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First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study

The number of publications in the field of chemical cross-linking combined with mass spectrometry (XL-MS) to derive constraints for protein three-dimensional structure modeling and to probe protein–protein interactions has increased during the last years. As the technique is now becoming routine for...

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Autores principales: Iacobucci, Claudio, Piotrowski, Christine, Aebersold, Ruedi, Amaral, Bruno C., Andrews, Philip, Bernfur, Katja, Borchers, Christoph, Brodie, Nicolas I., Bruce, James E., Cao, Yong, Chaignepain, Stéphane, Chavez, Juan D., Claverol, Stéphane, Cox, Jürgen, Davis, Trisha, Degliesposti, Gianluca, Dong, Meng-Qiu, Edinger, Nufar, Emanuelsson, Cecilia, Gay, Marina, Götze, Michael, Gomes-Neto, Francisco, Gozzo, Fabio C., Gutierrez, Craig, Haupt, Caroline, Heck, Albert J. R., Herzog, Franz, Huang, Lan, Hoopmann, Michael R., Kalisman, Nir, Klykov, Oleg, Kukačka, Zdeněk, Liu, Fan, MacCoss, Michael J., Mechtler, Karl, Mesika, Ravit, Moritz, Robert L., Nagaraj, Nagarjuna, Nesati, Victor, Neves-Ferreira, Ana G. C., Ninnis, Robert, Novák, Petr, O’Reilly, Francis J., Pelzing, Matthias, Petrotchenko, Evgeniy, Piersimoni, Lolita, Plasencia, Manolo, Pukala, Tara, Rand, Kasper D., Rappsilber, Juri, Reichmann, Dana, Sailer, Carolin, Sarnowski, Chris P., Scheltema, Richard A., Schmidt, Carla, Schriemer, David C., Shi, Yi, Skehel, J. Mark, Slavin, Moriya, Sobott, Frank, Solis-Mezarino, Victor, Stephanowitz, Heike, Stengel, Florian, Stieger, Christian E., Trabjerg, Esben, Trnka, Michael, Vilaseca, Marta, Viner, Rosa, Xiang, Yufei, Yilmaz, Sule, Zelter, Alex, Ziemianowicz, Daniel, Leitner, Alexander, Sinz, Andrea
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6625963/
https://www.ncbi.nlm.nih.gov/pubmed/31045356
http://dx.doi.org/10.1021/acs.analchem.9b00658
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author Iacobucci, Claudio
Piotrowski, Christine
Aebersold, Ruedi
Amaral, Bruno C.
Andrews, Philip
Bernfur, Katja
Borchers, Christoph
Brodie, Nicolas I.
Bruce, James E.
Cao, Yong
Chaignepain, Stéphane
Chavez, Juan D.
Claverol, Stéphane
Cox, Jürgen
Davis, Trisha
Degliesposti, Gianluca
Dong, Meng-Qiu
Edinger, Nufar
Emanuelsson, Cecilia
Gay, Marina
Götze, Michael
Gomes-Neto, Francisco
Gozzo, Fabio C.
Gutierrez, Craig
Haupt, Caroline
Heck, Albert J. R.
Herzog, Franz
Huang, Lan
Hoopmann, Michael R.
Kalisman, Nir
Klykov, Oleg
Kukačka, Zdeněk
Liu, Fan
MacCoss, Michael J.
Mechtler, Karl
Mesika, Ravit
Moritz, Robert L.
Nagaraj, Nagarjuna
Nesati, Victor
Neves-Ferreira, Ana G. C.
Ninnis, Robert
Novák, Petr
O’Reilly, Francis J.
Pelzing, Matthias
Petrotchenko, Evgeniy
Piersimoni, Lolita
Plasencia, Manolo
Pukala, Tara
Rand, Kasper D.
Rappsilber, Juri
Reichmann, Dana
Sailer, Carolin
Sarnowski, Chris P.
Scheltema, Richard A.
Schmidt, Carla
Schriemer, David C.
Shi, Yi
Skehel, J. Mark
Slavin, Moriya
Sobott, Frank
Solis-Mezarino, Victor
Stephanowitz, Heike
Stengel, Florian
Stieger, Christian E.
Trabjerg, Esben
Trnka, Michael
Vilaseca, Marta
Viner, Rosa
Xiang, Yufei
Yilmaz, Sule
Zelter, Alex
Ziemianowicz, Daniel
Leitner, Alexander
Sinz, Andrea
author_facet Iacobucci, Claudio
Piotrowski, Christine
Aebersold, Ruedi
Amaral, Bruno C.
Andrews, Philip
Bernfur, Katja
Borchers, Christoph
Brodie, Nicolas I.
Bruce, James E.
Cao, Yong
Chaignepain, Stéphane
Chavez, Juan D.
Claverol, Stéphane
Cox, Jürgen
Davis, Trisha
Degliesposti, Gianluca
Dong, Meng-Qiu
Edinger, Nufar
Emanuelsson, Cecilia
Gay, Marina
Götze, Michael
Gomes-Neto, Francisco
Gozzo, Fabio C.
Gutierrez, Craig
Haupt, Caroline
Heck, Albert J. R.
Herzog, Franz
Huang, Lan
Hoopmann, Michael R.
Kalisman, Nir
Klykov, Oleg
Kukačka, Zdeněk
Liu, Fan
MacCoss, Michael J.
Mechtler, Karl
Mesika, Ravit
Moritz, Robert L.
Nagaraj, Nagarjuna
Nesati, Victor
Neves-Ferreira, Ana G. C.
Ninnis, Robert
Novák, Petr
O’Reilly, Francis J.
Pelzing, Matthias
Petrotchenko, Evgeniy
Piersimoni, Lolita
Plasencia, Manolo
Pukala, Tara
Rand, Kasper D.
Rappsilber, Juri
Reichmann, Dana
Sailer, Carolin
Sarnowski, Chris P.
Scheltema, Richard A.
Schmidt, Carla
Schriemer, David C.
Shi, Yi
Skehel, J. Mark
Slavin, Moriya
Sobott, Frank
Solis-Mezarino, Victor
Stephanowitz, Heike
Stengel, Florian
Stieger, Christian E.
Trabjerg, Esben
Trnka, Michael
Vilaseca, Marta
Viner, Rosa
Xiang, Yufei
Yilmaz, Sule
Zelter, Alex
Ziemianowicz, Daniel
Leitner, Alexander
Sinz, Andrea
author_sort Iacobucci, Claudio
collection PubMed
description The number of publications in the field of chemical cross-linking combined with mass spectrometry (XL-MS) to derive constraints for protein three-dimensional structure modeling and to probe protein–protein interactions has increased during the last years. As the technique is now becoming routine for in vitro and in vivo applications in proteomics and structural biology there is a pressing need to define protocols as well as data analysis and reporting formats. Such consensus formats should become accepted in the field and be shown to lead to reproducible results. This first, community-based harmonization study on XL-MS is based on the results of 32 groups participating worldwide. The aim of this paper is to summarize the status quo of XL-MS and to compare and evaluate existing cross-linking strategies. Our study therefore builds the framework for establishing best practice guidelines to conduct cross-linking experiments, perform data analysis, and define reporting formats with the ultimate goal of assisting scientists to generate accurate and reproducible XL-MS results.
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spelling pubmed-66259632019-07-12 First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study Iacobucci, Claudio Piotrowski, Christine Aebersold, Ruedi Amaral, Bruno C. Andrews, Philip Bernfur, Katja Borchers, Christoph Brodie, Nicolas I. Bruce, James E. Cao, Yong Chaignepain, Stéphane Chavez, Juan D. Claverol, Stéphane Cox, Jürgen Davis, Trisha Degliesposti, Gianluca Dong, Meng-Qiu Edinger, Nufar Emanuelsson, Cecilia Gay, Marina Götze, Michael Gomes-Neto, Francisco Gozzo, Fabio C. Gutierrez, Craig Haupt, Caroline Heck, Albert J. R. Herzog, Franz Huang, Lan Hoopmann, Michael R. Kalisman, Nir Klykov, Oleg Kukačka, Zdeněk Liu, Fan MacCoss, Michael J. Mechtler, Karl Mesika, Ravit Moritz, Robert L. Nagaraj, Nagarjuna Nesati, Victor Neves-Ferreira, Ana G. C. Ninnis, Robert Novák, Petr O’Reilly, Francis J. Pelzing, Matthias Petrotchenko, Evgeniy Piersimoni, Lolita Plasencia, Manolo Pukala, Tara Rand, Kasper D. Rappsilber, Juri Reichmann, Dana Sailer, Carolin Sarnowski, Chris P. Scheltema, Richard A. Schmidt, Carla Schriemer, David C. Shi, Yi Skehel, J. Mark Slavin, Moriya Sobott, Frank Solis-Mezarino, Victor Stephanowitz, Heike Stengel, Florian Stieger, Christian E. Trabjerg, Esben Trnka, Michael Vilaseca, Marta Viner, Rosa Xiang, Yufei Yilmaz, Sule Zelter, Alex Ziemianowicz, Daniel Leitner, Alexander Sinz, Andrea Anal Chem Article The number of publications in the field of chemical cross-linking combined with mass spectrometry (XL-MS) to derive constraints for protein three-dimensional structure modeling and to probe protein–protein interactions has increased during the last years. As the technique is now becoming routine for in vitro and in vivo applications in proteomics and structural biology there is a pressing need to define protocols as well as data analysis and reporting formats. Such consensus formats should become accepted in the field and be shown to lead to reproducible results. This first, community-based harmonization study on XL-MS is based on the results of 32 groups participating worldwide. The aim of this paper is to summarize the status quo of XL-MS and to compare and evaluate existing cross-linking strategies. Our study therefore builds the framework for establishing best practice guidelines to conduct cross-linking experiments, perform data analysis, and define reporting formats with the ultimate goal of assisting scientists to generate accurate and reproducible XL-MS results. 2019-06-04 2019-05-22 /pmc/articles/PMC6625963/ /pubmed/31045356 http://dx.doi.org/10.1021/acs.analchem.9b00658 Text en http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article published under an ACS AuthorChoice License (https://pubs.acs.org/page/policy/authorchoice_termsofuse.html) , which permits copying and redistribution of the article or any adaptations for non-commercial purposes. http://creativecommons.org/licenses/by-nc-nd/4.0/
spellingShingle Article
Iacobucci, Claudio
Piotrowski, Christine
Aebersold, Ruedi
Amaral, Bruno C.
Andrews, Philip
Bernfur, Katja
Borchers, Christoph
Brodie, Nicolas I.
Bruce, James E.
Cao, Yong
Chaignepain, Stéphane
Chavez, Juan D.
Claverol, Stéphane
Cox, Jürgen
Davis, Trisha
Degliesposti, Gianluca
Dong, Meng-Qiu
Edinger, Nufar
Emanuelsson, Cecilia
Gay, Marina
Götze, Michael
Gomes-Neto, Francisco
Gozzo, Fabio C.
Gutierrez, Craig
Haupt, Caroline
Heck, Albert J. R.
Herzog, Franz
Huang, Lan
Hoopmann, Michael R.
Kalisman, Nir
Klykov, Oleg
Kukačka, Zdeněk
Liu, Fan
MacCoss, Michael J.
Mechtler, Karl
Mesika, Ravit
Moritz, Robert L.
Nagaraj, Nagarjuna
Nesati, Victor
Neves-Ferreira, Ana G. C.
Ninnis, Robert
Novák, Petr
O’Reilly, Francis J.
Pelzing, Matthias
Petrotchenko, Evgeniy
Piersimoni, Lolita
Plasencia, Manolo
Pukala, Tara
Rand, Kasper D.
Rappsilber, Juri
Reichmann, Dana
Sailer, Carolin
Sarnowski, Chris P.
Scheltema, Richard A.
Schmidt, Carla
Schriemer, David C.
Shi, Yi
Skehel, J. Mark
Slavin, Moriya
Sobott, Frank
Solis-Mezarino, Victor
Stephanowitz, Heike
Stengel, Florian
Stieger, Christian E.
Trabjerg, Esben
Trnka, Michael
Vilaseca, Marta
Viner, Rosa
Xiang, Yufei
Yilmaz, Sule
Zelter, Alex
Ziemianowicz, Daniel
Leitner, Alexander
Sinz, Andrea
First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study
title First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study
title_full First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study
title_fullStr First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study
title_full_unstemmed First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study
title_short First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study
title_sort first community-wide, comparative cross-linking mass spectrometry study
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6625963/
https://www.ncbi.nlm.nih.gov/pubmed/31045356
http://dx.doi.org/10.1021/acs.analchem.9b00658
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