayer coated polydimethylsiloxane surfaces with varying topographies

Kidambi, S., Udpa, N., Schroeder, S. A., Findlan, R., Lee, I. & Chan, C. Aug 2007 In : Tissue Engineering. 13, 8, p. 2105-2117 13 p.

Research output: Research - peer-reviewArticle

Cell adhesion
Polydimethylsiloxane
Polyelectrolytes
Topography
Multilayers
51 Citations
Palmitates
Hydroxyl Radical
Hydrogen Peroxide
Hepatocellular Carcinoma
Permeability
9 Citations

Identification of genes that regulate multiple cellular processes/ responses in the context of lipotoxicity to hepatoma cells

Srivastava, S., Li, Z., Yang, X., Yedwabnick, M., Shaw, S. & Chan, C. Oct 9 2007 In : BMC Genomics. 8, 364

Research output: Research - peer-reviewArticle

Hepatocellular Carcinoma
Genes
Nonesterified Fatty Acids
Triglycerides
Tumor Necrosis Factor-alpha
61 Citations

Involvement of astroglial ceramide in palmitic acid-induced Alzheimer-like changes in primary neurons

Patil, S., Melrose, J. & Chan, C. Oct 2007 In : European Journal of Neuroscience. 26, 8, p. 2131-2141 11 p.

Research output: Research - peer-reviewArticle

Palmitic Acid
Ceramides
Alzheimer Disease
Neurons
Nonesterified Fatty Acids
53 Citations

Patterned co-culture of primary hepatocytes and fibroblasts using polyelectrolyte multilayer templates

Kidambi, S., Sheng, L., Yarmush, M. L., Toner, M., Lee, I. & Chan, C. Mar 8 2007 In : Macromolecular Bioscience. 7, 3, p. 344-353 10 p.

Research output: Research - peer-reviewArticle

Polystyrenes
Coculture Techniques
Hepatocytes
Fibroblasts
Polyelectrolytes
2006
Microarray Analysis
Linear Models
Gene Expression
Microarrays
Gene expression
1 Citations

Biological network analyses: Computational genomics and systems approaches

Walton, S. P., Li, Z. & Chan, C. Jan 1 2006 In : Molecular Simulation. 32, 3-4, p. 203-209 7 p.

Research output: Research - peer-reviewArticle

Biological Networks
Genomics
Throughput
Chemical engineering
Engineers
4 Citations

Cellular to tissue informatics: Approaches to optimizing cellular function of engineered tissue

Patil, S., Li, Z. & Chan, C. Jul 15 2006 In : Advances in Biochemical Engineering/Biotechnology. 102, p. 139-159 21 p.

Research output: Research - peer-reviewArticle

Tissue
Informatics
Tissue engineering
Tissue Engineering
Artificial Skin
57 Citations

Palmitic acid-treated astrocytes induce BACE1 upregulation and accumulation of C-terminal fragment of APP in primary cortical neurons

Patil, S., Sheng, L., Masserang, A. & Chan, C. Oct 2 2006 In : Neuroscience Letters. 406, 1-2, p. 55-59 5 p.

Research output: Research - peer-reviewArticle

Palmitic Acid
Amyloid beta-Protein Precursor
Astrocytes
Alzheimer Disease
Up-Regulation
34 Citations

Using a state-space model with hidden variables to infer transcription factor activities

Li, Z., Shaw, S. M., Yedwabnick, M. J. & Chan, C. Mar 15 2006 In : Bioinformatics. 22, 6, p. 747-754 8 p.

Research output: Research - peer-reviewArticle

Hidden Variables
State-space Model
Transcription Factor
Space Simulation
Transcription Factors
61 Citations

Palmitic and stearic fatty acids induce Alzheimer-like hyperphosphorylation of tau in primary rat cortical neurons

Patil, S. & Chan, C. Aug 26 2005 In : Neuroscience Letters. 384, 3, p. 288-293 6 p.

Research output: Research - peer-reviewArticle

Stearic Acids
Nonesterified Fatty Acids
Alzheimer Disease
Neurons
Fatty Acids
2004
60 Citations

Controlling primary hepatocyte adhesion and spreading on protein-free polyelectrolyte multilayer films

Kidambi, S., Lee, I. & Chan, C. Dec 22 2004 In : Journal of the American Chemical Society. 126, 50, p. 16286-16287 2 p.

Research output: Research - peer-reviewArticle

Multilayer films
Polyelectrolytes
Adhesion
Proteins
Hepatocytes
7 Citations

Extracting novel information from gene expression data

Li, Z. & Chan, C. Aug 1 2004 In : Trends in Biotechnology. 22, 8, p. 381-383 3 p.

Research output: Research - peer-reviewArticle

Gene expression
Gene Expression
Transcription Factors
Transcription factors
Network components
92 Citations

Hepatic tissue engineering for adjunct and temporary liver support: Critical technologies

Chan, C., Berthiaume, F., Nath, B. D., Tilles, A. W., Toner, M. & Yarmush, M. L. Nov 2004 In : Liver Transplantation. 10, 11, p. 1331-1342 12 p.

Research output: Research - peer-reviewArticle

Tissue Engineering
Technology
Liver
Equipment and Supplies
Artificial Liver
33 Citations
Testing
Metabolic Networks and Pathways
Tricarboxylic Acids
Signal transduction
Reverse engineering
7 Citations

Insulin concentration during preconditioning mediates the regulation of urea synthesis during exposure to amino acid-supplemented plasma

Li, Z., Yarmush, M. L. & Chan, C. Nov 2004 In : Tissue Engineering. 10, 11-12, p. 1737-1746 10 p.

Research output: Research - peer-reviewArticle

Insulin
Urea
Amino acids
Plasmas
Amino Acids
21 Citations

Integrating gene expression and metabolic profiles

Li, Z. & Chan, C. Jun 25 2004 In : Journal of Biological Chemistry. 279, 26, p. 27124-27137 14 p.

Research output: Research - peer-reviewArticle

Metabolome
Transcriptome
Genes
Gene expression
Metabolic Networks and Pathways
17 Citations

Inverse modeling using multi-block PLS to determine the environmental conditions that provide optimal cellular function

Hwang, D., Stephanopoulos, G. & Chan, C. Mar 1 2004 In : Bioinformatics. 20, 4, p. 487-499 13 p.

Research output: Research - peer-reviewArticle

Inverse Modeling
Multiblock
Environmental Factors
Least-Squares Analysis
Tissue
45 Citations
Self assembled monolayers
Polyelectrolytes
Polyethylene glycols
Multilayers
Acids
2003
38 Citations

Application of multivariate analysis to optimize function of cultured hepatocytes

Chan, C., Hwang, D., Stephanopoulos, G. N., Yarmush, M. L. & Stephanopoulos, G. Mar 2003 In : Biotechnology Progress. 19, 2, p. 580-598 19 p.

Research output: Research - peer-reviewArticle

hepatocytes
multivariate analysis
Hepatocytes
Multivariate Analysis
Liver
65 Citations

Metabolic Flux Analysis of Cultured Hepatocytes Exposed to Plasma

Chan, C., Berthiaume, F., Lee, K. & Yarmush, M. L. Jan 5 2003 In : Biotechnology and Bioengineering. 81, 1, p. 33-49 17 p.

Research output: Research - peer-reviewArticle

Fluxes
Plasmas
Hepatocytes
Metabolic Flux Analysis
Insulin
44 Citations

Metabolic flux analysis of hepatocyte function in hormone- and amino acid-supplemented plasma

Chan, C., Berthiaume, F., Lee, K. & Yarmush, M. L. Jan 2003 In : Metabolic Engineering. 5, 1, p. 1-15 15 p.

Research output: Research - peer-reviewArticle

Hormones
Fluxes
Plasmas
Amino Acids
Hepatocytes