Biochemistry & Molecular Biology

  • United States

Research Output 1961 2020

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Review article
2006
85 Citations (Scopus)

Single-molecule analysis of RNA polymerase transcription

Bai, L., Santangelo, T. J. & Wang, M. D., Jun 19 2006, In : Annual Review of Biophysics and Biomolecular Structure. 35, p. 343-360 18 p.

Research output: Contribution to journalReview article

DNA-Directed RNA Polymerases
Transcription
RNA
Optical Tweezers
Molecules
730 Citations (Scopus)

Solid supported lipid bilayers: From biophysical studies to sensor design

Castellana, E. T. & Cremer, P. S., Nov 15 2006, In : Surface Science Reports. 61, 10, p. 429-444 16 p.

Research output: Contribution to journalReview article

Lipid bilayers
lipids
sensors
Sensors
Microfluidics
101 Citations (Scopus)

Stalking intermediates in oxygen activation by iron enzymes: Motivation and method

Bollinger, J. M. & Krebs, C., Apr 1 2006, In : Journal of Inorganic Biochemistry. 100, 4, p. 586-605 20 p.

Research output: Contribution to journalReview article

Stalking
Enzyme Activation
Motivation
Iron
Chemical activation
174 Citations (Scopus)

Template-grown metal nanowires

Kline, T. R., Tian, M., Wang, J., Sen, A., Chan, M. W. H. & Mallouk, T. E., Sep 18 2006, In : Inorganic chemistry. 45, 19, p. 7555-7565 11 p.

Research output: Contribution to journalReview article

Nanowires
nanowires
templates
Metals
metals
7 Citations (Scopus)

What determines the spectrum of protein native state structures?

Lezon, T. R., Banavar, J. E., Lesk, A. & Maritan, A., May 1 2006, In : Proteins: Structure, Function and Genetics. 63, 2, p. 273-277 5 p.

Research output: Contribution to journalReview article

Proteins
Geometry
2007
6 Citations (Scopus)

A model for the origin of protein synthesis as coreplicational scanning of nascent RNA

Yakhnin, A. V., Dec 1 2007, In : Origins of Life and Evolution of Biospheres. 37, 6, p. 523-536 14 p.

Research output: Contribution to journalReview article

ribonucleic acids
protein synthesis
translation (genetics)
peptides
RNA
160 Citations (Scopus)

Chlorophyll biosynthesis in bacteria: The origins of structural and functional diversity

Chew, A. G. M. & Bryant, D. A., Nov 14 2007, In : Annual Review of Microbiology. 61, p. 113-129 17 p.

Research output: Contribution to journalReview article

Chlorophyll
Bacteriochlorophylls
Carotenoids
Bacteria
Light
561 Citations (Scopus)

Colicin biology

Cascales, E., Buchanan, S. K., Duché, D., Kleanthous, C., Lloubès, R., Postle, K., Riley, M., Slatin, S. & Cavard, D., Mar 1 2007, In : Microbiology and Molecular Biology Reviews. 71, 1, p. 158-229 72 p.

Research output: Contribution to journalReview article

Colicins
Immunity
Escherichia coli
Periplasm
Proteins
24 Citations (Scopus)

Computational protein design promises to revolutionize protein engineering

Alvizo, O., Allen, B. D. & Mayo, S. L., Jan 1 2007, In : BioTechniques. 42, 1, p. 31-39 9 p.

Research output: Contribution to journalReview article

Protein Engineering
Proteins
Protein Array Analysis
Peptides
Earth (planet)
282 Citations (Scopus)

CsrB sRNA family: sequestration of RNA-binding regulatory proteins

Babitzke, P. & Romeo, T., Apr 1 2007, In : Current Opinion in Microbiology. 10, 2, p. 156-163 8 p.

Research output: Contribution to journalReview article

Untranslated RNA
RNA-Binding Proteins
Carbon
Carbon Cycle
Quorum Sensing
189 Citations (Scopus)

DNA Commission of the International Society for Forensic Genetics (ISFG): Recommendations regarding the role of forensic genetics for disaster victim identification (DVI)

Prinz, M., Carracedo, A., Mayr, W. R., Morling, N., Parsons, T. J., Sajantila, A., Scheithauer, R., Schmitter, H. & Schneider, P. M., Mar 1 2007, In : Forensic Science International: Genetics. 1, 1, p. 3-12 10 p.

Research output: Contribution to journalReview article

Disaster Victims
Forensic Genetics
DNA
Azores
Tsunamis
108 Citations (Scopus)

Enzymatic C-H activation by metal-superoxo intermediates

Bollinger, Jr., J. M. & Krebs, C., Apr 1 2007, In : Current Opinion in Chemical Biology. 11, 2, p. 151-158 8 p.

Research output: Contribution to journalReview article

Metalloids
Metals
Chemical activation
Arsenals
Oxidation
853 Citations (Scopus)

Evolutionary and biomedical insights from the rhesus macaque genome

Gibbs, R. A., Rogers, J., Katze, M. G., Bumgarner, R., Weinstock, G. M., Mardis, E. R., Remington, K. A., Strausberg, R. L., Venter, J. C., Wilson, R. K., Batzer, M. A., Bustamante, C. D., Eichler, E. E., Hahn, M. W., Hardison, R. C., Makova, K. D., Miller, W., Milosavljevic, A., Palermo, R. E., Siepel, A. & 156 others, Sikela, J. M., Attaway, T., Bell, S., Bernard, K. E., Buhay, C. J., Chandrabose, M. N., Dao, M., Davis, C., Delehaunty, K. D., Ding, Y., Dinh, H. H., Dugan-Rocha, S., Fulton, L. A., Gabisi, R. A., Garner, T. T., Godfrey, J., Hawes, A. C., Hernandez, J., Hines, S., Holder, M., Hume, J., Jhangiani, S. N., Joshi, V., Khan, Z. M., Kirkness, E. F., Cree, A., Fowler, R. G., Lee, S., Lewis, L. R., Li, Z., Liu, Y. S., Moore, S. M., Muzny, D., Nazareth, L. V., Dinh, N. N., Okwuonu, G. O., Pai, G., Parker, D., Paul, H. A., Pfannkoch, C., Pohl, C. S., Rogers, Y. H., Ruiz, S. J., Sabo, A., Santibanez, J., Schneider, B. W., Smith, S. M., Sodergren, E., Svatek, A. F., Utterback, T. R., Vattathil, S., Warren, W., White, C. S., Chinwalla, A. T., Feng, Y., Halpern, A. L., Hillier, L. D. W., Huang, X., Minx, P., Nelson, J. O., Pepin, K. H., Qin, X., Sutton, G. G., Venter, E., Walenz, B. P., Wallis, J. W., Worley, K. C., Yang, S. P., Jones, S. M., Marra, M. A., Rocchi, M., Schein, J. E., Baertsch, R., Clarke, L., Csürös, M., Glasscock, J., Harris, R. A., Havlak, P., Jackson, A. R., Jiang, H., Liu, Y., Messina, D. N., Shen, Y., Song, H. X. Z., Wylie, T., Zhang, L., Birney, E., Han, K., Konkel, M. K., Lee, J., Smit, A. F. A., Ullmer, B., Wang, H., Xing, J., Burhans, R., Cheng, Z., Karro, J. E., Ma, J., Raney, B., She, X., Cox, M. J., Demuth, J. P., Dumas, L. J., Han, S. G., Hopkins, J., Karimpour-Fard, A., Kim, Y. H., Pollack, J. R., Vinar, T., Addo-Quaye, C., Degenhardt, J., Denby, A., Hubisz, M. J., Indap, A., Kosiol, C., Lahn, B. T., Lawson, H. A., Marklein, A., Nielsen, R., Vallender, E. J., Clark, A. G., Ferguson, B., Hernandez, R. D., Hirani, K., Kehrer-Sawatzki, H., Kolb, J., Patil, S., Pu, L. L., Ren, Y., Smith, D. G., Wheeler, D. A., Schenck, I., Ball, E. V., Chen, R., Cooper, D. N., Giardine, B., Hsu, F., Kent, W. J., Lesk, A., Nelson, D. L., O'Brien, W. E., Prüfer, K., Stenson, P. D., Wallace, J. C., Ke, H., Liu, X. M., Wang, P., Xiang, A. P., Yang, F., Barber, G. P., Haussler, D., Karolchik, D., Kern, A. D., Kuhn, R. M., Smith, K. E. & Zwieg, A. S., Apr 13 2007, In : Science. 316, 5822, p. 222-234 13 p.

Research output: Contribution to journalReview article

Macaca mulatta
Genome
Primates
Biomedical Research
Pan troglodytes
51 Citations (Scopus)

Heliobacterial photosynthesis

Heinnickel, M. & Golbeck, J. H., Apr 1 2007, In : Photosynthesis research. 92, 1, p. 35-53 19 p.

Research output: Contribution to journalReview article

Photosynthesis
Genetic Recombination
polypeptides
Iron
photosynthesis
11 Citations (Scopus)

Human genomic association studies: A primer for the infectious diseases specialist

Motsinger, A. A., Haas, D. W., Hulgan, T. & Ritchie, M. D., Jun 15 2007, In : Journal of Infectious Diseases. 195, 12, p. 1737-1744 8 p.

Research output: Contribution to journalReview article

Communicable Diseases
Publications
Information Services
Genomics
Research
112 Citations (Scopus)

Inhibition of the archaeal β-class (Cab) and γ-class (Cam) carbonic anhydrases

Zimmerman, S. A., Ferry, J. G. & Supuran, C. T., May 1 2007, In : Current Topics in Medicinal Chemistry. 7, 9, p. 901-908 8 p.

Research output: Contribution to journalReview article

Carbonic Anhydrases
Cams
Carbonic Anhydrase Inhibitors
Sulfonamides
Anions
1 Citation (Scopus)

Insight into the functional versatility of RNA through model-making with applications to data fitting

Bevilacqua, P. C., Cerrone-Szakal, A. L. & Siegfried, N. A., Feb 1 2007, In : Quarterly Reviews of Biophysics. 40, 1, p. 55-85 31 p.

Research output: Contribution to journalReview article

RNA
Biopolymers
Riboswitch
Ligands
Catalytic RNA
49 Citations (Scopus)

Novel methods for detecting epistasis in pharmacogenomics studies

Motsinger, A. A., Ritchie, M. D. & Reif, D. M., Sep 1 2007, In : Pharmacogenomics. 8, 9, p. 1229-1241 13 p.

Research output: Contribution to journalReview article

Genes
Research Personnel
Gene-Environment Interaction
Data Mining
Molecular Epidemiology
38 Citations (Scopus)

Physiology of tmRNA: what gets tagged and why?

Keiler, K. C., Apr 1 2007, In : Current Opinion in Microbiology. 10, 2, p. 169-175 7 p.

Research output: Contribution to journalReview article

Transfer RNA
Ribosomes
Messenger RNA
Quality Control
Peptides
88 Citations (Scopus)

Self-sacrifice in radical S-adenosylmethionine proteins

Booker, S. J., Cicchillo, R. M. & Grove, T. L., Oct 1 2007, In : Current Opinion in Chemical Biology. 11, 5, p. 543-552 10 p.

Research output: Contribution to journalReview article

Metalloproteins
S-Adenosylmethionine
Sulfur
Oxidants
Methionine
79 Citations (Scopus)

The plasmid replicon of Epstein-Barr virus: Mechanistic insights into efficient, licensed, extrachromosomal replication in human cells

Lindner, S. E. & Sugden, B., Jul 1 2007, In : Plasmid. 58, 1, p. 1-12 12 p.

Research output: Contribution to journalReview article

Replicon
Human Herpesvirus 4
Plasmids
Nuclear Antigens
Replication Origin
2008
46 Citations (Scopus)

A brilliant disguise for self RNA: 5′-End and internal modifications of primary transcripts suppress elements of innate immunity

Nallagatla, S. R., Toroney, R. & Bevilacqua, P. C., Jan 1 2008, In : RNA Biology. 5, 3

Research output: Contribution to journalReview article

Innate Immunity
RNA
Nucleosides
eIF-2 Kinase
Interferons
2 Citations (Scopus)

Back into the fold. Modernizing Croatian science and education

Primorac, D., Jul 1 2008, In : EMBO Reports. 9, 7, p. 596-599 4 p.

Research output: Contribution to journalReview article

International Cooperation
Croatia
Internet
Teaching
Education
77 Citations (Scopus)

Biochemical models for S-RNase-based self-incompatibility

Hua, Z. H., Fields, A. & Kao, T. H., Jul 2008, In : Molecular plant. 1, 4, p. 575-585 11 p.

Research output: Contribution to journalReview article

Pollen Tube
pollen tubes
Petunia integrifolia
Petunia
Solanaceae
96 Citations (Scopus)

Biological contexts for DNA charge transport chemistry

Merino, E. J., Boal, A. K. & Barton, J. K., Apr 1 2008, In : Current Opinion in Chemical Biology. 12, 2, p. 229-237 9 p.

Research output: Contribution to journalReview article

Charge transfer
DNA
DNA Repair
Mitochondria
Genome
153 Citations (Scopus)

Biology of trans-translation

Keiler, K. C., Oct 20 2008, In : Annual Review of Microbiology. 62, p. 133-151 19 p.

Research output: Contribution to journalReview article

Quality Control
Messenger RNA
Ribosomal Frameshifting
Bacteria
Ribonucleoproteins
16 Citations (Scopus)

Exploring functional genomics for drug target and therapeutics discovery in Plasmodia

Birkholtz, L., van Brummelen, A. C., Clark, K., Niemand, J., Maréchal, E., Llinas, M. & Louw, A. I., Jan 1 2008, In : Acta Tropica. 105, 2, p. 113-123 11 p.

Research output: Contribution to journalReview article

Plasmodium
Genomics
genomics
drugs
therapeutics
40 Citations (Scopus)

Formation and function of the manganese(iv)/iron(iii) cofactor in chlamydia trachomatis ribonucleotide reductase

Jiang, W., Yun, D., Saleh, L., Martin Bollinger, J. & Krebs, C., Dec 30 2008, In : Biochemistry. 47, 52, p. 13736-13744 9 p.

Research output: Contribution to journalReview article

Ribonucleotide Reductases
Chlamydia trachomatis
Manganese
Iron
Electrons
27 Citations (Scopus)

Gas chromatography

Dorman, F. L., Overton, E. B., Whiting, J. J., Cochran, J. W. & Gardea-Torresdey, J., Jun 15 2008, In : Analytical chemistry. 80, 12, p. 4487-4497 11 p.

Research output: Contribution to journalReview article

Gas chromatography
20 Citations (Scopus)

Plasmodium gene regulation: far more to factor in

Llinás, M., Deitsch, K. W. & Voss, T. S., Dec 1 2008, In : Trends in Parasitology. 24, 12, p. 551-556 6 p.

Research output: Contribution to journalReview article

Plasmodium
Antigenic Variation
Parasites
Inventions
Genes
28 Citations (Scopus)

Recombinant protein complex expression in E. coli

Selleck, W. & Tan, S., Dec 17 2008, In : Current Protocols in Protein Science. SUPPL. 52, p. 5.21.1-5.21.21

Research output: Contribution to journalReview article

Recombinant Proteins
Escherichia coli
Plasmids
Sequence Deletion
Escherichia coli Proteins
117 Citations (Scopus)

Regulation by destruction: design of the σE envelope stress response

Ades, S. E., Dec 1 2008, In : Current Opinion in Microbiology. 11, 6, p. 535-540 6 p.

Research output: Contribution to journalReview article

Signal Transduction
Peptide Hydrolases
Periplasm
Proteolysis
Cytoplasm
72 Citations (Scopus)

The biochemical basis for structural diversity in the carotenoids of chlorophototrophic bacteria

Maresca, J. A., Graham, J. E. & Bryant, D. A., Aug 1 2008, In : Photosynthesis research. 97, 2, p. 121-140 20 p.

Research output: Contribution to journalReview article

Carotenoids
Bacteria
carotenoids
bacteria
Biosynthesis
169 Citations (Scopus)

The bone microenvironment in metastasis; what is special about bone?

Bussard, K. M., Gay, C. V. & Mastro, A. M., Mar 1 2008, In : Cancer and Metastasis Reviews. 27, 1, p. 41-55 15 p.

Research output: Contribution to journalReview article

Neoplasm Metastasis
Bone and Bones
Neoplasms
Bone Marrow
Osteoblasts
48 Citations (Scopus)
Ribonucleotide Reductases
Chlamydia trachomatis
Manganese
Protons
Iron
50 Citations (Scopus)

The β and γ classes of carbonic anhydrase

Zimmerman, S. A. & Ferry, J. G., Mar 1 2008, In : Current Pharmaceutical Design. 14, 7, p. 716-721 6 p.

Research output: Contribution to journalReview article

Carbonic Anhydrases
Bicarbonates
Photosynthesis
Carbon Cycle
Diatoms
2009
89 Citations (Scopus)

Anaerobic functionalization of unactivated C-H bonds

Booker, S. J., Feb 1 2009, In : Current Opinion in Chemical Biology. 13, 1, p. 58-73 16 p.

Research output: Contribution to journalReview article

Enzymes
Alkanes
Methylation
Oxygen
Surveying
28 Citations (Scopus)

Archaeal RNA polymerase

Hirata, A. & Murakami, K. S., Dec 1 2009, In : Current Opinion in Structural Biology. 19, 6, p. 724-731 8 p.

Research output: Contribution to journalReview article

Archaeal RNA
DNA-Directed RNA Polymerases
Eukaryota
General Transcription Factors
Archaea
155 Citations (Scopus)

A structural and functional perspective of alphavirus replication and assembly

Jose, J., Snyder, J. E. & Kuhn, R., Sep 23 2009, In : Future microbiology. 4, 7, p. 837-856 20 p.

Research output: Contribution to journalReview article

Alphavirus
Arthropods
Viruses
Alphavirus Infections
Ross River virus
59 Citations (Scopus)

A three-dimensional osteogenic tissue model for the study of metastatic tumor cell interactions with bone

Mastro, A. M. & Vogler, E. A., May 15 2009, In : Cancer Research. 69, 10, p. 4097-4100 4 p.

Research output: Contribution to journalReview article

Osteoblasts
Cell Communication
Bone and Bones
Bioreactors
Osteocytes
13 Citations (Scopus)
Photosystem I Protein Complex
Membrane Proteins
Thermodynamics
Sulfur
Iron
21 Citations (Scopus)

Compartmented neuron cultures for unit 26.4 directional infection by alpha herpesviruses

Curanović, D., Ch'ng, T. H., Szpara, M. & Enquist, L., Jun 24 2009, In : Current Protocols in Cell Biology. SUPPL. 43, p. 26.4.1-26.4.23

Research output: Contribution to journalReview article

Herpesviridae Infections
Axons
Neurons
Herpesviridae
Polytetrafluoroethylene
38 Citations (Scopus)

Dynamics: the missing link between structure and function of the viral RNA-dependent RNA polymerase?

Cameron, C. E., Moustafa, I. & Arnold, J. J., Dec 1 2009, In : Current Opinion in Structural Biology. 19, 6, p. 768-774 7 p.

Research output: Contribution to journalReview article

RNA Replicase
Viral RNA
Nucleotides
Nucleosides
Nucleic Acids
10 Citations (Scopus)

Freeze-quench 57Fe-Mössbauer spectroscopy: Trapping reactive intermediates

Krebs, C. & Bollinger, J. M., Nov 1 2009, In : Photosynthesis research. 102, 2, p. 295-304 10 p.

Research output: Contribution to journalReview article

trapping
spectroscopy
Spectrum Analysis
Iron
Spectroscopy
107 Citations (Scopus)

How eukaryotic genes are transcribed regulation of eukaroytic gene transcription B. J. Venters and B. F. Pugh

Venters, B. J. & Pugh, B. F., Nov 4 2009, In : Critical Reviews in Biochemistry and Molecular Biology. 44, 2-3, p. 117-141 25 p.

Research output: Contribution to journalReview article

RNA Polymerase II
Transcription
Gene expression
Chromatin
Genes
9 Citations (Scopus)

Methods for optimizing statistical analyses in pharmacogenomics research

Turner, S. D., Crawford, D. C. & Ritchie, M. D., Dec 1 2009, In : Expert Review of Clinical Pharmacology. 2, 5, p. 559-570 12 p.

Research output: Contribution to journalReview article

Pharmacogenetics
Phenotype
Genetic Research
Medical Genetics
Research
619 Citations (Scopus)

Nucleosome positioning and gene regulation: Advances through genomics

Jiang, C. & Pugh, B. F., Mar 1 2009, In : Nature Reviews Genetics. 10, 3, p. 161-172 12 p.

Research output: Contribution to journalReview article

Nucleosomes
Genomics
Genes
Genome
Chromatin Assembly and Disassembly
38 Citations (Scopus)

Planning the human variome project: The Spain report

Kaput, J., Cotton, R. G. H., Hardman, L., Watson, M., Aqeel, A. I. A., Al-Aama, J. Y., Al-Mulla, F., Alonso, S., Aretz, S., Auerbach, A. D., Bapat, B., Bernstein, I. T., Bhak, J., Bleoo, S. L., Blöcer, H., Brenner, S. E., Burn, J., Bustamante, M., Calzone, R., Cambon-Thomsen, A. & 82 others, Cargill, M., Carrera, P., Cavedon, L., Cho, Y. S., Chung, Y. J., Claustres, M., Cutting, G., Dalgleish, R., Dunnen, J. T. D., Díaz, C., Dobrowolski, S., Santos, M. R. N. D., Ekong, R., Flanagan, S. B., Flicek, P., Furukawa, Y., Genuardi, M., Ghang, H., Golubenko, M. V., Greenblatt, M. S., Hamosh, A., Hancock, J. M., Hardison, R., Harrison, T. M., Hoffmann, R., Horaitis, R., Howard, H. J., Barash, C. I., Izagirre, N., Jung, J., Kojima, T., Laradi, S., Lee, Y. S., Lee, J. Y., Gil-da-Silva-Lopes, V. L., Macrae, F. A., Maglott, D., Marafie, M. J., Marsh, S. G. E., Matsubara, Y., Messiaen, L. M., Möslein, G., Netea, M. G., Norton, M. L., Oefner, P. J., Oetting, W. S., O'Leary, J. C., De Ramirez, A. M. O., Paalman, M. H., Parboosingh, J., Patrinos, G. P., Perozzi, G., R.Phillips, I., Povey, S., Prasad, S., Qi, M., Quin, D. J., Ramesar, R. S., Richards, C. S., Savige, J., Scheible, D. G., Scott, R. J., Seminara, D., Shephard, E. A., Sijmons, R. H., Smith, T. D., Sobrido, M. J., Tanaka, T., Tavtigian, S. V., Taylor, G. R., Teague, J., Töpel, T., Ullman-Cullere, M., Utsunomiya, J., Van Kranen, H. J., Vihinen, M., Webb, E., Weber, T. K., Yeager, M., Yeom, Y. I., Yim, S. H. & Yoo, H. S., Apr 2009, In : Human mutation. 30, 4, p. 496-510 15 p.

Research output: Contribution to journalReview article

Human Genome
Spain
HapMap Project
Human Genome Project
Precision Medicine
71 Citations (Scopus)

Promoter proximal pausing on genes in metazoans

Gilmour, D. S., Jan 1 2009, In : Chromosoma. 118, 1, p. 1-10 10 p.

Research output: Contribution to journalReview article

Genetic Promoter Regions
Genes
Eukaryota
Drosophila
Genome
89 Citations (Scopus)

Protein-cofactor interactions in bioenergetic complexes: The role of the A1A and A1B phylloquinones in Photosystem I

Srinivasan, N. & Golbeck, J. H., Sep 1 2009, In : Biochimica et Biophysica Acta - Bioenergetics. 1787, 9, p. 1057-1088 32 p.

Research output: Contribution to journalReview article

Vitamin K 1
Photosystem I Protein Complex
Energy Metabolism
Quinones
Proteins