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2008

Mass spectrometry-based discovery of circadian peptides

Hatcher, N. G., Atkins, N., Annangudi, S. P., Forbes, A. J., Kelleher, N. L., Gillette, M. U. & Sweedler, J. V., Aug 26 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 34, p. 12527-12532 6 p.

Research output: Contribution to journalArticle

Suprachiasmatic Nucleus
Mass Spectrometry
Peptides
Circadian Clocks
Solid Phase Extraction

Metabolism of myristicin by Depressaria pastinacella CYP6AB3v2 and inhibition by its metabolite

Mao, W., Zangerl, A. R., Berenbaum, M. R. & Schuler, M. A., Jun 1 2008, In : Insect Biochemistry and Molecular Biology. 38, 6, p. 645-651 7 p.

Research output: Contribution to journalArticle

Depressaria pastinacella
Enzyme inhibition
Metabolites
Pastinaca
Metabolism
Sf9 Cells
Baculoviridae
Anchors
cytochrome P-450
Cytochrome P-450 Enzyme System

Neuropeptidomics of the supraoptic rat nucleus

Bora, A., Annangudi, S. P., Millet, L. J., Rubakhin, S., Forbes, A. J., Kelleher, N. L., Gillette, M. L. & Sweedler, J. V., Nov 1 2008, In : Journal of Proteome Research. 7, 11, p. 4992-5003 12 p.

Research output: Contribution to journalArticle

Supraoptic Nucleus
Rats
Peptides
Tandem Mass Spectrometry
Vasopressins

New 9- or 10-dentate luminescent lanthanide chelates

Ge, P. & Selvin, P. R., May 1 2008, In : Bioconjugate Chemistry. 19, 5, p. 1105-1111 7 p.

Research output: Contribution to journalArticle

Lanthanoid Series Elements
Rare earth elements
Ions
Molecules
Antennas

p23/Sba1p protects against Hsp90 inhibitors independently of its intrinsic chaperone activity

Forafonov, F., Toogun, O. A., Grad, I., Suslova, E., Freeman, B. C. & Picard, D., May 1 2008, In : Molecular and cellular biology. 28, 10, p. 3446-3456 11 p.

Research output: Contribution to journalArticle

Molecular Chaperones
Essential Genes
Eukaryota
Saccharomyces cerevisiae
Adenosine Triphosphatases

Phospholipase D1 is an effector of Rheb in the mTOR pathway

Sun, Y., Fang, Y., Yoon, M. S., Zhang, C., Roccio, M., Zwartkruis, F. J., Armstrong, M., Brown, H. A. & Chen, J., Jun 17 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 24, p. 8286-8291 6 p.

Research output: Contribution to journalArticle

Phospholipase D
Sirolimus
Phosphatidic Acids
AMP-Activated Protein Kinases
Monomeric GTP-Binding Proteins

PLD regulates myoblast differentiation through the mTOR-IGF2 pathway

Yoon, M. S. & Chen, J., Feb 1 2008, In : Journal of Cell Science. 121, 3, p. 282-289 8 p.

Research output: Contribution to journalArticle

Phospholipase D
Myoblasts
Sirolimus
Muscle Development
Skeletal Myoblasts

Preferential dimethylation of histone H4 lysine 20 by Suv4-20

Yang, H., Pesavento, J. J., Starnes, T. W., Cryderman, D. E., Wallrath, L. L., Kelleher, N. L. & Mizzen, C. A., May 2 2008, In : Journal of Biological Chemistry. 283, 18, p. 12085-12092 8 p.

Research output: Contribution to journalArticle

Histones
Lysine
Methylation
Drosophila
Heterochromatin

Psf2 plays important roles in normal eye development in Xenopus laevis

Walter, B. E., Perry, K. J., Fukui, L., Malloch, E. L., Wever, J. & Henry, J. J., May 19 2008, In : Molecular Vision. 14, p. 906-921 16 p.

Research output: Contribution to journalArticle

Xenopus laevis
Lenses
Morpholinos
Retina
Embryonic Structures

RACK1 regulates directional cell migration by acting on gβγ at the interface with its effectors PLCβ and PI3Kγ

Chen, S., Lin, F., Myung, E. S., Wang, F., Shen, L. & Hamm, H. E., Sep 1 2008, In : Molecular biology of the cell. 19, 9, p. 3909-3922 14 p.

Research output: Contribution to journalArticle

Phosphatidylinositol 3-Kinase
Type C Phospholipases
Cell Movement
Chemotactic Factors
Chemotaxis

Regulation of interleukin-6-induced hepatic insulin resistance by mammalian target of rapamycin through the STAT3-SOCS3 pathway

Kim, J. H., Jae, E. K., Liu, H. Y., Cao, W. & Chen, J., Jan 11 2008, In : Journal of Biological Chemistry. 283, 2, p. 708-715 8 p.

Research output: Contribution to journalArticle

Sirolimus
Insulin Resistance
Interleukin-6
Insulin
Ribosomal Protein S6 Kinases

S6K1 phosphorylates and regulates fragile X mental retardation protein (FMRP) with the neuronal protein synthesis-dependent mammalian target of rapamycin (mTOR) signaling cascade

Narayanan, U., Nalavadi, V., Nakamoto, M., Thomas, G., Ceman, S., Bassell, G. J. & Warren, S. T., Jul 4 2008, In : Journal of Biological Chemistry. 283, 27, p. 18478-18482 5 p.

Research output: Contribution to journalArticle

Fragile X Mental Retardation Protein
Sirolimus
Proteins
Protein Phosphatase 2
Phosphorylation

Self-Organized Podosomes Are Dynamic Mechanosensors

Collin, O., Na, S., Chowdhury, F., Hong, M., Shin, M. E., Wang, F. & Wang, N., Sep 9 2008, In : Current Biology. 18, 17, p. 1288-1294 7 p.

Research output: Contribution to journalArticle

traction (mechanics)
myosin
actin
Actins
Myosin Type II

The assembly of a spliceosomal small nuclear ribonucleoprotein particle

Patel, S. B. & Bellini, M., Nov 28 2008, In : Nucleic acids research. 36, 20, p. 6482-6493 12 p.

Research output: Contribution to journalArticle

Small Nuclear Ribonucleoproteins
U4-U6 Small Nuclear Ribonucleoproteins
U5 Small Nuclear Ribonucleoproteins
U2 Small Nuclear Ribonucleoproteins
U1 Small Nuclear Ribonucleoproteins

The DNA end-binding protein Ku regulates silencing at the internal HML and HMR loci in Saccharomyces cerevisiae

Vandre, C. L., Kamakaka, R. T. & Rivier, D. H., Nov 1 2008, In : Genetics. 180, 3, p. 1407-1418 12 p.

Research output: Contribution to journalArticle

Telomere
DNA-Binding Proteins
Saccharomyces cerevisiae
Yeasts
Heterochromatin

The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)

Ming, R., Hou, S., Feng, Y., Yu, Q., Dionne-Laporte, A., Saw, J. H., Senin, P., Wang, W., Ly, B. V., Lewis, K. L. T., Salzberg, S. L., Feng, L., Jones, M. R., Skelton, R. L., Murray, J. E., Chen, C., Qian, W., Shen, J., Du, P., Eustice, M. & 65 others, Tong, E., Tang, H., Lyons, E., Paull, R. E., Michael, T. P., Wall, K., Rice, D. W., Albert, H., Wang, M. L., Zhu, Y. J., Schatz, M., Nagarajan, N., Acob, R. A., Guan, P., Blas, A., Wai, C. M., Ackerman, C. M., Ren, Y., Liu, C., Wang, J., Wang, J., Na, J. K., Shakirov, E. V., Haas, B., Thimmapuram, J., Nelson, D., Wang, X., Bowers, J. E., Gschwend, A. R., Delcher, A. L., Singh, R., Suzuki, J. Y., Tripathi, S., Neupane, K., Wei, H., Irikura, B., Paidi, M., Jiang, N., Zhang, W., Presting, G., Windsor, A., Navajas-Pérez, R., Torres, M. J., Feltus, F. A., Porter, B., Li, Y., Burroughs, A. M., Luo, M. C., Liu, L., Christopher, D. A., Mount, S. M., Moore, P. H., Sugimura, T., Jiang, J., Schuler, M. A., Friedman, V., Mitchell-Olds, T., Shippen, D. E., Depamphilis, C. W., Palmer, J. D., Freeling, M., Paterson, A. H., Gonsalves, D., Wang, L. & Alam, M., Apr 24 2008, In : Nature. 452, 7190, p. 991-996 6 p.

Research output: Contribution to journalArticle

Carica
Fruit
Genome
Angiosperms
Genes

The facultative heterochromatin of the inactive X chromosome has a distinctive condensed ultrastructure

Rego, A., Sinclair, P. B., Tao, W., Kireev, I. & Belmont, A. S., Apr 1 2008, In : Journal of cell science. 121, 7, p. 1119-1127 9 p.

Research output: Contribution to journalArticle

Heterochromatin
X Chromosome
Nuclear Envelope
Sex Chromatin
Euchromatin

The Hsp90 molecular chaperone modulates multiple telomerase activities

Toogun, O. A., DeZwaan, D. C. & Freeman, B. C., Jan 1 2008, In : Molecular and cellular biology. 28, 1, p. 457-467 11 p.

Research output: Contribution to journalArticle

Molecular Chaperones
Telomerase
DNA
Nucleotides
Yeasts

The mitotic kinesin CENP-E is a processive transport motor

Yardimci, H., Van Duffelen, M., Mao, Y., Rosenfeld, S. S. & Selvin, P. R., Apr 22 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 16, p. 6016-6021 6 p.

Research output: Contribution to journalArticle

Kinesin
Chromosomes, Human, 16-18
Hand
Adenosine Triphosphate
Cytoplasmic Vesicles

The role of microtubule movement in bidirectional organelle transport

Kulić, I. M., Brown, A. E. X., Kim, H., Kural, C., Blehm, B., Selvin, P. R., Nelson, P. C. & Gelfand, V. I., Jul 22 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 29, p. 10011-10016 6 p.

Research output: Contribution to journalArticle

Microtubules
Organelles
Peroxisomes
Drosophila

Tissue-specific expression and post-translational modification of histone H3 variants

Garcia, B. A., Thomas, C. E., Kelleher, N. L. & Mizzen, C. A., Oct 1 2008, In : Journal of Proteome Research. 7, 10, p. 4225-4236 12 p.

Research output: Contribution to journalArticle

Post Translational Protein Processing
Histones
Tissue
Pulse time modulation
Liver

β-Catenin is required for the establishment of vegetal embryonic fates in the nemertean, Cerebratulus lacteus

Henry, J. J., Perry, K. J., Wever, J., Seaver, E. & Martindale, M. Q., May 1 2008, In : Developmental Biology. 317, 1, p. 368-379 12 p.

Research output: Contribution to journalArticle

Catenins
Endoderm
Asymmetric Cell Division
Wnt Signaling Pathway
Cnidaria
2007
NADPH-Ferrihemoprotein Reductase
Pheromones
Metabolism
Mixed Function Oxygenases
Cytochrome P-450 Enzyme System

Allelochemical induction of cytochrome P450 monooxygenases and amelioration of xenobiotic toxicity in Helicoverpa zea

Zeng, R. S., Wen, Z., Niu, G., Schuler, M. A. & Berenbaum, M. R., Mar 1 2007, In : Journal of Chemical Ecology. 33, 3, p. 449-461 13 p.

Research output: Contribution to journalArticle

methoxsalen
Aryl Hydrocarbon Hydroxylases
Methoxsalen
allelochemical
Helicoverpa zea

A Type III Secretion System in Vibrio cholerae Translocates a Formin/Spire Hybrid-like Actin Nucleator to Promote Intestinal Colonization

Tam, V. C., Serruto, D., Dziejman, M., Brieher, W. M. & Mekalanos, J. J., Apr 19 2007, In : Cell Host and Microbe. 1, 2, p. 95-107 13 p.

Research output: Contribution to journalArticle

Vibrio cholerae
Actins
Polymerization
Eukaryotic Cells
Virulence Factors

Bound attractant at the leading vs. the trailing edge determines chemotactic prowess

Herzmark, P., Campbell, K., Wang, F., Wong, K., El-Samad, H., Groisman, A. & Bourne, H. R., Aug 14 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 33, p. 13349-13354 6 p.

Research output: Contribution to journalArticle

methionyl-leucyl-phenylalanine
Lab-On-A-Chip Devices
HL-60 Cells
Chemotactic Factors
Chemotaxis

Characterization of neurohistone variants and post-translational modifications by electron capture dissociation mass spectrometry

Garcia, B. A., Siuti, N., Thomas, C. E., Mizzen, C. A. & Kelleher, N. L., Jan 1 2007, In : International Journal of Mass Spectrometry. 259, 1-3, p. 184-196 13 p.

Research output: Contribution to journalArticle

electron capture
Histones
Mass spectrometry
Brain
mass spectroscopy

Comparative analysis of chicken chromosome 28 provides new clues to the evolutionary fragility of gene-rich vertebrate regions

Gordon, L., Yang, S., Tran-Gyamfi, M., Baggott, D., Christensen, M., Hamilton, A., Crooijmans, R., Groenen, M., Lucas, S., Ovcharenko, I. & Stubbs, L. J., Nov 1 2007, In : Genome Research. 17, 11, p. 1603-1613 11 p.

Research output: Contribution to journalArticle

Vertebrates
Chickens
Chromosomes
CpG Islands
Genes
Papilio
Papilionidae
psoralens
Cytochromes
cytochromes

Determination of haplotypes from single DNA molecules: A method for single-molecule barcoding

Xiao, M., Gordon, M. P., Phong, A., Ha, C., Chan, T. F., Cai, D., Selvin, P. R. & Kwok, P. Y., Sep 1 2007, In : Human mutation. 28, 9, p. 913-921 9 p.

Research output: Contribution to journalArticle

Haplotypes
DNA
Medical Genetics
Diploidy
Fluorescent Dyes

Diversities and similarities in P450 systems: An introduction

Schuler, M. A. & Sligar, S., Dec 1 2007, In : Metal Ions in Life Sciences. 3, p. 1-26 26 p.

Research output: Contribution to journalArticle

Mixed Function Oxygenases
Metabolism
Detoxification
Mammals
Poisons

Extent of linkage disequilibrium in chicken

Aerts, J., Megens, H. J., Veenendaal, T., Ovcharenko, I., Crooijmans, R., Gordon, L., Stubbs, L. J. & Groenen, M., Jul 1 2007, In : Cytogenetic and Genome Research. 117, 1-4, p. 338-345 8 p.

Research output: Contribution to journalArticle

Linkage Disequilibrium
Chickens
Chromosomes, Human, Pair 10
Chromosomes
Quantitative Trait Loci

FMRP phosphorylation reveals an immediate-early signaling pathway triggered by group I mGluR and mediated by PP2A

Narayanan, U., Nalavadi, V., Nakamoto, M., Pallas, D. C., Ceman, S., Bassell, G. J. & Warren, S. T., Dec 26 2007, In : Journal of Neuroscience. 27, 52, p. 14349-14357 9 p.

Research output: Contribution to journalArticle

Fragile X Mental Retardation Protein
Protein Phosphatase 2
Metabotropic Glutamate Receptors
Phosphorylation
TOR Serine-Threonine Kinases

Genomic organization and imprinting of the Peg3 domain in bovine

Kim, J., Bergmann, A., Choo, J. H. & Stubbs, L., Jul 1 2007, In : Genomics. 90, 1, p. 85-92 8 p.

Research output: Contribution to journalArticle

Genomic Imprinting
Genes
Proteins
Brain
Names

Global assessment of combinatorial post-translational modification of core histones in yeast using contemporary mass spectrometry: LYS 4 trimethylation correlates with degree of acetylation on the same H3 tail

Jiang, L., Smith, J. N., Anderson, S. L., Ma, P., Mizzen, C. A. & Kelleher, N. L., Sep 21 2007, In : Journal of Biological Chemistry. 282, 38, p. 27923-27934 12 p.

Research output: Contribution to journalArticle

Acetylation
Post Translational Protein Processing
Histones
Yeast
Mass spectrometry

Helicoverpa zea CYP6B8 and CYP321A1: Different molecular solutions to the problem of metabolizing plant toxins and insecticides

Rupasinghe, S. G., Wen, Z., Chiu, T. L. & Schuler, M. A., Dec 1 2007, In : Protein Engineering, Design and Selection. 20, 12, p. 615-624 10 p.

Research output: Contribution to journalArticle

Insecticides
Mixed Function Oxygenases
Zea mays
Oxygen
Molecules

High-pressure treatment of polytene chromosomes improves structural resolution

Novikov, D. V., Kireev, I. & Belmont, A. S., Jun 1 2007, In : Nature Methods. 4, 6, p. 483-485 3 p.

Research output: Contribution to journalArticle

Polytene Chromosomes
Chromosomes
Cytology
Pressure
Cell Biology

High-resolution fate map of the snail Crepidula fornicata: The origins of ciliary bands, nervous system, and muscular elements

Hejnol, A., Martindale, M. Q. & Henry, J. J., May 1 2007, In : Developmental Biology. 305, 1, p. 63-76 14 p.

Research output: Contribution to journalArticle

Snails
Cell Lineage
Nervous System
Blastomeres
Gastropoda

High-yield expression and purification of isotopically labeled cytochrome P450 monooxygenases for solid-state NMR spectroscopy

Rupasinghe, S. G., Duan, H., Frericks Schmidt, H. L., Berthold, D. A., Rienstra, C. M. & Schuler, M. A., Dec 1 2007, In : Biochimica et Biophysica Acta - Biomembranes. 1768, 12, p. 3061-3070 10 p.

Research output: Contribution to journalArticle

Mixed Function Oxygenases
Cytochrome P-450 Enzyme System
Nuclear magnetic resonance spectroscopy
Purification
Magnetic Resonance Spectroscopy

Homology of ciliary bands in Spiralian Trochophores

Henry, J. J., Hejnol, A., Perry, K. J. & Martindale, M. Q., Dec 1 2007, In : Integrative and Comparative Biology. 47, 6, p. 865-871 7 p.

Research output: Contribution to journalArticle

larvae
phylogeny
Annelida
molluscs
locomotion

How myosin VI coordinates its heads during processive movement

Sweeney, H. L., Park, H., Zong, A. B., Yang, Z., Selvin, P. R. & Rosenfeld, S. S., Jun 6 2007, In : EMBO Journal. 26, 11, p. 2682-2692 11 p.

Research output: Contribution to journalArticle

Head
Adenosine Diphosphate
Actins
Myosin Type V
Kinesin

Isolation and identification of brain tumor stem cells from human brain neuroepithelial tumors

Fang, J. S., Deng, Y. W., Li, M. C., Chen, F. H., Wang, Y. J., Lu, M., Fang, F., Wu, J., Yang, Z. Y., Zhou, X. Y., Wang, F. & Chen, C., Jan 30 2007, In : National Medical Journal of China. 87, 5, p. 298-303 6 p.

Research output: Contribution to journalArticle

Neuroepithelial Neoplasms
Neoplastic Stem Cells
Brain Neoplasms
Nestin
Neoplasms

Microfluidic devices for culturing primary mammalian neurons at low densities

Millet, L. J., Stewart, M. E., Sweedler, J. V., Nuzzo, R. G. & Gillette, M. L., Jan 1 2007, In : Lab on a Chip. 7, 8, p. 987-994 8 p.

Research output: Contribution to journalArticle

Lab-On-A-Chip Devices
Polydimethylsiloxane
Microfluidics
Neurons
Biocompatibility

Microtubule binding by dynactin is required for microtubule organization but not cargo transport

Kim, H., Ling, S. C., Rogers, G. C., Kural, C., Selvin, P. R., Rogers, S. L. & Gelfand, V. I., Feb 26 2007, In : Journal of Cell Biology. 176, 5, p. 641-651 11 p.

Research output: Contribution to journalArticle

Microtubules
Dyneins
Cytoplasmic Dyneins
Microtubule-Organizing Center
Cytochalasin D

Mild performic acid oxidation enhances chromatographic and top down mass spectrometric analyses of histones

Pesavento, J. J., Garcia, B. A., Streeky, J. A., Kelleher, N. L. & Mizzen, C. A., Sep 1 2007, In : Molecular and Cellular Proteomics. 6, 9, p. 1510-1526 17 p.

Research output: Contribution to journalArticle

Histones
Oxidation
Post Translational Protein Processing
Electrospray ionization
Reverse-Phase Chromatography

Molecular definitions of fatty acid hydroxylases in Arabidopsis thaliana

Rupasinghe, S. G., Duan, H. & Schuler, M. A., Jul 1 2007, In : Proteins: Structure, Function and Genetics. 68, 1, p. 279-293 15 p.

Research output: Contribution to journalArticle

Mixed Function Oxygenases
Arabidopsis
Fatty Acids
lauric acid
Oleic Acid

Myrosinase in horseradish (Armoracia rusticana) root: Isolation of a full-length cDNA and its heterologous expression in Spodoptera frugiperda insect cells

Li, X., Wen, Z., Bohnert, H. J., Schuler, M. A. & Kushad, M. M., Jun 1 2007, In : Plant Science. 172, 6, p. 1095-1102 8 p.

Research output: Contribution to journalArticle

Armoracia
Armoracia rusticana
horseradish
thioglucosidase
Spodoptera

Pervasive combinatorial modification of histone H3 in human cells

Garcia, B. A., Pesavento, J. J., Mizzen, C. A. & Kelleher, N. L., Jun 1 2007, In : Nature Methods. 4, 6, p. 487-489 3 p.

Research output: Contribution to journalArticle

Histones
Cells
Histone Code
Butyrates
Tandem Mass Spectrometry

Rapid DNA mapping by fluorescent single molecule detection

Xiao, M., Phong, A., Ha, C., Chan, T. F., Cai, D., Leung, L., Wan, E., Kistler, A. L., DeRisi, J. L., Selvin, P. R. & Kwok, P. Y., Feb 1 2007, In : Nucleic acids research. 35, 3, e16.

Research output: Contribution to journalArticle

DNA
Endonucleases
Human Adenoviruses
Rhinovirus
DNA-Directed DNA Polymerase