Department of Biochemistry and Molecular Biology

  • United States

Research Output 1969 2019

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Conference contribution
2019

Multiphoton and harmonic generation imaging methods enable direct visualization of drug nanoparticle carriers in conjunction with vasculature in fibrotic prostate tumor mouse model

Abraham, T., Clawson, G., McGovern, C. O., Edris, W., Tang, X., Adair, J. H. & Matters, G., Jan 1 2019, Imaging, Manipulation, and Analysis of Biomolecules, Cells, and Tissues XVII. Tarnok, A., Leary, J. F. & Farkas, D. L. (eds.). SPIE, 108811T. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 10881).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Drug Carriers
Harmonic generation
Nanoparticles
mice
Tumors
2017

HiCComp: Multiple-level comparative analysis of Hi-C data by triplet network

Zhang, Y., Zhang, B., Zheng, W. J., Tang, J. & Yue, F., Dec 15 2017, Proceedings - 2017 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2017. Yoo, I., Zheng, J. H., Gong, Y., Hu, X. T., Shyu, C-R., Bromberg, Y., Gao, J. & Korkin, D. (eds.). Institute of Electrical and Electronics Engineers Inc., p. 92-96 5 p. (Proceedings - 2017 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2017; vol. 2017-January).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Genes
Tissue
Neural networks
Transcription factors
Binding sites

Synchrotron microCT imaging of soft tissue in juvenile zebrafish reveals retinotectal projections

Xin, X., Clark, D., Ang, K., Van Rossum, D. B., Copper, J., Xiao, X., La Riviere, P. J. & Cheng, K., Jan 1 2017, Optical Biopsy XV: Toward Real-Time Spectroscopic Imaging and Diagnosis. Alfano, R. R. & Demos, S. G. (eds.). SPIE, 100601I. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 10060).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

X-Ray Microtomography
Synchrotrons
Zebrafish
synchrotrons
projection
2016

Automated detection of retinal cell nuclei in 3D micro-CT images of zebrafish using support vector machine classification

Ding, Y., Tavolara, T. & Cheng, K., Jan 1 2016, Medical Imaging 2016: Digital Pathology. Madabhushi, A. & Gurcan, M. N. (eds.). SPIE, 97911A. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 9791).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Zebrafish
Cell Nucleus
organisms
Support vector machines
Cells
8 Citations (Scopus)

Transcriptional enhancers: Bridging the genome and phenome

Ren, B. & Yue, F., Jan 1 2016, 21st Century Genetics Genes at Work, 2015. Grodzicker, T., Stillman, B. & Stewart, D. (eds.). Cold Spring Harbor Laboratory Press, p. 17-26 10 p. (Cold Spring Harbor Symposia on Quantitative Biology; vol. 80).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Chromatin
Histone Code
Genes
Genome
Gene Expression Regulation
2013

A metagenomic approach to the airways microbiome of chronic obstructive pulmonary disease (COPD)

Fernandez, M., Jaric, M., Schneper, L., Segal, J., Silva-Herzog, E., Campos, M., Fishman, J., Salathe, M., Wanner, A., Infante, J., Mathee, K. & Narasimhan, G., Aug 5 2013, Proceedings - 29th Southern Biomedical Engineering Conference, SBEC 2013. p. 151-152 2 p. 6525721. (Proceedings - 29th Southern Biomedical Engineering Conference, SBEC 2013).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Pulmonary diseases
Bioinformatics

Designing primers with higher taxonomic distinguishability

Jaric, M., Segal, J., Silva-Herzog, E., Schneper, L., Mathee, K. & Narasimhan, G., Aug 5 2013, Proceedings - 29th Southern Biomedical Engineering Conference, SBEC 2013. p. 157-158 2 p. 6525724. (Proceedings - 29th Southern Biomedical Engineering Conference, SBEC 2013).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Experiments
Chemical analysis
2011
64 Citations (Scopus)

TRP channels as mediators of oxidative stress

Miller, B. & Zhang, W., Dec 15 2011, Transient Receptor Potential Channels. Islam, S. & Islam, S. (eds.). p. 531-544 14 p. (Advances in Experimental Medicine and Biology; vol. 704).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Transient Receptor Potential Channels
Oxidative stress
Oxidants
Oxidative Stress
Cell death
2010
7 Citations (Scopus)

Optimizing synchrotron micro-CT for high-throughput phenotyping of zebrafish

La Rivière, P. J., Clark, D., Rojek, A., Vargas, P., Xiao, X., DeCarlo, F., Kindlmann, G. & Cheng, K., Dec 1 2010, Developments in X-Ray Tomography VII. 78040M. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 7804).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Micro-CT
Synchrotrons
Contrast Enhancement
High Throughput
Atlas
2009
3 Citations (Scopus)

Context-dependent fusion for mine detection using airborne hyperspectral imagery

Zhang, L., Frigui, H., Gader, P. & Bolton, J., Dec 21 2009, WHISPERS '09 - 1st Workshop on Hyperspectral Image and Signal Processing: Evolution in Remote Sensing. 5288973. (WHISPERS '09 - 1st Workshop on Hyperspectral Image and Signal Processing: Evolution in Remote Sensing).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Fusion reactions
Experiments

Context-dependent fusion of multiple algorithms with minimum classification error learning

Zhang, L., Frigui, H. & Gader, P., Dec 1 2009, 8th International Conference on Machine Learning and Applications, ICMLA 2009. p. 190-195 6 p. 5381831. (8th International Conference on Machine Learning and Applications, ICMLA 2009).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Fusion reactions
Classifiers
Agglomeration
2008

A functional network of yeast genes using gene ontology information

Zeng, E., Narasimhan, G., Schneper, L. & Mathee, K., Dec 1 2008, Proceedings - IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2008. p. 343-346 4 p. 4684916. (Proceedings - IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2008).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Gene Ontology
Gene Regulatory Networks
Yeast
Ontology
Genes
3 Citations (Scopus)

A new approach for tree alignment based on local re-optimization

Yue, F. & Tang, J., Sep 17 2008, BioMedical Engineering and Informatics: New Development and the Future - Proceedings of the 1st International Conference on BioMedical Engineering and Informatics, BMEI 2008. p. 34-38 5 p. 4548631. (BioMedical Engineering and Informatics: New Development and the Future - Proceedings of the 1st International Conference on BioMedical Engineering and Informatics, BMEI 2008; vol. 1).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Coffee
Pulse amplitude modulation
Bioinformatics
Dynamic programming
DNA
6 Citations (Scopus)

Automated segmentation and classification of zebrafish histology images for high-throughput phenotyping

Canada, B., Thomas, G., Cheng, K. & Wang, J., Sep 8 2008, 2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA. p. 245-248 4 p. 4400930

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Histology
Throughput
Analog to digital conversion
Decision trees
Animals
4 Citations (Scopus)

Automatic lattice detection in near-regular histology array images

Canada, B. A., Thomas, G. K., Cheng, K., Wang, J. & Liu, Y., Dec 1 2008, 2008 IEEE International Conference on Image Processing, ICIP 2008 Proceedings. p. 1452-1455 4 p. 4712039. (Proceedings - International Conference on Image Processing, ICIP).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Histology
Textures
Group theory
Image processing
Automation
6 Citations (Scopus)

Context-Dependent multi-sensor fusion for landmine detection

Frigui, H., Zhang, L. & Gader, P., Dec 1 2008, 2008 IEEE International Geoscience and Remote Sensing Symposium - Proceedings. 1 ed. 4779005. (International Geoscience and Remote Sensing Symposium (IGARSS); vol. 2, no. 1).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

landmine
Sensor data fusion
sensor
Fusion reactions
Detectors
6 Citations (Scopus)

Towards efficient automated characterization of irregular histology images via transformation to frieze-like patterns

Canada, B. A., Thomas, G. K., Cheng, K. C., Wang, J. Z. & Liu, Y., Dec 17 2008, CIVR 2008 - Proceedings of the International Conference on Content-based Image and Video Retrieval. p. 581-590 10 p. (CIVR 2008 - Proceedings of the International Conference on Content-based Image and Video Retrieval).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Histology
Tissue
Textures
Analog to digital conversion
Image analysis
2007
8 Citations (Scopus)

A divide-and-conquer implementation of three sequence alignment and ancestor inference

Yue, F. & Tang, J., Dec 1 2007, Proceedings - 2007 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2007. p. 143-150 8 p. 4413048. (Proceedings - 2007 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2007).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Sequence Alignment
Coffee
Data storage equipment
Software
Dynamic programming
1 Citation (Scopus)

A heuristic for phylogenetic reconstruction using transposition

Yue, F., Zhang, M. & Tang, J., Dec 1 2007, Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE. p. 802-808 7 p. 4375652

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Genes
Genome
Phylogeny
Gene Order
Genomics
27 Citations (Scopus)

Context-dependent fusion for landmine detection with ground penetrating radar

Frigui, H., Zhang, L., Gader, P. & Ho, D., Nov 15 2007, Detection and Remediation Technologies for Mines and Minelike Targets XII. 655321. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 6553).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Ground Penetrating Radar
Landmines
ground penetrating radar
Fusion
Radar
1990
9 Citations (Scopus)

The collagens of bone and cartilage: Molecular diversity and supramolecular assembly

Eyre, D. R., Wu, J. J. & Niyibizi, C., 1990, Calcium regulation and bone metabolism. Basic and clinical aspects: proceedings of the 10th International Conference on calcium regulating hormones and bone metabolism. ICS886. Cohn, D. V., Glorieux, F. H., Martin, T. J., Cohn, D. V., Glorieux, F. H. & Martin, T. J. (eds.). Elsevier Science Publishers B.V., p. 188-194 7 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Bone and Bones
Type 2 alpha 1 Collagenopathy
1987

ACCELERATED REFLEX TESTING USING AN AI MODEL IN A WELL-PATIENT SETTING.

Castellani, W. J., Chou, D., Van Lente, F. & Galen, R. S., 1987, IEEE/Engineering in Medicine and Biology Society Annual Conference. IEEE, p. 1533-1534 2 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Testing
Artificial intelligence
2 Citations (Scopus)

MECHANISM OF PROPAGATION OF THE YEAST 2- mu m CIRCLE PLASMID.

Volkert, F. C. & Broach, J., 1987, Unknown Host Publication Title. Stewart, G. G., Russell, I., Klein, R. D. & Hiebsch, R. R. (eds.). CRC Press Inc, Vol. 2. p. 145-170 26 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Yeast
DNA