Nathan C VerBerkmoes : rechercher sur Z-Library

Le plus grand référentiel d'articles scientifiques au monde. 70,000,000+ d'articles gratuitement.

Don't use scam websites

Livres
Articles (60)
Les plus populaires
Liste
- Liste
- Tableau

1

Development of tools for the automated analysis of spectra generated by tandem mass spectrometry

Sally Ellingson, Joe Hughes, Dylan Storey, Rick Weber, Nathan VerBerkmoes

Journal:

BMC Bioinformatics

Année:

2010

Langue:

english

Fichier:

PDF, 141 KB

english, 2010

2

Proteomic analysis ofClostridium acetobutylicumin butanol production from lignocellulosic biomass

Kumaran Sivagnanam, Vijaya G S Raghavan, Manesh Shah, Nathan C Verberkmoes, Robert L Hettich, Mark G Lefsrud

Journal:

BMC Proceedings

Année:

2011

Langue:

english

Fichier:

PDF, 93 KB

english, 2011

3

Posttranslational modification and sequence variation of redox-active proteins correlate with biofilm life cycle in natural microbial communities

Singer, Steven W, Erickson, Brian K, VerBerkmoes, Nathan C, Hwang, Mona, Shah, Manesh B, Hettich, Robert L, Banfield, Jillian F, Thelen, Michael P

Journal:

The ISME Journal

Année:

2010

Langue:

english

Fichier:

PDF, 652 KB

english, 2010

4

Intact Protein Analysis for Site-Directed Mutagenesis Overexpression Products: Plasmid-Encoded R67 Dihydrofolate Reductase

Nathan C. VerBerkmoes, Michael B. Strader, R.Derike Smiley, Elizabeth E. Howell, Gregory B. Hurst, Robert L. Hettich, James L. Stephenson Jr.

Journal:

Analytical Biochemistry

Année:

2002

Langue:

english

Fichier:

PDF, 208 KB

english, 2002

5

MS2Grouper: Group Assessment and Synthetic Replacement of Duplicate Proteomic Tandem Mass Spectra

David L. Tabb, Melissa R. Thompson, Gurusahai Khalsa-Moyers, Nathan C. VerBerkmoes, W. Hayes McDonald

Journal:

Journal of the American Society for Mass Spectrometry

Année:

2005

Langue:

english

Fichier:

PDF, 462 KB

english, 2005

6

Integrating experimental and computational approaches for the proteogenomic characterizations of microbial communities

Robert L Hettich, Alison L Russell, Nathan C VerBerkmoes, Manesh Shah, Claire Fraser-Liggett, Janet K Jansson

Journal:

BMC Bioinformatics

Année:

2010

Langue:

english

Fichier:

PDF, 108 KB

english, 2010

7

Comparative shotgun proteomic analysis ofClostridium acetobutylicumfrom butanol fermentation using glucose and xylose

Kumaran Sivagnanam, Vijaya GS Raghavan, Manesh Shah, Robert L Hettich, Nathan C Verberkmoes, Mark G Lefsrud

Journal:

Proteome Science

Année:

2011

Langue:

english

Fichier:

PDF, 487 KB

english, 2011

8

A computational method for assessing peptide- identification reliability in tandem mass spectrometry analysis with SEQUEST

Jane Razumovskaya, Victor Olman, Dong Xu, Edward C. Uberbacher, Nathan C. VerBerkmoes, Robert L. Hettich, Ying Xu

Journal:

Année:

2004

Langue:

english

Fichier:

PDF, 100 KB

english, 2004

9

Proteomics-inferred genome typing (PIGT) demonstrates inter-population recombination as a strategy for environmental adaptation

Vincent J. Denef, Nathan C. VerBerkmoes, Manesh B. Shah, Paul Abraham, Mark Lefsrud, Robert L. Hettich, Jillian F. Banfield

Journal:

Environmental Microbiology

Année:

2009

Langue:

english

Fichier:

PDF, 19.75 MB

english, 2009

10

Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community

Ryan S. Mueller, Brian D. Dill, Chongle Pan, Christopher P. Belnap, Brian C. Thomas, Nathan C. VerBerkmoes, Robert L. Hettich, Jillian F. Banfield

Journal:

Environmental Microbiology

Année:

2011

Langue:

english

Fichier:

PDF, 1.29 MB

english, 2011

11

Cytochrome 572 is a conspicuous membrane protein with iron oxidation activity purified directly from a natural acidophilic microbial community

Jeans, Chris, Singer, Steven W, Chan, Clara S, VerBerkmoes, Nathan C, Shah, Manesh, Hettich, Robert L, Banfield, Jillian F, Thelen, Michael P

Journal:

The ISME Journal

Année:

2008

Langue:

english

Fichier:

PDF, 256 KB

english, 2008

12

Shotgun metaproteomics of the human distal gut microbiota

Halfvarson, Jonas, Lefsrud, Mark G, Apajalahti, Juha, Tysk, Curt, Hettich, Robert L, Verberkmoes, Nathan C, Russell, Alison L, Shah, Manesh, Godzik, Adam, Rosenquist, Magnus

Journal:

The ISME Journal

Année:

2008

Langue:

english

Fichier:

PDF, 467 KB

english, 2008

13

Community proteogenomics highlights microbial strain-variant protein expression within activated sludge performing enhanced biological phosphorus removal

Wilmes, Paul, Andersson, Anders F, Lefsrud, Mark G, Wexler, Margaret, Shah, Manesh, Zhang, Bing, Hettich, Robert L, Bond, Philip L, VerBerkmoes, Nathan C, Banfield, Jillian F

Journal:

The ISME Journal

Année:

2008

Langue:

english

Fichier:

PDF, 509 KB

english, 2008

14

Cultivation and quantitative proteomic analyses of acidophilic microbial communities

VerBerkmoes, Nathan C, Power, Mary E, Samatova, Nagiza F, Carver, Rudolf L, Hettich, Robert L, Banfield, Jillian F, Belnap, Christopher P, Pan, Chongle

Journal:

The ISME Journal

Année:

2009

Langue:

english

Fichier:

PDF, 545 KB

english, 2009

15

Environmental proteomics of microbial plankton in a highly productive coastal upwelling system

Sowell, Sarah M, Abraham, Paul E, Shah, Manesh, Verberkmoes, Nathan C, Smith, Daniel P, Barofsky, Douglas F, Giovannoni, Stephen J

Journal:

The ISME Journal

Année:

2010

Langue:

english

Fichier:

PDF, 541 KB

english, 2010

16

Strain-resolved community proteomics reveals recombining genomes of acidophilic bacteria

Lo, Ian, Denef, Vincent J., VerBerkmoes, Nathan C., Shah, Manesh B., Goltsman, Daniela, DiBartolo, Genevieve, Tyson, Gene W., Allen, Eric E., Ram, Rachna J., Detter, J. Chris

Journal:

Année:

2007

Langue:

english

Fichier:

PDF, 2.29 MB

english, 2007

17

Systems Biology: Functional analysis of natural microbial consortia using community proteomics

VerBerkmoes, Nathan C., Denef, Vincent J., Hettich, Robert L., Banfield, Jillian F.

Journal:

Nature Reviews Microbiology

Année:

2009

Langue:

english

Fichier:

PDF, 494 KB

english, 2009

18

Direct Cellular Lysis/Protein Extraction Protocol for Soil Metaproteomics

Chourey, Karuna, Jansson, Janet, VerBerkmoes, Nathan, Shah, Manesh, Chavarria, Krystle L., Tom, Lauren M., Brodie, Eoin L., Hettich, Robert L.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 1.21 MB

english, 2010

19

Shotgun proteomic monitoring ofClostridium acetobutylicumduring stationary phase of butanol fermentation using xylose and comparison with the exponential phase

Kumaran Sivagnanam, Vijaya G. S. Raghavan, Manesh Shah, Robert L. Hettich, Nathan C. Verberkmoes, Mark G. Lefsrud

Journal:

Journal of Industrial Microbiology & Biotechnology

Année:

2012

Langue:

english

Fichier:

PDF, 607 KB

english, 2012

20

A high-throughputde novosequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry

Chongle Pan, Byung H Park, William H McDonald, Patricia A Carey, Jillian F Banfield, Nathan C VerBerkmoes, Robert L Hettich, Nagiza F Samatova

Journal:

BMC Bioinformatics

Année:

2010

Langue:

english

Fichier:

PDF, 1.37 MB

english, 2010

21

Proteomics reveals a core molecular response ofPseudomonas putidaF1 to acute chromate challenge

Dorothea K Thompson, Karuna Chourey, Gene S Wickham, Stephanie B Thieman, Nathan C VerBerkmoes, Bing Zhang, Andrea T McCarthy, Matt A Rudisill, Manesh Shah, Robert L Hettich

Journal:

Année:

2010

Langue:

english

Fichier:

PDF, 914 KB

english, 2010

22

Detecting Differential and Correlated Protein Expression in Label-Free Shotgun Proteomics

Zhang, Bing, VerBerkmoes, Nathan C., Langston, Michael A., Uberbacher, Edward, Hettich, Robert L., Samatova, Nagiza F.

Journal:

Journal of Proteome Research

Année:

2006

Langue:

english

Fichier:

PDF, 494 KB

english, 2006

23

Affinity purification and characterization of a G-protein coupled receptor, Saccharomyces cerevisiae Ste2p

Byung-Kwon Lee, Kyung-Sik Jung, Cagdas Son, Heejung Kim, Nathan C. VerBerkmoes, Boris Arshava, Fred Naider, Jeffrey M. Becker

Journal:

Protein Expression and Purification

Année:

2007

Langue:

english

Fichier:

PDF, 620 KB

english, 2007

24

Characterization of the 70S Ribosome from Rhodopseudomonas p alustris Using an Integrated “Top-Down” and “Bottom-Up” Mass Spectrometric Approach

Strader, Michael Brad, VerBerkmoes, Nathan C., Tabb, David L., Connelly, Heather M., Barton, John W., Bruce, Barry D., Pelletier, Dale A., Davison, Brian H., Hettich, Robert L., Larimer, Frank W., Hur

Journal:

Journal of Proteome Research

Année:

2004

Langue:

english

Fichier:

PDF, 368 KB

english, 2004

25

The temporal analysis of yeast exponential phase using shotgun proteomics as a fermentation monitoring technique

Huang, Eric L., Orsat, Valérie, Shah, Manesh B., Hettich, Robert L., VerBerkmoes, Nathan C., Lefsrud, Mark G.

Journal:

Journal of Proteomics

Année:

2012

Langue:

english

Fichier:

PDF, 522 KB

english, 2012

26

‘Omics’ of the mammalian gut – new insights into function

Regina Lamendella, Nathan VerBerkmoes, Janet K Jansson

Journal:

Current Opinion in Biotechnology

Année:

2012

Langue:

english

Fichier:

PDF, 2.30 MB

english, 2012

27

Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community

Handley, Kim M, VerBerkmoes, Nathan C, Steefel, Carl I, Williams, Kenneth H, Sharon, Itai, Miller, Christopher S, Frischkorn, Kyle R, Chourey, Karuna, Thomas, Brian C, Shah, Manesh B, Long, Philip E,

Journal:

The ISME Journal

Année:

2013

Langue:

english

Fichier:

PDF, 4.44 MB

english, 2013

28

Coupling a Detergent Lysis/Cleanup Methodology with Intact Protein Fractionation for Enhanced Proteome Characterization

Sharma, Ritin, Dill, Brian D., Chourey, Karuna, Shah, Manesh, VerBerkmoes, Nathan C., Hettich, Robert L.

Journal:

Journal of Proteome Research

Année:

2012

Langue:

english

Fichier:

PDF, 3.95 MB

english, 2012

29

ProRata: A Quantitative Proteomics Program for Accurate Protein Abundance Ratio Estimation with Confidence Interval Evaluation

Pan, Chongle, Kora, Guruprasad, McDonald, W. Hayes, Tabb, David L., VerBerkmoes, Nathan C., Hurst, Gregory B., Pelletier, Dale A., Samatova, Nagiza F., Hettich, Robert L.

Journal:

Analytical Chemistry

Année:

2006

Langue:

english

Fichier:

PDF, 502 KB

english, 2006

30

Proteogenomic Approaches for the Molecular Characterization of Natural Microbial Communities

Banfield, Jillian F., Verberkmoes, Nathan C., Hettich, Robert L., Thelen, Michael P.

Journal:

Omics A Journal of Integrative Biology

Année:

2005

Langue:

english

Fichier:

PDF, 737 KB

english, 2005

31

Implications of Strain- and Species-Level Sequence Divergence for Community and Isolate Shotgun Proteomic Analysis

Denef, Vincent J., Shah, Manesh B., VerBerkmoes, Nathan C., Hettich, Robert L., Banfield, Jillian F.

Journal:

Journal of Proteome Research

Année:

2007

Langue:

english

Fichier:

PDF, 401 KB

english, 2007

32

Role of S65, Q67, I68, and Y69 Residues in Homotetrameric R67 Dihydrofolate Reductase †

Strader, Michael Brad, Smiley, R. Derike, Stinnett, Lori G., VerBerkmoes, Nathan C., Howell, Elizabeth E.

Journal:

Année:

2001

Langue:

english

Fichier:

PDF, 164 KB

english, 2001

33

Sustainable syntrophic growth of Dehalococcoides ethenogenes strain 195 with Desulfovibrio vulgaris Hildenborough and Methanobacterium congolense: global transcriptomic and proteomic analyses

Men, Yujie, Feil, Helene, VerBerkmoes, Nathan C, Shah, Manesh B, Johnson, David R, Lee, Patrick K H, West, Kimberlee A, Zinder, Stephen H, Andersen, Gary L, Alvarez-Cohen, Lisa

Journal:

The ISME Journal

Année:

2012

Langue:

english

Fichier:

PDF, 671 KB

english, 2012

34

Computational Prediction and Experimental Validation of Signal Peptide Cleavages in the Extracellular Proteome of a Natural Microbial Community

Erickson, Brian K., Mueller, Ryan S., VerBerkmoes, Nathan C., Shah, Manesh, Singer, Steven W., Thelen, Michael P., Banfield, Jillian F., Hettich, Robert L.

Journal:

Journal of Proteome Research

Année:

2010

Langue:

english

Fichier:

PDF, 4.19 MB

english, 2010

35

Discovery of a novel methanogen prevalent in thawing permafrost

Mondav, Rhiannon, Woodcroft, Ben J., Kim, Eun-Hae, McCalley, Carmody K., Hodgkins, Suzanne B., Crill, Patrick M., Chanton, Jeffrey, Hurst, Gregory B., VerBerkmoes, Nathan C., Saleska, Scott R., Hugenh

Journal:

Nature Communications

Année:

2014

Langue:

english

Fichier:

PDF, 635 KB

english, 2014

36

Evaluation of “Shotgun” Proteomics for Identification of Biological Threat Agents in Complex Environmental Matrixes: Experimental Simulations

VerBerkmoes, Nathan C., Hervey, W. Judson, Shah, Manesh, Land, Miriam, Hauser, Loren, Larimer, Frank W., Van Berkel, Gary J., Goeringer, Douglas E.

Journal:

Analytical Chemistry

Année:

2005

Langue:

english

Fichier:

PDF, 254 KB

english, 2005

37

Expressed Peptide Tags: An Additional Layer of Data for Genome Annotation

Savidor, Alon, Donahoo, Ryan S., Hurtado-Gonzales, Oscar, VerBerkmoes, Nathan C., Shah, Manesh B., Lamour, Kurt H., McDonald, W. Hayes

Journal:

Journal of Proteome Research

Année:

2006

Langue:

english

Fichier:

PDF, 641 KB

english, 2006

38

Integrating “Top-Down” and “Bottom-Up” Mass Spectrometric Approaches for Proteomic Analysis of Shewanella oneidensis

VerBerkmoes, Nathan C., Bundy, Jonathan L., Hauser, Loren, Asano, Keiji G., Razumovskaya, Jane, Larimer, Frank, Hettich, Robert L., Stephenson, James L.

Journal:

Journal of Proteome Research

Année:

2002

Langue:

english

Fichier:

PDF, 418 KB

english, 2002

39

Metal Affinity Enrichment Increases the Range and Depth of Proteome Identification for Extracellular Microbial Proteins

Wheeler, Korin E., Erickson, Brian K., Mueller, Ryan, Singer, Steven W., VerBerkmoes, Nathan C., Hwang, Mona, Thelen, Michael P., Hettich, Robert L.

Journal:

Journal of Proteome Research

Année:

2012

Langue:

english

Fichier:

PDF, 2.38 MB

english, 2012

40

Analysis of Biostimulated Microbial Communities from Two Field Experiments Reveals Temporal and Spatial Differences in Proteome Profiles

Callister, Stephen J., Wilkins, Michael J., Nicora, Carrie D., Williams, Kenneth H., Banfield, Jillian F., VerBerkmoes, Nathan C., Hettich, Robert L., N’Guessan, Lucie, Mouser, Paula J., Elifantz, Hil

Journal:

Environmental Science & Technology

Année:

2010

Langue:

english

Fichier:

PDF, 1.53 MB

english, 2010

41

Experimental Approach for Deep Proteome Measurements from Small-Scale Microbial Biomass Samples

Thompson, Melissa R., Chourey, Karuna, Froelich, Jennifer M., Erickson, Brian K., VerBerkmoes, Nathan C., Hettich, Robert L.

Journal:

Analytical Chemistry

Année:

2008

Langue:

english

Fichier:

PDF, 673 KB

english, 2008

42

Determination and Comparison of the Baseline Proteomes of the Versatile Microbe Rhodopseudomonas p alustris under Its Major Metabolic States

VerBerkmoes, Nathan C., Shah, Manesh B., Lankford, Patricia K., Pelletier, Dale A., Strader, Michael B., Tabb, David L., McDonald, W. Hayes, Barton, John W., Hurst, Gregory B., Hauser, Loren, Davison,

Journal:

Journal of Proteome Research

Année:

2006

Langue:

english

Fichier:

PDF, 225 KB

english, 2006

43

Impact of Phenolic Substrate and Growth Temperature on the Arthrobacter chlorophenolicus Proteome

Unell, Maria, Abraham, Paul E., Shah, Manesh, Zhang, Bing, Rückert, Christian, VerBerkmoes, Nathan C., Jansson, Janet K.

Journal:

Journal of Proteome Research

Année:

2009

Langue:

english

Fichier:

PDF, 6.60 MB

english, 2009

44

Dosage-Dependent Proteome Response of Shewanella oneidensis MR-1 to Acute Chromate Challenge

Thompson, Melissa R., VerBerkmoes, Nathan C., Chourey, Karuna, Shah, Manesh, Thompson, Dorothea K., Hettich, Robert L.

Journal:

Journal of Proteome Research

Année:

2007

Langue:

english

Fichier:

PDF, 378 KB

english, 2007

45

Comparative Temporal Proteomics of a Response Regulator (SO2426)-Deficient Strain and Wild-Type Shewanella oneidensis MR-1 During Chromate Transformation

Chourey, Karuna, Thompson, Melissa R., Shah, Manesh, Zhang, Bing, VerBerkmoes, Nathan C., Thompson, Dorothea K., Hettich, Robert L.

Journal:

Journal of Proteome Research

Année:

2009

Langue:

english

Fichier:

PDF, 1.80 MB

english, 2009

46

THE PROBABILITY DISTRIBUTION FOR A RANDOM MATCH BETWEEN AN EXPERIMENTAL-THEORETICAL SPECTRAL PAIR IN TANDEM MASS SPECTROMETRY

FRIDMAN, TEMA, RAZUMOVSKAYA, JANE, VERBERKMOES, NATHAN, HURST, GREG, PROTOPOPESCU, VLADIMIR, XU, YING

Journal:

Journal of Bioinformatics and Computational Biology

Année:

2005

Langue:

english

Fichier:

PDF, 631 KB

english, 2005

47

The two-faced T cell epitope

Moise, Leonard, Gutierrez, Andres H., Bailey-Kellogg, Chris, Terry, Frances, Leng, Qibin, Abdel Hady, Karim M., VerBerkmoes, Nathan C., Sztein, Marcelo B., Losikoff, Phyllis T., Martin, William D., Ro

Journal:

Human Vaccines & Immunotherapeutics

Année:

2013

Langue:

english

Fichier:

PDF, 832 KB

english, 2013

48

Mass spectrometric approaches for characterizing bacterial proteomes

VerBerkmoes, Nathan C, Connelly, Heather M, Pan, Chongle, Hettich, Robert L

Journal:

Expert Review of Proteomics

Année:

2004

Langue:

english

Fichier:

PDF, 483 KB

english, 2004

49

Environmental Effects of Nanoceria on Seed Production of Common bean (Phaseolus vulgaris): A Proteomic Analysis

Majumdar, Sanghamitra, Almeida, Igor C, Arigi, Emma A., Choi, Hyungwon, VerBerkmoes, Nathan C., Trujillo-Reyes, Jesica, Flores-Margez, Juan P., White, Jason C., Peralta-Videa, Jose R, Gardea-Torresdey

Journal:

Environmental Science & Technology

Année:

2015

Langue:

english

Fichier:

PDF, 1.51 MB

english, 2015

50

Proteogenomic Basis for Ecological Divergence of Closely Related Bacteria in Natural Acidophilic Microbial Communities

Vincent J. Denef, Linda H. Kalnejais, Ryan S. Mueller, Paul Wilmes, Brett J. Baker, Brian C. Thomas, Nathan C. VerBerkmoes, Robert L. Hettich, Julian F. Banfield and Julian F. Banfield

Journal:

Proceedings of the National Academy of Sciences

Année:

2010

Langue:

english

Fichier:

PDF, 1.80 MB

english, 2010