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1

Optimized Orbitrap HCD for Quantitative Analysis of Phosphopeptides

Yi Zhang, Scott B. Ficarro, Shaojuan Li, Jarrod A. Marto

Journal:

Journal of the American Society for Mass Spectrometry

Year:

2009

Language:

english

File:

PDF, 926 KB

english, 2009

2

Electrospray Ionization Fourier Transform Ion Cyclotron Resonance at 9.4 T

Michael W. Senko, Christopher L. Hendrickson, Ljiljana Paša-Tolić, Jarrod A. Marto, Forest M. White, Shenheng Guan, Alan G. Marshall

Journal:

Rapid Communications in Mass Spectrometry

Year:

1996

Language:

english

File:

PDF, 476 KB

english, 1996

3

A two-electrode ion trap for Fourier transform ion cyclotron resonance mass spectrometry

Jarrod A. Marto, Alan G. Marshall, Lutz Schweikhard

Journal:

International Journal of Mass Spectrometry and Ion Processes

Year:

1994

Language:

english

File:

PDF, 1.86 MB

english, 1994

4

Wide-mass-range axialization for high-resolution Fourier-transform ion cyclotron resonance mass spectrometry of externally generated ions

Jarrod A. Marto, Shenheng Guan, Alan G. Marshall, Dr Michelle V. Buchanan

Journal:

Rapid Communications in Mass Spectrometry

Year:

1994

Language:

english

File:

PDF, 571 KB

english, 1994

5

Online Nanoflow Reversed Phase-Strong Anion Exchange-Reversed Phase Liquid Chromatography–Tandem Mass Spectrometry Platform for Efficient and In-Depth Proteome Sequence Analysis of Complex Organisms

Zhou, Feng, Sikorski, Timothy W., Ficarro, Scott B., Webber, James T., Marto, Jarrod A.

Journal:

Analytical Chemistry

Year:

2011

Language:

english

File:

PDF, 1.06 MB

english, 2011

6

Novel Linear Quadrupole Ion Trap/FT Mass Spectrometer: Performance Characterization and Use in the Comparative Analysis of Histone H3 Post-translational Modifications

Syka, John E. P., Marto, Jarrod A., Bai, Dina L., Horning, Stevan, Senko, Michael W., Schwartz, Jae C., Ueberheide, Beatrix, Garcia, Benjamin, Busby, Scott, Muratore, Tara, Shabanowitz, Jeffrey, Hunt,

Journal:

Journal of Proteome Research

Year:

2004

Language:

english

File:

PDF, 138 KB

english, 2004

7

SRPKIN-1: A Covalent SRPK1/2 Inhibitor that Potently Converts VEGF from Pro-angiogenic to Anti-angiogenic Isoform

Hatcher, John M., Wu, Guowei, Zeng, Chuyue, Zhu, Jie, Meng, Fan, Patel, Sherrina, Wang, Wenqiu, Ficarro, Scott B., Leggett, Alan L., Powell, Chelsea E., Marto, Jarrod A., Zhang, Kang, Ki Ngo, Jacky Ch

Journal:

Cell Chemical Biology

Year:

2018

Language:

english

File:

PDF, 3.26 MB

english, 2018

8

mzStudio: A Dynamic Digital Canvas for User-Driven Interrogation of Mass Spectrometry Data

Ficarro, Scott, Alexander, William, Marto, Jarrod

Journal:

Year:

2017

Language:

english

File:

PDF, 7.43 MB

english, 2017

9

An External Source 7 T Fourier Transform Ion Cyclotron Resonance Mass Spectrometer with Electrostatic Ion Guide

Forest M. White, Jarrod A. Marto, Alan G. Marshall

Journal:

Rapid Communications in Mass Spectrometry

Year:

1996

Language:

english

File:

PDF, 538 KB

english, 1996

10

Serum protein immunogenicity: Implications for liver xenografting

Susanna Celli, Jarrod A. Marto, Rocco Falchetto, Jeffrey Shabanowitz, Luis A. Valdivia, John J. Fung, Donald F. Hunt, Robert H. Kelly

Journal:

ELECTROPHORESIS

Year:

2000

Language:

english

File:

PDF, 229 KB

english, 2000

11

Ion trajectories in an electrostatic ion guide for external ion source fourier transform ion cyclotron resonance mass spectrometry

Jarrod A. Marto, Alan G. Marshall, Michael A. May, Patrick A. Limbach

Journal:

Journal of the American Society for Mass Spectrometry

Year:

1995

Language:

english

File:

PDF, 1.08 MB

english, 1995

12

Concordant and opposite roles of DNA-PK and the "facilitator of chromatin transcription" (FACT) in DNA repair, apoptosis and necrosis after cisplatin

Janna Sand-Dejmek, Guillaume Adelmant, Bijan Sobhian, Anne S Calkins, Jarrod Marto, Dirk J Iglehart, Jean-Bernard Lazaro

Journal:

Molecular Cancer

Year:

2011

Language:

english

File:

PDF, 1010 KB

english, 2011

13

Pathway Palette: A rich internet application for peptide-, protein- and network-oriented analysis of MS data

Manor Askenazi, Shaojuan Li, Saurav Singh, Jarrod A. Marto

Journal:

Year:

2010

Language:

english

File:

PDF, 447 KB

english, 2010

14

The complete peptide dictionary – A meta-proteomics resource

Manor Askenazi, Jarrod A. Marto, Michal Linial

Journal:

Year:

2010

Language:

english

File:

PDF, 255 KB

english, 2010

15

Peptide and Protein Quantification Using iTRAQ with Electron Transfer Dissociation

Doug Phanstiel, Yi Zhang, Jarrod A. Marto, Joshua J. Coon

Journal:

Journal of the American Society for Mass Spectrometry

Year:

2008

Language:

english

File:

PDF, 681 KB

english, 2008

16

Understanding the first steps in embryonic stem cell exit from the pluripotent state

C. John Luckey, Yu Lu, Jarrod A. Marto

Journal:

Transfusion (Wiley)

Year:

2011

Language:

english

File:

PDF, 332 KB

english, 2011

17

mzAPI: a new strategy for efficiently sharing mass spectrometry data

Askenazi, Manor, Parikh, Jignesh R, Marto, Jarrod A

Journal:

Year:

2009

Language:

english

File:

PDF, 910 KB

english, 2009

18

Differential phosphoprofiles of EGF and EGFR kinase inhibitor-treated human tumor cells and mouse xenografts

David R. Stover, Jennifer Caldwell, Jarrod Marto, Karen Root, Juergan Mestan, Michael Stumm, Olga Ornatsky, Chris Orsi, Nina Radosevic, Linda Liao, Doriano Fabbro, Michael F. Moran

Journal:

Clinical Proteomics

Year:

2004

Language:

english

File:

PDF, 637 KB

english, 2004

19

Mass spectrometry-based proteomics: qualitative identification to activity-based protein profiling

Job D. Cardoza, Jignesh R. Parikh, Scott B. Ficarro, Jarrod A. Marto

Journal:

Wiley Interdisciplinary Reviews: Systems Biology and Medicine

Year:

2012

Language:

english

File:

PDF, 881 KB

english, 2012

20

Discovery of Potent and Selective Covalent Inhibitors of JNK

Tinghu Zhang, Francisco Inesta-Vaquera, Mario Niepel, Jianming Zhang, Scott B. Ficarro, Thomas Machleidt, Ting Xie, Jarrod A. Marto, NamDoo Kim, Taebo Sim, John D. Laughlin, Hajeung Park, Philip V. Lo

Journal:

Chemistry & Biology

Year:

2012

Language:

english

File:

PDF, 1.31 MB

english, 2012

21

multiplierz: an extensible API based desktop environment for proteomics data analysis

Jignesh R Parikh, Manor Askenazi, Scott B Ficarro, Tanya Cashorali, James T Webber, Nathaniel C Blank, Yi Zhang, Jarrod A Marto

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 1.80 MB

english, 2009

22

Production of a reference transcriptome and transcriptomic database (PocilloporaBase) for the cauliflower coral,Pocillopora damicornis

Nikki Traylor-Knowles, Brian R Granger, Tristan J Lubinski, Jignesh R Parikh, Sara Garamszegi, Yu Xia, Jarrod A Marto, Les Kaufman, John R Finnerty

Journal:

Year:

2011

Language:

english

File:

PDF, 1.49 MB

english, 2011

23

Delayed Fragmentation and Optimized Isolation Width Settings for Improvement of Protein Identification and Accuracy of Isobaric Mass Tag Quantification on Orbitrap-Type Mass Spectrometers

Savitski, Mikhail M., Sweetman, Gavain, Askenazi, Manor, Marto, Jarrod A., Lang, Manja, Zinn, Nico, Bantscheff, Marcus

Journal:

Analytical Chemistry

Year:

2011

Language:

english

File:

PDF, 980 KB

english, 2011

24

Fast kinase domain-containing protein 3 is a mitochondrial protein essential for cellular respiration

Maria Simarro, Alfredo Gimenez-Cassina, Nancy Kedersha, Jean-Bernard Lazaro, Guillaume O. Adelmant, Jarrod A. Marto, Kirsten Rhee, Sarah Tisdale, Nika Danial, Charaf Benarafa, Anonio Orduña, Paul Ande

Journal:

Biochemical and Biophysical Research Communications

Year:

2010

Language:

english

File:

PDF, 1.02 MB

english, 2010

25

BRCA1 Is Required for Postreplication Repair after UV-Induced DNA Damage

Shailja Pathania, Jenna Nguyen, Sarah J. Hill, Ralph Scully, Guillaume O. Adelmant, Jarrod A. Marto, Jean Feunteun, David M. Livingston

Journal:

Year:

2011

Language:

english

File:

PDF, 1.65 MB

english, 2011

26

Sub1 and RPA Associate with RNA Polymerase II at Different Stages of Transcription

Timothy W. Sikorski, Scott B. Ficarro, John Holik, TaeSoo Kim, Oliver J. Rando, Jarrod A. Marto, Stephen Buratowski

Journal:

Year:

2011

Language:

english

File:

PDF, 1.47 MB

english, 2011

27

Structural Characterization of Phospholipids by Matrix-Assisted Laser Desorption/Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry

Marto, Jarrod A., White, Forest M., Seldomridge, Staci., Marshall, Alan G.

Journal:

Analytical Chemistry

Year:

1995

Language:

english

File:

PDF, 741 KB

english, 1995

28

Genome-scale proteome quantification by DEEP SEQ mass spectrometry

Zhou, Feng, Lu, Yu, Ficarro, Scott B., Adelmant, Guillaume, Jiang, Wenyu, Luckey, C. John, Marto, Jarrod A.

Journal:

Nature Communications

Year:

2013

Language:

english

File:

PDF, 3.85 MB

english, 2013

29

Subfemtomole MS and MS/MS Peptide Sequence Analysis Using Nano-HPLC Micro-ESI Fourier Transform Ion Cyclotron Resonance Mass Spectrometry

Martin, Susan E., Shabanowitz, Jeffrey, Hunt, Donald F., Marto, Jarrod A.

Journal:

Analytical Chemistry

Year:

2000

Language:

english

File:

PDF, 121 KB

english, 2000

30

Structure of a pseudokinase-domain switch that controls oncogenic activation of Jak kinases

Toms, Angela V, Deshpande, Anagha, McNally, Randall, Jeong, Youngjee, Rogers, Julia M, Kim, Chae Un, Gruner, Sol M, Ficarro, Scott B, Marto, Jarrod A, Sattler, Martin, Griffin, James D, Eck, Michael J

Journal:

Nature Structural and Molecular Biology

Year:

2013

Language:

english

File:

PDF, 671 KB

english, 2013

31

Improved Immobilized Metal Affinity Chromatography for Large-Scale Phosphoproteomics Applications

Ndassa, Yasmine M., Orsi, Chris, Marto, Jarrod A., Chen, She, Ross, Mark M.

Journal:

Journal of Proteome Research

Year:

2006

Language:

english

File:

PDF, 373 KB

english, 2006

32

Dephosphorylation Enables the Recruitment of 53BP1 to Double-Strand DNA Breaks

Lee, Dong-Hyun, Acharya, Sanket S., Kwon, Mijung, Drane, Pascal, Guan, Yinghua, Adelmant, Guillaume, Kalev, Peter, Shah, Jagesh, Pellman, David, Marto, Jarrod A., Chowdhury, Dipanjan

Journal:

Year:

2014

Language:

english

File:

PDF, 3.75 MB

english, 2014

33

Transcriptional Repressor ZBTB1 Promotes Chromatin Remodeling and Translesion DNA Synthesis

Kim, Hyungjin, Dejsuphong, Donniphat, Adelmant, Guillaume, Ceccaldi, Raphael, Yang, Kailin, Marto, Jarrod A., D’Andrea, Alan D.

Journal:

Year:

2014

Language:

english

File:

PDF, 2.11 MB

english, 2014

34

Structure and Ubiquitination-Dependent Activation of TANK-Binding Kinase 1

Tu, Daqi, Zhu, Zehua, Zhou, Alicia Y., Yun, Cai-hong, Lee, Kyung-Eun, Toms, Angela V., Li, Yiqun, Dunn, Gavin P., Chan, Edmond, Thai, Tran, Yang, Shenghong, Ficarro, Scott B., Marto, Jarrod A., Jeon,

Journal:

Year:

2013

Language:

english

File:

PDF, 2.05 MB

english, 2013

35

Niobium(V) Oxide (Nb 2 O 5 ): Application to Phosphoproteomics

Ficarro, Scott B., Parikh, Jignesh R., Blank, Nathaniel C., Marto, Jarrod A.

Journal:

Analytical Chemistry

Year:

2008

Language:

english

File:

PDF, 2.12 MB

english, 2008

36

Magnetic Bead Processor for Rapid Evaluation and Optimization of Parameters for Phosphopeptide Enrichment

Ficarro, Scott B., Adelmant, Guillaume, Tomar, Maria N., Zhang, Yi, Cheng, Vincent J., Marto, Jarrod A.

Journal:

Analytical Chemistry

Year:

2009

Language:

english

File:

PDF, 4.93 MB

english, 2009

37

Attomole Biomolecule Mass Analysis by Matrix-Assisted Laser Desorption/Ionization Fourier Transform Ion Cyclotron Resonance

Solouki, Touradj., Marto, Jarrod A., White, Forest M., Guan, Shengheng., Marshall, Alan G.

Journal:

Analytical Chemistry

Year:

1995

Language:

english

File:

PDF, 2.02 MB

english, 1995

38

Improved Electrospray Ionization Efficiency Compensates for Diminished Chromatographic Resolution and Enables Proteomics Analysis of Tyrosine Signaling in Embryonic Stem Cells

Ficarro, Scott B., Zhang, Yi, Lu, Yu, Moghimi, Ahmadali R., Askenazi, Manor, Hyatt, Elzbieta, Smith, Eric D., Boyer, Leah, Schlaeger, Thorsten M., Luckey, C. John, Marto, Jarrod A.

Journal:

Analytical Chemistry

Year:

2009

Language:

english

File:

PDF, 4.95 MB

english, 2009

39

Online Nanoflow RP−RP-MS Reveals Dynamics of Multicomponent Ku Complex in Response to DNA Damage

Zhou, Feng, Cardoza, Job D., Ficarro, Scott B., Adelmant, Guillaume O., Lazaro, Jean-Bernard, Marto, Jarrod A.

Journal:

Journal of Proteome Research

Year:

2010

Language:

english

File:

PDF, 4.45 MB

english, 2010

40

Nanoflow Low Pressure High Peak Capacity Single Dimension LC-MS/MS Platform for High-Throughput, In-Depth Analysis of Mammalian Proteomes

Zhou, Feng, Lu, Yu, Ficarro, Scott B., Webber, James T., Marto, Jarrod A.

Journal:

Analytical Chemistry

Year:

2012

Language:

english

File:

PDF, 1.62 MB

english, 2012

41

Pharmacological targeting of the pseudokinase Her3

Xie, Ting, Lim, Sang Min, Westover, Kenneth D, Dodge, Michael E, Ercan, Dalia, Ficarro, Scott B, Udayakumar, Durga, Gurbani, Deepak, Tae, Hyun Seop, Riddle, Steven M, Sim, Taebo, Marto, Jarrod A, Jänn

Journal:

Nature Chemical Biology

Year:

2014

Language:

english

File:

PDF, 1.68 MB

english, 2014

42

Library dependent LC-MS/MS acquisition via mzAPI/Live

Webber, James T., Askenazi, Manor, Ficarro, Scott B., Iglehart, Max A., Marto, Jarrod A.

Journal:

Year:

2013

Language:

english

File:

PDF, 660 KB

english, 2013

43

Development of small molecules targeting the pseudokinase Her3

Lim, Sang Min, Xie, Ting, Westover, Kenneth D., Ficarro, Scott B., Tae, Hyun Seop, Gurbani, Deepak, Sim, Taebo, Marto, Jarrod A., Jänne, Pasi A., Crews, Craig M., Gray, Nathanael S.

Journal:

Bioorganic & Medicinal Chemistry Letters

Year:

2015

Language:

english

File:

PDF, 2.18 MB

english, 2015

44

Phosphoproteomic analysis reveals that PP4 dephosphorylates KAP-1 impacting the DNA damage response

Lee, Dong-Hyun, Goodarzi, Aaron A, Adelmant, Guillaume O, Pan, Yunfeng, Jeggo, Penelope A, Marto, Jarrod A, Chowdhury, Dipanjan

Journal:

The EMBO Journal

Year:

2012

Language:

english

File:

PDF, 2.49 MB

english, 2012

45

Tyrosines 868, 966, and 972 in the Kinase Domain of JAK2 Are Autophosphorylated and Required for Maximal JAK2 Kinase Activity

Argetsinger, Lawrence S., Stuckey, Jeanne A., Robertson, Scott A., Koleva, Rositsa I., Cline, Joel M., Marto, Jarrod A., Myers, Martin G., Carter-Su, Christin

Journal:

Molecular Endocrinology

Year:

2010

Language:

english

File:

PDF, 488 KB

english, 2010

46

Peptidic degron in EID1 is recognized by an SCF E3 ligase complex containing the orphan F-box protein FBXO21

Zhang, Cuiyan, Li, Xiaotong, Adelmant, Guillaume, Dobbins, Jessica, Geisen, Christoph, Oser, Matthew G., Wucherpfenning, Kai W., Marto, Jarrod A., Kaelin, William G.

Journal:

Proceedings of the National Academy of Sciences

Year:

2015

Language:

english

File:

PDF, 1.43 MB

english, 2015

47

Correction for Hwang et al., Polyomavirus Small t Antigen Interacts with Yes-Associated Protein To Regulate Cell Survival and Differentiation

Hwang, Justin H., Pores Fernando, Arun T., Faure, Nathalie, Andrabi, Shaida, Adelmant, Guillaume, Hahn, William C., Marto, Jarrod A., Schaffhausen, Brian S., Roberts, Thomas M.

Journal:

Journal of Virology

Year:

2015

Language:

english

File:

PDF, 85 KB

english, 2015

48

Direct Analysis of Phosphorylation Sites on the Rpb1 C-Terminal Domain of RNA Polymerase II

Suh, Hyunsuk, Ficarro, Scott B., Kang, Un-Beom, Chun, Yujin, Marto, Jarrod A., Buratowski, Stephen

Journal:

Year:

2016

Language:

english

File:

PDF, 1.90 MB

english, 2016

49

Structural Basis for Substrate Selectivity of the E3 Ligase COP1

Uljon, Sacha, Xu, Xiang, Durzynska, Izabela, Stein, Sarah, Adelmant, Guillaume, Marto, Jarrod A., Pear, Warren S., Blacklow, Stephen C.

Journal:

Year:

2016

Language:

english

File:

PDF, 2.75 MB

english, 2016

50

Bacterial cell wall biogenesis is mediated by SEDS and PBP polymerase families functioning semi-autonomously

Cho, Hongbaek, Wivagg, Carl N., Kapoor, Mrinal, Barry, Zachary, Rohs, Patricia D. A., Suh, Hyunsuk, Marto, Jarrod A., Garner, Ethan C., Bernhardt, Thomas G.

Journal:

Nature Microbiology

Year:

2016

Language:

english

File:

PDF, 1.70 MB

english, 2016