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1. Engineered bacteria for the modulation of intestinal physiology, inflammation, and behavior along the microbiome-gut-brain axis

Cusimano, Frank Anthony
2019
Theses
NutritionSystems biologyPsychobiologyHost-bacteria relationshipsGastrointestinal system--MicrobiologyMicrobiological synthesis

2. Exploring Thymineless Death Using Systems Biology and Laboratory Evolution

Ketcham, Alexandra
2019
Theses
MicrobiologyBiology--ClassificationSystems biologyThymidineCell death

3. Meta-analysis of expression and methylation signatures indicates a stress-related epigenetic mechanism in multiple neuropsychiatric disorders

Zhu, Kaiyi; Ou Yang, Tai-Hsien; Dorie, Vincent Joseph; Zheng, Tian; Anastassiou, Dimitris
2019
Articles
Neurobehavioral disordersPathologyEpigeneticsMethylationStress (Psychology)--Physiological aspectsSystems biology

4. Automated analysis of long-term grooming behavior in Drosophila using a k-nearest neighbors classifier

Qiao, Bing; Li, Chiyuan; Allen, Victoria Wing; Shirasu-Hiza, Mimi M.; Syed, Sheyum
2018
Articles
DrosophilaNeurosciencesSystems biologyCircadian rhythmsGrooming behavior in animals

5. Graph complexity analysis identifies an ETV5 tumor-specific network in human and murine low-grade glioma

Pan, Yuan; Duron, Christina; Bush, Erin C.; Ma, Yu; Sims, Peter A.; Gutmann, David H.; Radunskaya, Ami; Hardin, Johanna
2018
Articles
GliomasGene regulatory networksGene expressionSystem analysisSystems biologyMathematics

6. Stochastic tuning of gene expression enables cellular adaptation in the absence of pre-existing regulatory circuitry

Freddolino, Peter L.; Yang, Jamie Siyu; Momen-Roknabadi, Amir; Tavazoie, Saeed
2018
Articles
Gene regulatory networksSystems biologyGene expressionStochastic processesEpigenetics

7. Systematic prediction of DNA shape changes due to CpG methylation explains epigenetic effects on protein–DNA binding

Rao, Satyanarayan; Chiu, Tsu-Pei; Kribelbauer, Judith F.; Mann, Richard S.; Bussemaker, Harmen J.; Rohs, Remo
2018
Articles
DNA--MethylationEpigeneticsDNA-binding proteinsSystems biology

8. Systematic reconstruction of autism biology from massive genetic mutation profiles

Luo, Weijun; Zhang, Chaolin; Jiang, Yong-hui; Brouwer, Cory R.
2018
Articles
Mutation (Biology)Developmental geneticsAutism--ResearchAutism spectrum disorders--Genetic aspectsSystems biology

9. Understand Biology Using Single Cell RNA-Sequencing

Ding, Hongxu
2018
Theses
BiologyNucleotide sequenceSystems biology

10. Accelerated parallel algorithm for gene network reverse engineering

He, Jing; Zhou, Zhou; Reed, Michael K.; Califano, Andrea
2017
Articles
Parallel programming (Computer science)Gene regulatory networksGene expression--Data processingSystems biology