1. A custom two-photon and second-harmonic microscope Nikolenko, Volodymyr; Nemet, Boaz; Yuste, Rafael 2002 Articles BiologyMedical sciencesGreen fluorescent proteinDiagnostic imaging
2. Conserved pathways within bacteria and yeast as revealed by global protein network alignment Kelly, Brian P.; Sharan, Roded; Karp, Richard; Sittler, Taylor; Root, David; Stockwell, Brent R.; Ideker, Trey 2003 Articles Saccharomyces cerevisiaeHelicobacter pyloriMolecular biologyProtein-protein interactionsBiology
3. Systematic discovery of multicomponent therapeutics Borisy, Alexis; Elliott, Peter; Hurst, Nicole; Lee, Margaret; Lehar, Joseph; Price, E. Roydon; Serbedzija, George; Zimmerman, Grant; Foley, Michael; Stockwell, Brent R.; Keith, Curtis 2003 Articles Bioactive compoundsMolecular biologyBiochemistryBiology
4. Effect of ethanol on innate antiviral pathways and HCV replication in human liver cells Plumlee, Courtney R.; Lazaro, Catherine; Fausto, Nelson; Polyak, Stephen 2005 Articles Hepatitis C virusCellular signal transductionAlcohol--Psychological aspectsHost-virus relationshipsCytologyBiologyVirology
5. Two-photon uncaging of neurochemicals using inorganic metal complexes Nikolenko, Volodymyr; Yuste, Rafael; Zayat, Leonardo; Baraldo, Luis M.; Etchenique, Roberto 2005 Articles BiologyMedicineNeurosciencesMedical sciences
6. 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
7. Dissecting complex transcriptional responses using pathway-level scores based on prior information Bussemaker, Harmen J.; Ward, Lucas; Boorsma, Andre 2007 Articles Messenger RNADNA microarraysBiologyGenetics
9. Photorelease of GABA with visible light using an inorganic caging group Rial Verde, Emiliano M.; Zayat, Leonardo; Etchenique, Roberto; Yuste, Rafael 2008 Articles BiologyMedicineNeurosciences
10. SLM microscopy: scanless two-photon imaging and photostimulation using spatial light modulators Nikolenko, Volodymyr; Watson, Brendon O.; Araya, Roberto; Woodruff, Alan; Peterka, Darcy; Yuste, Rafael 2008 Articles BiologyMedicineNeurosciences
11. Two-photon imaging with diffractive optical elements Watson, Brendon O.; Nikolenko, Volodymyr; Yuste, Rafael 2008 Articles BiologyMedicineMedical sciences
12. Depolarizing effect of neocortical chandelier neurons Woodruff, Alan; Xu, Qing; Anderson, Stewart A.; Yuste, Rafael 2009 Articles BiologyMedicineNeurosciences
13. Portable Scanless Microscope: Two- and One-photon Imaging and Photostimulation with Spatial Light Modulators Nikolenko, Volodymyr; Peterka, Darcy; Yuste, Rafael 2009 Presentations (Communicative Events) BiologyDiagnostic imaging
14. Spatial stimulation of the electrosensory system of mormyrid electric fish Roberts, Patrick; Leen, Todd; Sawtell, Nathaniel; Hunt, John F.; Case, Steven 2010 Articles MormyridaeSenses and sensationNeurosciencesBiology
15. Gates and Latches: the mechanochemistry of ATP binding in kinesin 1 and Eg5 Behnke-Parks, William M. 2011 Theses BiologyBiophysicsBiochemistryKinesinMechanical chemistryCell division
16. Investigating neurodegenerative diseases with small molecule modulators Letso, Reka Rebecca 2011 Theses BiologyChemistryNervous system--DegenerationCell deathMotor neurons--DiseasesSpinal muscular atrophy
17. Microtubules, Acetylation, and MEC-3 Regulated Genes in C. Elegans Mechanosensations Keller, Charles Clifford 2011 Theses BiologyNeurosciencesCaenorhabditis elegans--GeneticsMicrotubulesAcetylationTouchEukaryotic cellsGene expression
18. Negative regulation of gene expression by the tumor suppressor p53 Barsotti, Anthony M. 2011 Theses BiologyGene expressionAntioncogenesApoptosis
19. Regulation of alternative splicing and its connections to cancer Chen, Mo 2011 Theses BiologyMolecular biologyBiochemistryRNA splicingPyruvate kinaseCancer cellsExons (Genetics)Mammals--Genetics
20. Visualizing the One-Dimensional Diffusion of DNA Mismatch Repair Proteins at the Single-Molecule Level Gorman, Jason 2011 Theses BiologyBiochemistryBiophysicsDNA repairEukaryotic cells--Genetics
21. A yeast phenomic model for the gene interaction network modulating CFTR-ΔF508 protein biogenesis Louie, Raymond; Guo, Jingyu; Rodgers, John; White, Rick; Shah, Najaf; Pagant, Silvere; Kim, Peter; Livstone, Michael; Dolinski, Kara; McKinney, Brett; Hong, Jeong; Sorscher, Eric; Bryan, Jennifer; Miller, Elizabeth Ann; Hartman IV, John 2012 Articles Cystic fibrosisCystic fibrosis--Genetic aspectsProteins--SynthesisMembrane proteins--SynthesisMedical geneticsGeneticsBiology
22. Complex Regulation of Pax6 Neuronal Progenitors By Rb Family Members During Corticogenesis Naglieri, Benedetta 2012 Theses BiologyCerebral cortexTumor suppressor proteinsRetinoblastomaCarcinogenesis
23. Determining the Role of Trib3 in Neuronal Apoptosis Zareen, Neela 2012 Theses BiologyNeurosciences
24. Gain-of-Function Effects of Mutant p53 Explored Using a Three-Dimensional Culture Model of Breast Cancer Freed-Pastor, William Allen 2012 Theses Biology
25. Impact of adult hippocampal neurogenesis on behavior Denny, Christine 2012 Theses BiologyNeurosciencesPsychologyDevelopmental neurobiologyHippocampus (Brain)--Growth
26. Integrin-Linked Kinase, ECM Composition, and Substrate Rigidity Regulate Focal Adhesion - Actin Coupling, Modulating Survival, Proliferation and Migration: Towards a Biophysical Cancer Biomarker Chander, Ashok Coil 2012 Theses BiologyCytologyBiophysics
27. Mechanochemical Methods for Single Molecule Biochemistry and Studies of Thiol-Disulfide Exchange in Proteins Kosuri, Pallav 2012 Theses BiophysicsBiochemistryBiology
28. Modular assembly of yeast cytochrome oxidase McStay, Gavin Peter; Su, Chen-Hsien; Tzagoloff, Alexander A. 2012 Articles Molecular biologyBiologyEvolution (Biology)
29. Analyzing Genomic Studies and a Screen for Genes that Suppress Information Loss During DNA Damage Repair Pierce, Steven 2013 Theses BiologyCytologyBioinformatics
30. A Novel Platform to Perform Cancer-Relevant Synthetic Dosage Lethality Screens in Saccharomyces cerevisiae Dittmar, John 2013 Theses BioinformaticsBiologyGenetics
31. Control of Candida albicans Metabolism and Biofilm Formation by Pseudomonas aeruginosa Phenazines Morales, Diana K.; Grahl, Nora; Okegbe, Chinweike; Dietrich, Lars; Jacobs, Nicholas J.; Hogana, Deborah A. 2013 Articles BiologyBiochemistry
32. Designer Exons Inform a Biophysical Model for Exon Definition Arias, Mauricio A. 2013 Theses Exons (Genetics)Molecular biologyBiophysicsMessenger RNABiology
33. Dissecting genetic determinants of transcription factor activity Lee, Eunjee 2013 Theses BiologyBioinformatics
34. Elucidating the Biological Function of PWWP-Domain Containing Protein Complexes Reddy, Bharat 2013 Theses BiologyGeneticsMolecular biology
35. Environmental Stresses Disrupt Telomere Length Homeostasis Romano, Gal Hagit; Harari, Yaniv; Yehuda, Tal; Podhorzer, Ariel; Rubinstein, Linda; Shamir, Ron; Gottlieb, Assaf; Silberberg, Yael; Pe'er, Dana; Ruppin, Eytan; Sharan, Roded; Kupiec, Martin 2013 Articles HomeostasisTelomereStress (Physiology)GeneticsBiology--ClassificationBiology
36. HDAC6 activity is required for efficient polarization and intracellular transport of organelles in directionally migrating cells Salam, Ambar Asghar 2013 Theses Biology
37. Mechanical perturbation of filamin A immunoglobulin repeats 20-21 reveals potential non-equilibrium mechanochemical partner binding function Chen, Hu; Chandrasekar, Saranya; Sheetz, Michael P.; Stossel, Thomas P.; Nakamura, Fumihiko; Yan, Jie 2013 Articles Biology
38. Modulation of touch sensitivity in Caenorhabditis elegans Chen, Xiaoyin 2013 Theses NeurosciencesGeneticsBiology
39. Mutant p53 succumbs to starvation Moon, Sung-Hwan; Prives, Carol L. 2013 Articles BiologyCytologyOncology
40. Novel Regulatory Mechanisms of Cytoplasmic Dynein: A Role for the Complex Base Weil, Sarah J. 2013 Theses BiologyBiochemistry
41. Ribosomal Proteins RPL37, RPS15 and RPS20 Regulate the Mdm2-p53-MdmX Network Daftuar, Lilyn; Zhu, Yan; Jacq, Xavier; Prives, Carol L. 2013 Articles Small interfering RNANucleoproteinsGene expressionUbiquitinMolecular biologyBiology
43. Serum Regulation of Inhibitor of DNA Binding/Differentiation 1 Expression by a BMP Pathway and BMP Responsive El Lewis, Thera Cathy 2013 Theses BiologyMolecular biology
44. Spatial, temporal and mechanistic characterization of apoptotic death in the developing subventricular zone Marcolino, Bianca 2013 Theses CytologyCell deathDevelopmental neurobiologyApoptosisNeurosciencesBiology
45. Structural and Biochemical Characterizations of the Symplekin-Ssu72-CTD Complex in Pre-mRNA 3' end Processing Xiang, Kehui 2013 Theses BiochemistryGenetic transcriptionRNA polymerasesBiologyMolecular biology
46. Studies of SV40-transformation and the Loss of Growth Factor Requirements Powers, Robert Scott 2013 Theses Biology
47. An Aerobic Exercise: Defining the Roles of Pseudomonas aeruginosa Terminal Oxidases Jo, Jeanyoung; Price-Whelan, Alexa; Dietrich, Lars 2014 Articles BiochemistryBiologyMicrobiology
48. Broadening horizons: holistic viewpoints from the Biology of Genomes Carr, Ambrose James; Pe'er, Dana 2014 Articles Medical transcriptionMutation (Biology)GenomicsBiologyBiomechanics
49. Elucidating the roles of PARP1 and RBBP6 in the regulation of pre-mRNA 3' end processing Campigli Di Giammartino, Dafne 2014 Theses Biology
50. Gene regulatory factors that control the identities of specific neuron types in Caenorhabditis elegans Zhang, Feifan 2014 Theses GeneticsBiology
51. Heterogeneity and Context-Specificity in Biological Systems Litvin, Oren 2014 Theses BiologyBioinformaticsGenetics—ResearchBacterial diversity--Genetic aspectsGenetics--Mathematical models
52. Mid-channel proteolysis of the L-type voltage gated calcium channel and the potential role of amyloid-β precursor protein Henckels, Kathryn 2014 Theses BiologyNeurosciences
53. Molecular Basis for the Recognition of the Regulatory Stem-loop Structures in Eukaryotic Messenger RNAs Tan, Dazhi 2014 Theses Messenger RNARNA-protein interactionsEukaryotic cellsBiologyBiochemistryMolecular biology
55. Structure Characterization of the 70S-BipA Complex Using Novel Methods of Single-Particle Cryo-Electron Microscopy Ho, Danny Nam 2014 Theses Bacterial proteinsElectron microscopyAntibacterial agentsCryoelectronicsBiologyBiophysics
56. The Proper Splicing of RNAi Factors Is Critical for Pericentric Heterochromatin Assembly in Fission Yeast Kallgren, Scott P.; Andrews, Stuart J.; Tadeo, Xavier; Hou, Haitong; Moresco, James J.; Tu, Patricia G.; Yates III, John R.; Nagy, Peter L.; Jia, Songtao 2014 Articles RNA intereferenceHeterochromatinRNA splicingGeneticsBiologyMolecular biology
57. Cryo-EM and time-resolved cryo-EM studies on translation Chen, Bo 2015 Theses RibosomesProteins--SynthesisGenetic translationElectron microscopyBiophysicsBiology
58. Deciphering End Resection in Double-Strand Break repair in Saccharomyces cerevisiae Chen, Huan 2015 Theses Saccharomyces cerevisiaeDNA repairDNA damageBiologyMolecular biologyGenetics
59. Identification and Biophysical Characterization of Small Molecules Modulating Protein Disulfide Isomerase in Neurodegenerative Diseases Kaplan, Anna 2015 Theses Nervous system--DegenerationNeuroprotective agentsProtein disulfide isomeraseBiophysicsBiochemistryBiology
60. Regulatory Logic of Pan-neuronal Gene Expression in Caenorhabditis elegans Stefanakis, Nikolaos 2015 Theses BiologyGenetics
61. Structural Studies of the Fungal pre-mRNA 3'-end Processing Machinery Jurado, Ashley Rae 2015 Theses ProteinsRNA splicingScission (Chemistry)Messenger RNAMolecular biologyBiologyBiochemistry
62. The Regulation of PREX2 by Phosphorylation Barrows, Douglas Walker 2015 Theses PhosphorylationInsulin--Mechanism of actionPhosphoinositidesBiologyBiochemistryPharmacology
63. A Genomic Map of the Effects of Linked Selection in Drosophila Elyashiv, Eyal; Sattath, Shmuel; Hu, Tina T.; Strutsovsky, Alon; McVicker, Graham; Andolfatto, Peter; Coop, Graham; Sella, Guy 2016 Articles Evolutionary geneticsBiodiversityNatural selection--Mathematical modelsGeneticsBiology
64. Connecting Cellular Redox State and Community Behavior in Pseudomonas aeruginosa PA14 Okegbe, Chinweike 2016 Theses MorphologyOxidation-reduction reactionBiofilmsBiology
65. Cryo-electron microscopy studies of dynamical features of ribosomes during the translation process Sun, Ming 2016 Theses BiophysicsProteins--StructureRibosomes--StructureRibosomesCryoelectronicsBiologyBiochemistry
66. Crystal Structure of the SPOC Domain of the Arabidopsis Flowering Regulator FPA Zhang, Yinglu; Rataj, Katarzyna; Simpson, Gordon G.; Tong, Liang 2016 Articles Crystals--StructureProteins--StructurePlants, Flowering of--Flowering timeBiology
67. Developing New Strategies for Engineering Novel Natural Product Metabolic Pathways Patenode, Caroline Anne 2016 Theses BiocatalysisNatural products--SynthesisBiologyMicrobiologyChemistry
68. Human Germline Mutation and the Erratic Evolutionary Clock Moorjani, Priya Gian; Gao, Ziyue; Przeworski, Molly F. 2016 Articles Mutation (Biology)Evolution (Biology)Germ cellsBiology
69. Interpreting the Dependence of Mutation Rates on Age and Time Gao, Ziyue; Wyman, Minyoung J.; Sella, Guy; Przeworski, Molly F. 2016 Articles DNA replicationCell divisionCells--Growth--Mathematical modelsDNA repairMutation (Biology)GeneticsBiologyCytology
70. Learning cell states from high-dimensional single-cell data Levine, Jacob Harrison 2016 Theses BioinformaticsCells--MeasurementMyeloid leukemiaCells--Computer programsBiologyOncology
71. Physiology of Pseudomonas Aeruginosa Phenazine Production and Transport Sakhtah, Hassan 2016 Theses PhenazineMetabolitesBiofilmsPseudomonas aeruginosaBiology
72. The Multilayer Connectome of Caenorhabditis elegans Bentley, Barry; Branicky, Robyn; Barnes, Christopher L.; Chew, Yee Lian; Yemini, Eviatar; Bullmore, Edward T.; Vértes, Petra E.; Schafer, William R. 2016 Articles NeuronsNeural networks (Neurobiology)Caenorhabditis elegansNeuropeptidesSynapsesBrain mappingNeurosciencesBiology
73. An orphan cbb3-type cytochrome oxidase subunit supports Pseudomonas aeruginosa biofilm growth and virulence Jo, Jeanyoung; Cortez, Krista Lynn; Cornell, William-Cole; Price-Whelan, Alexa M.; Dietrich, Lars 2017 Articles BiofilmsPathogenic bacteriaPseudomonas aeruginosaCytochrome oxidaseBiology
74. Attenuation of Synaptic Potentials in Dendritic Spines Kwon, Taekyung; Sakamoto, Masayuki; Peterka, Darcy; Yuste, Rafael 2017 Articles DendritesBiophysicsNeuronsBiology
75. Bacterial tail anchors can target to the mitochondrial outer membrane Lutfullahoğlu-Bal, Güleycan; Keskin, Abdurrahman; Seferoğlu, Ayşe B.; Dunn, Cory D. 2017 Articles BiologyBacterial proteinsEndosymbiosisMitochondrial membranesEukaryotic cellsCell organelles--Formation
76. Cryo-electron microscopy and single particle reconstructions of the Leishmania major ribosome and of the encephalomyocarditis virus internal ribosome entry site bound to the 40S subunit Jobe, Amy Beth 2017 Theses Electron microscopyRibosomesLeishmaniaRNACryoelectronicsBiologyBiochemistryBiophysics
77. Overproduction of Neurons Is Correlated with Enhanced Cortical Ensembles and Increased Perceptual Discrimination Fang, Weiqun; Yuste, Rafael 2017 Articles NeuronsVisual perceptionVisual cortexDevelopmental neurobiologyBiology
78. Regulation of Proviral Expression and Post-Translational Modifications in Embryonic Cells Lee, Andreia H. 2017 Theses BiologyVirologyCytologyGenetic regulation
79. Reliable and Elastic Propagation of Cortical Seizures In Vivo Wenzel, Michael; Hamm, Jordan P.; Peterka, Darcy; Yuste, Rafael 2017 Articles SpasmsEpilepsyNeural circuitryBiologyPicrotoxin
80. Structural and Functional Studies of TRPML1 and TRPP2 Benvin, Nicole Marie 2017 Theses BiologyBiochemistryBiophysicsTRP channelsProteins--Structure
81. Study of Short Forms of P/Q-Type Voltage-Gated Calcium Channels Feng, Qiao 2017 Theses Central nervous systemNeurotransmittersBrain--DiseasesCalcium channelsBiology
82. The Development of an Inducible Akt as a Potential Gene Therapy for Parkinson’s Disease Park, Soyeon 2017 Theses BiologyNeurosciencesParkinson's diseaseGene therapyProtein kinases
83. The N-terminal domains of FLASH and Lsm11 form a 2:1 heterotrimer for histone pre-mRNA 3’-end processing Aik, Wei Shen; Lin, Min-Han; Tan, Dazhi; Tripathy, Ashutosh; Marzluff, William F.; Dominski, Zbigniew; Chou, Chi-Yuan; Tong, Liang 2017 Articles Crosslinking (Polymerization)DimersCrystals--StructureBiology
84. The population genetics of human disease: The case of recessive, lethal mutations Amorim, Carlos Eduardo G.; Gao, Ziyue; Baker, Zachary; Diesel, Jose Francisco; Simons, Yuval Benjamin; Haque, Imran S.; Pickrell, Joseph K.; Przeworski, Molly F. 2017 Articles Population geneticsBiologyMutation (Biology)Medical genetics
85. The roles of Threonine-4 and Tyrosine-1 of the RNA Polymerase II C-Terminal Domain: New insights into transcription from Saccharomyces cerevisiae Yurko, Nathan Michael 2017 Theses BiologyRNA polymerasesGenetic transcriptionSaccharomyces cerevisiae
86. Unraveling the link between the Mdm2-p53 axis and aging Wu, Danyi 2017 Theses BiologyMolecular biologyAgingp53 protein
87. Using Genomic Transgenes and the CRISPR/Cas9 Gene Editing System to Understand How Hedgehog Signaling Regulates Costal2 and Cubitus Interruptus in Drosophila melanogaster Little, Jamie 2017 Theses BiologyHedgehog proteinsMolecular biologyGenes
88. Watching the Replisome: Single-molecule Studies of Eukaryotic DNA Replication Duzdevich, Daniel 2017 Theses DNA replicationMolecular biologyCytologyEukaryotic cells--GeneticsBiologyBiophysics
89. Allosteric Coupling, Nucleotide Binding and ATP Hydrolysis by Hsp70 Chaperones on a Structural Basis Wang, Wei 2018 Theses BiologyBiochemistryBiophysicsAllosteric regulationHeat shock proteins
90. An atlas of Caenorhabditis elegans chemoreceptor expression Iglesias, Berta Vidal; Aghayeva, Ulkar; Sun, Haosheng; Wang, Chen; Glenwinkel, Lori Ann; Bayer, Emily Ann; Hobert, Oliver 2018 Articles Caenorhabditis elegansChemoreceptorsNeurosciencesBiology
91. A population genetic interpretation of GWAS findings for human quantitative traits Simons, Yuval Benjamin; Bullaughey, Kevin; Hudson, Richard R.; Sella, Guy 2018 Articles GeneticsPhenotypeBiologyHuman genome
92. cis-regulatory architecture of a short-range EGFR organizing center in the Drosophila melanogaster leg Newcomb, Susan Elizabeth; Voutev, Roumen; Jory, Aurelie E.; Delker, Rebecca; Slattery, Matthew; Mann, Richard S. 2018 Articles Drosophila melanogaster--GeneticsGrowth factors--ReceptorsCloningBiologyGene expression
93. Comprehensive machine learning analysis of Hydra behavior reveals a stable basal behavioral repertoire Han, Shuting; Taralova, Ekaterina; Dupre, Christophe; Yuste, Rafael 2018 Articles NeurosciencesMachine learningAnimal behaviorBehavioral assessmentBiology
94. Context-dependent expression of a conditionally-inducible form of active Akt Park, Soyeon; Burke, Robert E.; Kareva, Tatyana; Kholodilov, Nikolai; Aime, Pascaline; Franke, Thomas F.; Levy, Oren Abraham; Greene, Lloyd A. 2018 Articles Protein kinasesDopaminergic neuronsNeurosciencesBiology
95. Functional odor classification through a medicinal chemistry approach Poivet, Erwan E.; Tahirova, Narmin Tahir; Peterlin, Zita; Xu, Lu; Zou, Dong-Jing; Acree, Terry; Firestein, Stuart J. 2018 Articles BiochemistryPharmaceutical chemistryOdorsBiology
96. Hydra Behavior Dataset Han, Shuting 2018 Data (Information) HydraAnimal behaviorAnimals--FoodBiology
97. Investigating The Role Of Signaling Pathways In Adult Stem Cells Governed By Population Asymmetry Melamed, David Eric 2018 Theses BiologyCellular signal transductionAdult stem cells
98. Light sheet theta microscopy for rapid high-resolution imaging of large biological samples Migliori, Bianca; Datta, Malika S.; Dupre, Christophe; Apak, Mehmet C.; Asano, Shoh; Gao, Ruixuan; Boyden, Edward S.; Hermanson, Ola; Yuste, Rafael; Tomer, Raju 2018 Articles BiologyMicroscopyBrain--ImagingHigh resolution imagingNeurosciences
99. Markers and Mechanisms of β-cell Dedifferentiation Fan, Jason Chen 2018 Theses MedicineBiologyCytologyPancreatic beta cells
100. Metabolic Strategies to Cope with Overcrowding in a Pseudomonas aeruginosa Biofilm Jo, Jeanyoung 2018 Theses BiologyMicrobiologyPseudomonas aeruginosaBiofilmsMicrobial respiration