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1. Systems Genetics of DNA Damage Tolerance – Cisplatin, RAD5 & CRISPR-mediated Nonsense

Bryant, Eric Edward
2019
Theses
GeneticsBioinformaticsBiology--ClassificationDNA damageCisplatinCRISPR (Genetics)

2. A Single-Cell Immune Map of Normal and Cancerous Breast Reveals an Expansion of Phenotypic States Driven by the Tumor Microenvironment

Carr, Ambrose James
2018
Theses
BioinformaticsOncologyComputer scienceImmunologyTumors

3. The generation and phenotypic effect of human genetic mutations

Chen, Chen
2018
Theses
BioinformaticsComputer scienceMutation (Biology)Human genetics--VariationMachine learning

4. Learning cell states from high-dimensional single-cell data

Levine, Jacob Harrison
2016
Theses
BioinformaticsCells--MeasurementMyeloid leukemiaCells--Computer programsBiologyOncology

5. Systems Biology Approaches to The Study of Neurological Disorders and Somatic Cell Reprogramming

Shin, William Kihoon
2016
Theses
Cell hybridizationCentral nervous system--DiseasesNervous system--DegenerationGenetic transcriptionBioinformaticsNeurosciencesBiology--Classification

6. Context Sensitive Modeling of Cancer Drug Sensitivity

Chen, Bo-Juen; Pe’er, Dana; Litvin, Oren; Ungar, Lyle
2015
Articles
Drugs--Dose-response relationshipDrug interactionsMelanoma--TreatmentCancer--Chemotherapy--Mathematical modelsCancer cells--Effect of drugs onOncologyBioinformatics

7. Global Survey of Cell Death Mechanisms Reveals Metabolic Regulation of GPX4-Dependent Ferroptosis

Shimada, Kencihi
2015
Theses
HomeostasisMetabolismBioinformaticsPharmacologyCell deathMolecular biology

8. Heterogeneity and Context-Specificity in Biological Systems

Litvin, Oren
2014
Theses
BiologyBioinformaticsGenetics—ResearchBacterial diversity--Genetic aspectsGenetics--Mathematical models

9. viSNE and Wanderlust, two algorithms for the visualization and analysis of high-dimensional single-cell data

Amir, El-ad David
2014
Theses
ImmunologyBioinformatics

10. Analyzing Genomic Studies and a Screen for Genes that Suppress Information Loss During DNA Damage Repair

Pierce, Steven
2013
Theses
BiologyCytologyBioinformatics

11. A Novel Platform to Perform Cancer-Relevant Synthetic Dosage Lethality Screens in Saccharomyces cerevisiae

Dittmar, John
2013
Theses
BioinformaticsBiologyGenetics

12. Dissecting genetic determinants of transcription factor activity

Lee, Eunjee
2013
Theses
BiologyBioinformatics

13. The COMBREX Project: Design, Methodology, and Initial Results

Anton, Brian P.; Chang, Yi-Chien; Brown, Peter; Choi, Han-Pil; Faller, Lina L.; Guleria, Jyotsna; Hu, Zhenjun; Klitgord, Niels; Levy-Moonshine, Ami; Maksad, Almaz; Mazumdar, Varun; McGettrick, Mark; Osmani, Lais; Pokrzywa, Revonda; Rachlin, John; Swaminathan, Rajeswari; Allen, Benjamin; Housman, Genevieve; Monahan, Caitlin; Rochussen, Krista; Tao, Kevin; Bhagwat, Ashok S.; Brenner, Steven E.; Columbus, Linda; de Crécy-Lagard, Valérie; Ferguson, Donald; Fomenkov, Alexey; Gadda, Giovanni; Morgan, Richard D.; Osterman, Andrei L.; Rodionov, Dmitry A.; Rodionova, Irina A.; Rudd, Kenneth E.; Söll, Dieter; Spain, James; Xu, Shuang-yong; Bateman, Alex; Blumenthal, Robert M.; Bollinger, J. Martin; Chang, Woo-Suk; Ferrer, Manuel; Friedberg, Iddo; Galperin, Michael Y.; Gobeill, Julien; Haft, Daniel; Hunt, John F.; Karp, Peter; Klimke, William; Krebs, Carsten; Macelis, Dana; Madupu, Ramana; Martin, Maria J.; Miller, Jeffrey H.; O'Donovan, Claire; Palsson, Bernhard; Ruch, Patrick; Setterdahl, Aaron; Sutton, Granger; Tate, John; Yakunin, Alexander; Tchigvintsev, Dmitri; Plata, German Alonso; Hu, Jie; Greiner, Russell; Horn, David; Sjölander, Kimmen; Salzberg, Steven L.; Vitkup, Dennis; Letovsky, Stanley; Segrè, Daniel; DeLisi, Charles; Roberts, Richard J.; Steffen, Martin; Kasif, Simon
2013
Articles
Nucleotide sequenceGenomics--Data processingMicrobial proteinsMolecular biologyMicrobiologyBioinformatics

14. JISTIC: Identification of Significant Targets in Cancer

Pe'er, Dana; Mozes, Eyal; Sanchez-Garcia, Felix; Akavia, Uri David
2010
Articles
OncologyBioinformatics

15. Correlating measurements across samples improves accuracy of large-scale expression profile experiments

Alvarez, Mariano; Sumazin, Pavel; Rajbhandari, Presha; Califano, Andrea
2009
Articles
GeneticsBioinformatics

16. Detecting transcriptionally active regions using genomic tiling arrays

Halasz, Gabor; van Batenburg, Marinus F.; Perusse, Joelle; Hua, Sujun; Lu, Xiang-Jun; White, Kevin P.; Bussemaker, Harmen J.
2006
Articles
Genetic transcriptionDNA probesGenomicsDNA microarraysGeneticsBioinformatics

17. Loss of LIN-35, the Caenorhabditis elegans ortholog of the tumor suppressor p105Rb, results in enhanced RNA interference

Lehner, Ben; Calixto, Andrea; Crombie, Catriona; Tischler, Julia; Fortunato, Angelo; Chalfie, Martin; Fraser, Andrew
2006
Articles
Caenorhabditis elegansGenomicsRNA intereferenceGeneticsBioinformaticsBiology

18. Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data

Gao, Feng; Foat, Barrett; Bussemaker, Harmen J.
2004
Articles
BioinformaticsGenetics
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