James Lim, Phd Email & Phone Number

Providing bioinformatic support for drug discovery.

Tucson, Arizona Area

• My postdoctoral work in computational biology consisted of working with various cancer biology labs to analyze multi-comics data and developing novel computational methods for evaluating the statistical significance of.
• Investigated how structural changes in gene regulatory networks leads to disease states.
• Developed a novel computational algorithm for evaluating the statistical significance of changes in network modular structure in gene regulatory networks (Lim et al., 2021).
• Applied network analysis on multi-omics data to identify active biological processes using protein-protein interaction networks (Lim et al., 2020).
• Analyzed multi-omics data and developed algorithms to find enrichment of disease associated variants in gene regulatory networks.
• Created RNA-seq alignment pipeline using bash script and high-performance computing.

• My dissertation focused on the role of the endocannabinoid system in modulating long-term anxiety brought on by acute stress in rats. Through series of experiments administering drugs that prevent the breakdown of.
• Used predator odor exposure paradigm in conjunction with elevated plus maze to induce acute stress and assess anxiety-like behavior in rats.
• Proficiently operated the high performance liquid chromatography (HPLC) coupled to a mass spectrometry to analyze and quantify endocannabinoids and other lipid signaling components in rat brain and peripheral tissue.
• Created dose response curves for newly discovered and synthesized drugs.
• Performed stereotaxic surgery to implant cannulas to target the basolateral amygdala and the third ventricle for drug micro-infusion experiments.
• Analyzed gene expression related to endocannabinoid production in various regions of the brain and peripheral tissue using immunohistochemistry, quantitative reverse transcription-polymerase chain reaction (qRT-PCR).

• Investigated how the integrins are involved in the stabilization of long term potentiation.
• Used cre-loxP construct to knockout Integrin beta 1 in the CA1 of the hippocampus in mice and conducted electrophysiology experiments to induce long term potentiation (LTP) to hippocampal slices.
• Performed micro-infusion of adeno-associated virus to deliver cre to the hippocampus.

• Investigated the role of histone deacetylase complex 3 (HDAC3) in the regulation of gene expression after a contextual fear conditioning.
• Dissected out the dorsal hippocampus from mice after contextual fear conditioning (CoFC) and prepared for mRNA quantification analysis through qRT-PCR and chromatin immunoprecipitation (ChIP) to look at HDAC3 related.

• Investigated how changing levels of brain chemokines/cytokines affect the cognitive ability of rats
• Monitored the expression of immediate early genes (IEG) in the hippocampus of lipopolysaccharide (LPS) injected (subcutaneous) after a hippocampus dependent memory task using qRT-PCR and in-situ hybridization.

• Project 1:Investigated the top down control of inferior prefrontal gyrus (IFG) on fusiform face area during a facial recognition task on human subjects. Project 2:Investigated the role of ventrolateral prefrontal.
• Used transcranial magnetic stimulation (TMS) to create an artificial lesion to various brain regions in human subjects.
• Operated functional magnetic resonance imaging (fMRI) in conjunction with a facial recognition task or a memory task for data collection and analysis.
• Assisted in creating a statistical python script to analyze the temporal discrepancy of spin relaxation for a novel fMRI perfusion imaging technique called arteriole spin labeling.

• Processed and imaged samples for transmission electron microscopy.
• Proficiently operated the transmission electron microscope to analyze Ig-gold labeled toll-like receptor-9.

• Researched the effect of high pressure freezing on the ultrastructure of rat pancreatic tissue.
• Successfully operated the transmission electron microscope to visualize the pancreatic samples.
• Prepared high pressure frozen pancreas, embedding in resin, and ultra-sectioning the samples.
• Successfully operated the transmission electron microscope to visualize the prepared samples.

• Worked on an independent research project investigating sonic hedgehog (SHH) signaling in regards to the morphogen hypothesis on rat embryonic stem cells.
• Cultured mouse embryonic stem cells and used homologous recombination with electroporation to generate a cell line lacking the exostoses 1 gene.
• Successfully performed PCR and western blots.

• Worked on a project investigating the effect of growth factors on glioblastoma cells.
• Cultured human glioblastoma cells and applied different growth factors
• Performed immunofluorescence and confocal microscopy to check for neural progenitor markers such as nestin.

Doctor Of Philosophy (Ph.D.), Biomedical Sciences

Bachelor Of Arts (B.A.), Molecular And Cellular Biology