Publications -Department of Biological Sciences - Carnegie Mellon University

Publications

Selected publications from all members of the department.

* Faculty

† Graduate Student
‡ Undergraduate Student
§ Postdoctoral Fellow
¥ Research Scientist
€ Research Staff/Technician


2014 Publications

Van PT†, Bass V, Shiwarski D, Lanni F*, Minden J*. High dynamic range proteome imaging with the Structured Illumination Gel Imager. Electrophoresis. 2014 Jun 17.

Gallo E, Wienbar S, Snyder AC§, Vasilev KV, Armitage BA*, Jarvik JW*. A Single-Chain-Variable-Fragment Fluorescence Biosensor Activates Fluorogens from Dissimilar Chemical Families. Protein Pept Lett. 2014 Jun 16.

Shiwarski DJ, Shao C, Bill A, Kim J, Xiao D, Bertrand C, Seethala RR, Sano D, Myers JN, Ha PK, Grandis JR, Gaither LA, Puthenveedu MA*, Duvvuri U. To "Grow" or "Go": TMEM16A Expression as a Switch between Tumor Growth and Metastasis in SCCHN. Clin Cancer Res. 2014 Jun 11. pii: clincanres.0363.2014.

Gonzalez-Burgos G, Miyamae T, Pafundo DE§, Yoshino H, Rotaru DC, Hoftman G, Datta D, Zhang Y, Hammond M, Sampson AR, Fish KN, Bard Ermentrout G, Lewis DA. Functional Maturation of GABA Synapses During Postnatal Development of the Monkey Dorsolateral Prefrontal Cortex. Cereb Cortex. 2014 Jun 5. pii: bhu122.

Padmanabhan K§, Urban NN*. Disrupting information coding via block of 4-AP sensitive potassium channels. J Neurophysiol. 2014 Jun 3. pii: jn.00823.2013.

Czajkowski R, Jayaprakash B, Wiltgen B, Rogerson T, Guzman-Karlsson MC, Barth AL*, Trachtenberg JT, Silva AJ. Encoding and storage of spatial information in the retrosplenial cortex. Proc Natl Acad Sci U S A. 2014 May 27. pii: 201313222.

Fisher GW, Fuhrman MH*, Adler SA, Szent-Gyorgyi C, Waggoner AS*, Jarvik JW*. Self-Checking Cell-Based Assays for GPCR Desensitization and Resensitization. J Biomol Screen. 2014 May 12.

Veenendaal T, Jarvela T§, Grieve AG, van Es JH, Linstedt AD*, Rabouille C. GRASP65 controls the cis Golgi integrity in vivo. Biol Open. 2014 May 2;3(6):431-43.

Kadayakkara DK, Damodaran K, Hitchens TK¥, Bulte JW, Ahrens ET*. (19)F spin-lattice relaxation of perfluoropolyethers: Dependence on temperature and magnetic field strength (7.0-14.1T). J Magn Reson. 2014 May;242:18-22.

Murphy RF*. A new era in bioimage informatics. Bioinformatics. 2014 May 15;30(10):1353

Ettensohn CA*. Horizontal transfer of the msp130 gene supported the evolution of metazoan biomineralization. Evol Dev. 2014 May;16(3):139-48.

Kuhlman SJ*, O'Connor DH, Fox K, Svoboda K. Structural plasticity within the barrel cortex during initial phases of whisker-dependent learning. J Neurosci. 2014 Apr 23; 34(17):6078-83.

Talkish J, Campbell IW, Sahasranaman A, Jakovljevic J¥, Woolford JL Jr*. Ribosome assembly factors Pwp1 and Nop12 are important for folding of 5.8S rRNA during ribosome biogenesis in Saccharomyces cerevisiae. Mol Cell Biol. 2014 May;34(10):1863-77.

Burton SD, Urban NN*. Greater excitability and firing irregularity of tufted cells underlies distinct afferent-evoked activity of olfactory bulb mitral and tufted cells. J Physiol. 2014 May 15;592(Pt 10):2097-118.

Tripathy SJ, Savitskaya J, Burton SD, Urban NN*, Gerkin RC§. NeuroElectro: a window to the world's neuron electrophysiology data. Front Neuroinform. 2014 Apr 29;8:40.

Wahab AA, Taj-Aldeen SJ, Kolecka A, Elgindi M, Finkel JS*, Boekhout T. High prevalence of Candida dubliniensis in lower respiratory tract secretions from cystic fibrosis patients may be related to increased adherence properties. Int J Infect Dis. 2014 Apr 26. pii: S1201-9712(14)01473-8.

Yan Q, Schwartz SL, Maji S, Huang F, Szent-Gyorgyi C, Lidke DS, Lidke KA, Bruchez MP*. Localization microscopy using noncovalent fluorogen activation by genetically encoded fluorogen-activating proteins. Chemphyschem. 2014 Mar 17;15(4):687-95.

Willard AM, Brasier DJ*. Controversies in Neuroscience: A Literature-Based Course for First Year Undergraduates that Improves Scientific Confidence While Teaching Concepts. J Undergrad Neurosci Educ. 2014 Mar 15;12(2):A159-66.

Welch L, Lewitter F, Schwartz R*, Brooksbank C, Radivojac P, Gaeta B, Schneider MV. Bioinformatics curriculum guidelines: toward a definition of core competencies. PLoS Comput Biol. 2014 Mar 6;10(3):e1003496.

Hinman VF*, Cheatle Jarvela AM. Developmental gene regulatory network evolution: insights from comparative studies in echinoderms. Genesis. 2014 Mar;52(3):193-207.

Adomako-Ankomah A, Ettensohn CA*. Growth factors and early mesoderm morphogenesis: insights from the sea urchin embryo. Genesis. 2014 Mar;52(3):158-72.

Iheagwara UK, Beatty PL, Van PT, Ross TM, Minden JS*, Finn OJ. Influenza virus infection elicits protective antibodies and T cells specific for host cell antigens also expressed as tumor-associated antigens: a new view of cancer immunosurveillance. Cancer Immunol Res. 2014 Mar;2(3):263-73.

Gallo E, Jarvik J*. Fluorogen-Activating scFv Biosensors Target Surface Markers on Live Cells Via Streptavidin or Single-Chain Avidin. Mol Biotechnol. 2014 Feb 23.

McManus CJ*, May GE, Spealman P, Shteyman A. Ribosome profiling reveals post-transcriptional buffering of divergent gene expression in yeast. Genome Res. 2014 Mar;24(3):422-30.

Mastro KJ*, Bouchard RS, Holt HA, Gittis AH*. Transgenic mouse lines subdivide external segment of the globus pallidus (GPe) neurons and reveal distinct GPe output pathways. J Neurosci. 2014 Feb 5;34(6):2087-99.

Rafiq K, Shashikant T, McManus CJ*, Ettensohn CA*. Genome-wide analysis of the skeletogenic gene regulatory network of sea urchins. Development. 2014 Feb;141(4):950-61.

Jean-Alphonse F, Bowersox S, Chen S, Beard G, Puthenveedu MA*, Hanyaloglu AC. Spatially restricted G protein-coupled receptor activity via divergent endocytic compartments. J Biol Chem. 2014 Feb 14;289(7):3960-77

Lan L, Nakajima S, Wei L, Sun L, Hsieh CL, Sobol RW, Bruchez M*, Van Houten B, Yasui A, Levine AS. Novel method for site-specific induction of oxidative DNA damage reveals differences in recruitment of repair proteins to heterochromatin and euchromatin. Nucleic Acids Res. 2014 Feb;42(4):2330-45.

Yeh FC, Ye Q, Hitchens TK¥, Wu YL, Parwani AV, Ho C*. Mapping stain distribution in pathology slides using whole slide imaging. J Pathol Inform. 2014 Jan 31;5:1

Hitchens TK¥, Liu L, Foley LM, Simplaceanu V, Ahrens ET*, Ho C*. Combining perfluorocarbon and superparamagnetic iron-oxide cell labeling for improved and expanded applications of cellular MRI. Magn Reson Med. 2014 Jan 29.

Tan X, Dey SK, Telmer C¥, Zhang X, Armitage BA*, Bruchez MP*. Aptamers act as activators for the thrombin mediated-hydrolysis of peptide substrates. Chembiochem. 2014 Jan 24;15(2):205-8.

Gamalinda M, Ohmayer U, Jakovljevic J, Kumcuoglu B, Mbom B, Lin L, Woolford JL Jr*. A hierarchical model for assembly of eukaryotic 60S ribosomal subunit domains. Genes Dev. 2014 Jan 15;28(2):198-210.

Smith GR, Xie L, Lee B, Schwartz R*. Applying molecular crowding models to simulations of virus capsid assembly in vitro. Biophys J. 2014 Jan 7;106(1):310-20.

Komori H, Xiao Q, McCartney BM*, Lee CY. Brain tumor specifies intermediate progenitor cell identity by attenuating β-catenin/Armadillo activity. Development. 2014 Jan;141(1):51-62

Wu Y, Tapia PH, Jarvik J*, Waggoner AS*, Sklar LA. Real-time detection of protein trafficking with high-throughput flow cytometry (HTFC) and fluorogen-activating protein (FAP) base biosensor. Curr Protoc Cytom. 2014 Jan 2;67:Unit 9.43.

 

Past Publications

2013

2012

2011

2010

2009

2008

2007

2006

2005