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Biomedical Engineering and Bioengineering

Selected Works

Selected Works

2005

Articles 1 - 5 of 5

Full-Text Articles in Engineering

Genome-Wide Requirements For Resistance To Functionally Distinct Dna-Damaging Agents, Patrick Flaherty Jul 2005

Genome-Wide Requirements For Resistance To Functionally Distinct Dna-Damaging Agents, Patrick Flaherty

Patrick Flaherty

The mechanistic and therapeutic differences in the cellular response to DNA-damaging compounds are not completely understood, despite intense study. To expand our knowledge of DNA damage, we assayed the effects of 12 closely related DNA-damaging agents on the complete pool of ;4,700 barcoded homozygous deletion strains of
Saccharomyces cerevisiae. In our protocol, deletion strains are pooled together and grown competitively in the presence of compound. Relative strain sensitivity is determined by hybridization of PCR-amplified barcodes to an oligonucleotide array carrying the barcode complements. These screens identified genes in well-characterized DNAdamage-response pathways as well as genes whose role in the …

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A Latent Variable Model For Chemogenomic Profiling, Patrick Flaherty Jul 2005

A Latent Variable Model For Chemogenomic Profiling, Patrick Flaherty

Patrick Flaherty

Motivation: In haploinsufficiency profiling data, pleiotropic genes
are often misclassified by clustering algorithms that impose the constraint that a gene or experiment belong to only one cluster. We
have developed a general probabilistic model that clusters genes and
experiments without requiring that a given gene or drug only appear
in one cluster. The model also incorporates the functional annotation
of known genes to guide the clustering procedure.
Results: We applied our model to the clustering of 79 chemogenomic
experiments in yeast. Known pleiotropic genes PDR5 and MAL11 are
more accurately represented by the model than by a clustering procedure that …

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Inkjet Printing Of Viable Mammalian Cells, Tao Xu, Joyce Jin, Cassie Gregory, Jay Hickman, Thomas Boland Dec 2004

Inkjet Printing Of Viable Mammalian Cells, Tao Xu, Joyce Jin, Cassie Gregory, Jay Hickman, Thomas Boland

Thomas Boland

The purpose of this study was to explore the use of a commercial thermal printer to deposit Chinese Hamster Ovary (CHO) and embryonic motoneuron cells into pre-defined patterns. These experiments were undertaken to verify the biocompatibility of thermal inkjet printing of mammalian cells and the ability to assemble them into viable constructs. Using a modified Hewlett Packard (HP) 550C computer printer and an HP 51626a ink cartridge, CHO cells and rat embryonic motoneurons were suspended separately in a concentrated phosphate buffered saline solution (3 x). The cells were subsequently printed as a kind of "ink" onto several "bio-papers" made from …

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Advances In Tissue Engineering: Cell Printing, David Varghese, Malay Deshpande, Priya Kesari, S Ohri, Thomas Boland Dec 2004

Advances In Tissue Engineering: Cell Printing, David Varghese, Malay Deshpande, Priya Kesari, S Ohri, Thomas Boland

Thomas Boland

No abstract provided.

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Bioproduction Of 1,3-Propanediol Dehydrogenase – A Preliminary Overview, Chuen-Tat Kang Dec 2004

Bioproduction Of 1,3-Propanediol Dehydrogenase – A Preliminary Overview, Chuen-Tat Kang

Kang Chuen Tat (江俊达)

Overall rate of bioproduction in 1,3-propanediol dehydrogenase, an enzyme that catalyse the synthesis of the precursor of aromatic high quality plastic, could be affected by preliminary product 3-hydroxypropionaldehyde (HPA) where many structural properties have been summarily analysed via nuclear magnetic resonance (NMR), Fourier Transformed Infrared Spectroscopy (FTIR), High Performance Liquid Chromatography (HPLC), Gas Phase Chromatography (GPC), Scanning Electron Microscopy (SEM). Although the chemical instrumental analysis of the 3-hydroxypropionaldehyde (HPA) may not produce desired result but the data obtained could be useful for future similar analysis that are rare in bulk production. The microbial consumption of various media especially those with …

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