Bai J, Kamatchinathan S, Kundu DJ, Bandla C, Vizcaíno JA, Perez-Riverol Y.
Proteomics,
2024
doi:10.1002/pmic.202400005.
Bai J, Kamatchinathan S, Kundu DJ, Bandla C, Vizcaino JA, Riverol YP.
2024
doi:10.22541/au.171025539.92037103/v1.
Pfeuffer J, Bielow C, Wein S, Jeong K, Netz E, Walter A, Alka O, Nilse L, Colaianni PD, McCloskey D, Kim J, Rosenberger G, Bichmann L, Walzer M, Veit J, Boudaud B, Bernt M, Patikas N, Pilz M, Startek MP, Kutuzova S, Heumos L, Charkow J, Sing JC, Feroz A, Siraj A, Weisser H, Dijkstra TMH, Perez-Riverol Y, Röst H, Kohlbacher O, Sachsenberg T.
Nat Methods,
2024
doi:10.1038/s41592-024-02197-7.
Webel H, Perez-Riverol Y, Nielsen AB, Rasmussen S.
Sci Data,
2024
doi:10.1038/s41597-024-02922-z.
Thakur M, Buniello A, Brooksbank C, Gurwitz KT, Hall M, Hartley M, Hulcoop DG, Leach AR, Marques D, Martin M, Mithani A, McDonagh EM, Mutasa-Gottgens E, Ochoa D, Perez-Riverol Y, Stephenson J, Varadi M, Velankar S, Vizcaino JA, Witham R, McEntyre J.
Nucleic Acids Res,
2024
doi:10.1093/nar/gkad1088.
Audain E, Wilsdon A, Dombrowsky G, Sifrim A, Breckpot J, Perez-Riverol Y, Loughna S, Daly A, Antoniou P, Hofmann P, Perez-Riverol A, Kahlert A, Bauer U, Pickardt T, Klaassen S, Berger F, Daehnert I, Dittrich S, Stiller B, Abdul-Khaliq H, Bu’lock F, Uebing A, Kramer H, Iyer V, Larsen LA, Brook JD, Hitz M.
2023
doi:10.1101/2023.12.23.23300495.
Camacho OJM, Ramsbottom KA, Prakash A, Sun Z, Riverol YP, Bowler-Barnett E, Martin M, Fan J, Deutsch EW, Vizcaíno JA, Jones AR.
2023
doi:10.1101/2023.11.20.567785.
Jagtap PD, Hoopmann MR, Neely BA, Harvey A, Käll L, Perez-Riverol Y, Abajorga MK, Thomas JA, Weintraub ST, Palmblad M.
J Biomol Tech,
2023
doi:10.7171/3fc1f5fe.a058bad4.
Webel H, Perez-Riverol Y, Nielson AB, Rasmussen S.
2023
doi:10.21203/rs.3.rs-3083547/v2.
Claeys T, Van Den Bossche T, Perez-Riverol Y, Gevaert K, Vizcaíno JA, Martens L.
Nat Commun,
2023
doi:10.1038/s41467-023-42543-5.
Sachsenberg T, Pfeuffer J, Bielow C, Wein S, Jeong K, Netz E, Walter A, Alka O, Nilse L, Colaianni P, McCloskey D, Kim J, Rosenberger G, Bichmann L, Walzer M, Veit J, Boudaud B, Bernt M, Patikas N, Pilz M, Startek MP, Kutuzova S, Heumos L, Charkow J, Sing J, Feroz A, Siraj A, Weisser H, Dijkstra T, Perez-Riverol Y, Röst H, Kohlbacher O.
2023
doi:10.21203/rs.3.rs-3286368/v1.
Wang H, Dai C, Pfeuffer J, Sachsenberg T, Sanchez A, Bai M, Perez-Riverol Y.
Proteomics,
2023
doi:10.1002/pmic.202300188.
Dai C, Pfeuffer J, Wang H, Sachsenberg T, Demichev V, Kohlbacher O, Perez-Riverol Y.
2023
doi:10.21203/rs.3.rs-3002027/v1.
Claeys T, Bossche TVD, Perez-Riverol Y, Gevaert K, Vizcaino JA, Martens L.
2023
doi:10.21203/rs.3.rs-2937726/v1.
Bai M, Deng J, Dai C, Pfeuffer J, Sachsenberg T, Perez-Riverol Y.
J Proteome Res,
2023
doi:10.1021/acs.jproteome.2c00812.
Wang H, Dai C, Pfeuffer J, Sachsenberg T, Sanchez A, Bai M, Riverol YP.
2023
doi:10.22541/au.168174437.77664121/v1.
Rehfeldt TG, Gabriels R, Bouwmeester R, Gessulat S, Neely BA, Palmblad M, Perez-Riverol Y, Schmidt T, Vizcaíno JA, Deutsch EW.
J Proteome Res,
2023
doi:10.1021/acs.jproteome.2c00629.
Deutsch EW, Vizcaíno JA, Jones AR, Binz PA, Lam H, Klein J, Bittremieux W, Perez-Riverol Y, Tabb DL, Walzer M, Ricard-Blum S, Hermjakob H, Neumann S, Mak TD, Kawano S, Mendoza L, Van Den Bossche T, Gabriels R, Bandeira N, Carver J, Pullman B, Sun Z, Hoffmann N, Shofstahl J, Zhu Y, Licata L, Quaglia F, Tosatto SCE, Orchard SE.
J Proteome Res,
2023
doi:10.1021/acs.jproteome.2c00637.
Deutsch EW, Bandeira N, Perez-Riverol Y, Sharma V, Carver JJ, Mendoza L, Kundu DJ, Wang S, Bandla C, Kamatchinathan S, Hewapathirana S, Pullman BS, Wertz J, Sun Z, Kawano S, Okuda S, Watanabe Y, MacLean B, MacCoss MJ, Zhu Y, Ishihama Y, Vizcaíno JA.
Nucleic Acids Res,
2023
doi:10.1093/nar/gkac1040.
Perez-Riverol Y.
Expert Rev Proteomics,
2022
doi:10.1080/14789450.2022.2160324.
Ramsbottom KA, Prakash A, Riverol YP, Camacho OM, Martin MJ, Vizcaíno JA, Deutsch EW, Jones AR.
J Proteome Res,
2022
doi:10.1021/acs.jproteome.1c00827.
Luo X, Bittremieux W, Griss J, Deutsch EW, Sachsenberg T, Levitsky LI, Ivanov MV, Bubis JA, Gabriels R, Webel H, Sanchez A, Bai M, Käll L, Perez-Riverol Y.
J Proteome Res,
2022
doi:10.1021/acs.jproteome.2c00069.
Van Puyvelde B, Daled S, Willems S, Gabriels R, Gonzalez de Peredo A, Chaoui K, Mouton-Barbosa E, Bouyssié D, Boonen K, Hughes CJ, Gethings LA, Perez-Riverol Y, Bloomfield N, Tate S, Schiltz O, Martens L, Deforce D, Dhaenens M.
Sci Data,
2022
doi:10.1038/s41597-022-01216-6.
LeDuc RD, Deutsch EW, Binz PA, Fellers RT, Cesnik AJ, Klein JA, Van Den Bossche T, Gabriels R, Yalavarthi A, Perez-Riverol Y, Carver J, Bittremieux W, Kawano S, Pullman B, Bandeira N, Kelleher NL, Thomas PM, Vizcaíno JA.
J Proteome Res,
2022
doi:10.1021/acs.jproteome.1c00771.
Luo X, Bittremieux W, Griss J, Deutsch EW, Sachsenberg T, Levitsky LI, Ivanov MV, Bubis JA, Gabriels R, Webel H, Sanchez A, Bai M, Kall L, Perez-Riverol Y.
2022
doi:10.1101/2022.01.25.477699.
Umer HM, Audain E, Zhu Y, Pfeuffer J, Sachsenberg T, Lehtiö J, Branca RM, Perez-Riverol Y.
Bioinformatics,
2022
doi:10.1093/bioinformatics/btab838.
Perez-Riverol Y, Bai J, Bandla C, García-Seisdedos D, Hewapathirana S, Kamatchinathan S, Kundu DJ, Prakash A, Frericks-Zipper A, Eisenacher M, Walzer M, Wang S, Brazma A, Vizcaíno JA.
Nucleic Acids Res,
2022
doi:10.1093/nar/gkab1038.
Almeida N, Rodriguez J, Pla Parada I, Perez-Riverol Y, Woldmar N, Kim Y, Oskolas H, Betancourt L, Valdés JG, Sahlin KB, Pizzatti L, Szasz AM, Kárpáti S, Appelqvist R, Malm J, B Domont G, C S Nogueira F, Marko-Varga G, Sanchez A.
Cancers (Basel),
2021
doi:10.3390/cancers13246224.
Van Puyvelde B, Daled S, Willems S, Gabriels R, de Peredo AG, Chaoui K, Mouton-Barbosa E, Bouyssié D, Boonen K, Hughes CJ, Gethings LA, Perez-Riverol Y, Bloomfield N, Tate S, Schiltz O, Martens L, Deforce D, Dhaenens M.
2021
doi:10.1101/2021.11.24.469852.
Ramsbottom KA, Prakash A, Riverol YP, Camacho OM, Martin M, Vizcaíno JA, Deutsch EW, Jones AR.
2021
doi:10.1101/2021.10.18.464791.
Dai C, Füllgrabe A, Pfeuffer J, Solovyeva EM, Deng J, Moreno P, Kamatchinathan S, Kundu DJ, George N, Fexova S, Grüning B, Föll MC, Griss J, Vaudel M, Audain E, Locard-Paulet M, Turewicz M, Eisenacher M, Uszkoreit J, Van Den Bossche T, Schwämmle V, Webel H, Schulze S, Bouyssié D, Jayaram S, Duggineni VK, Samaras P, Wilhelm M, Choi M, Wang M, Kohlbacher O, Brazma A, Papatheodorou I, Bandeira N, Deutsch EW, Vizcaíno JA, Bai M, Sachsenberg T, Levitsky LI, Perez-Riverol Y.
Nat Commun,
2021
doi:10.1038/s41467-021-26111-3.
Audain E, Wilsdon A, Breckpot J, Izarzugaza JMG, Fitzgerald TW, Kahlert AK, Sifrim A, Wünnemann F, Perez-Riverol Y, Abdul-Khaliq H, Bak M, Bassett AS, Benson DW, Berger F, Daehnert I, Devriendt K, Dittrich S, Daubeney PE, Garg V, Hackmann K, Hoff K, Hofmann P, Dombrowsky G, Pickardt T, Bauer U, Keavney BD, Klaassen S, Kramer HH, Marshall CR, Milewicz DM, Lemaire S, Coselli JS, Mitchell ME, Tomita-Mitchell A, Prakash SK, Stamm K, Stewart AFR, Silversides CK, Siebert R, Stiller B, Rosenfeld JA, Vater I, Postma AV, Caliebe A, Brook JD, Andelfinger G, Hurles ME, Thienpont B, Larsen LA, Hitz MP.
PLoS Genet,
2021
doi:10.1371/journal.pgen.1009809.
Audain E, Wilsdon A, Breckpot J, Izarzugaza JMG, Fitzgerald TW, Kahlert AK, Sifrim A, Wünnemann F, Perez-Riverol Y, Abdul-Khaliq H, Bak M, Bassett AS, Benson DW, Berger F, Daehnert I, Devriendt K, Dittrich S, Daubeney PE, Garg V, Hackmann K, Hoff K, Hofmann P, Dombrowsky G, Pickardt T, Bauer U, Keavney BD, Klaassen S, Kramer HH, Marshall CR, Milewicz DM, Lemaire S, Coselli JS, Mitchell ME, Tomita-Mitchell A, Prakash SK, Stamm K, Stewart AFR, Silversides CK, Siebert R, Stiller B, Rosenfeld JA, Vater I, Postma AV, Caliebe A, Brook JD, Andelfinger G, Hurles ME, Thienpont B, Larsen LA, Hitz MP.
PLoS Genet,
2021
doi:10.1371/journal.pgen.1009679.
Sinitcyn P, Hamzeiy H, Salinas Soto F, Itzhak D, McCarthy F, Wichmann C, Steger M, Ohmayer U, Distler U, Kaspar-Schoenefeld S, Prianichnikov N, Yılmaz Ş, Rudolph JD, Tenzer S, Perez-Riverol Y, Nagaraj N, Humphrey SJ, Cox J.
Nat Biotechnol,
2021
doi:10.1038/s41587-021-00968-7.
Deutsch EW, Perez-Riverol Y, Carver J, Kawano S, Mendoza L, Van Den Bossche T, Gabriels R, Binz PA, Pullman B, Sun Z, Shofstahl J, Bittremieux W, Mak TD, Klein J, Zhu Y, Lam H, Vizcaíno JA, Bandeira N.
Nat Methods,
2021
doi:10.1038/s41592-021-01184-6.
Umer HM, Zhu Y, Pfeuffer J, Sachsenberg T, Lehtiö J, Branca R, Perez-Riverol Y.
2021
doi:10.1101/2021.06.08.447496.
Dai C, Füllgrabe A, Pfeuffer J, Solovyeva E, Deng J, Moreno P, Kamatchinathan S, Kundu DJ, George N, Fexova S, Grüning B, Föll MC, Griss J, Vaudel M, Audain E, Locard-Paulet M, Turewicz M, Eisenacher M, Uszkoreit J, Van Den Bossche T, Schwämmle V, Webel H, Schulze S, Bouyssié D, Jayaram S, Duggineni VK, Samaras P, Wilhelm M, Choi M, Wang M, Kohlbacher O, Brazma A, Papatheodorou I, Bandeira N, Deutsch EW, Vizcaíno JA, Bai M, Sachsenberg T, Levitsky L, Perez-Riverol Y.
2021
doi:10.1101/2021.05.21.445143.
Schmidt T, Samaras P, Dorfer V, Panse C, Kockmann T, Bichmann L, van Puyvelde B, Perez-Riverol Y, Deutsch EW, Kuster B, Wilhelm M.
J Proteome Res,
2021
doi:10.1021/acs.jproteome.1c00096.
Jarnuczak AF, Najgebauer H, Barzine M, Kundu DJ, Ghavidel F, Perez-Riverol Y, Papatheodorou I, Brazma A, Vizcaíno JA.
Sci Data,
2021
doi:10.1038/s41597-021-00890-2.
Bittremieux W, Bouyssié D, Dorfer V, Locard-Paulet M, Perez-Riverol Y, Schwämmle V, Uszkoreit J, Van Den Bossche T.
Rapid Commun Mass Spectrom,
2021
doi:10.1002/rcm.9087.
Moreno P, Huang N, Manning JR, Mohammed S, Solovyev A, Polanski K, Bacon W, Chazarra R, Talavera-López C, Doyle MA, Marnier G, Grüning B, Rasche H, George N, Fexova SK, Alibi M, Miao Z, Perez-Riverol Y, Haeussler M, Brazma A, Teichmann S, Meyer KB, Papatheodorou I.
Nat Methods,
2021
doi:10.1038/s41592-021-01102-w.
Bai J, Bandla C, Guo J, Vera Alvarez R, Bai M, Vizcaíno JA, Moreno P, Grüning B, Sallou O, Perez-Riverol Y.
J Proteome Res,
2021
doi:10.1021/acs.jproteome.0c00904.
Qin C, Luo X, Deng C, Shu K, Zhu W, Griss J, Hermjakob H, Bai M, Perez-Riverol Y.
J Proteomics,
2021
doi:10.1016/j.jprot.2020.104070.
Deutsch EW, Perez-Riverol Y, Carver J, Kawano S, Mendoza L, Van Den Bossche T, Gabriels R, Binz P, Pullman B, Sun Z, Shofstahl J, Bittremieux W, Mak TD, Klein J, Zhu Y, Lam H, Vizcaíno JA, Bandeira N.
2020
doi:10.1101/2020.12.07.415539.
Choi M, Carver J, Chiva C, Tzouros M, Huang T, Tsai TH, Pullman B, Bernhardt OM, Hüttenhain R, Teo GC, Perez-Riverol Y, Muntel J, Müller M, Goetze S, Pavlou M, Verschueren E, Wollscheid B, Nesvizhskii AI, Reiter L, Dunkley T, Sabidó E, Bandeira N, Vitek O.
Nat Methods,
2020
doi:10.1038/s41592-020-0955-0.
Schmidt T, Samaras P, Dorfer V, Panse C, Kockmann T, Bichmann L, van Puyvelde B, Perez-Riverol Y, Deutsch EW, Kuster B, Wilhelm M.
2020
doi:10.1101/2020.09.08.287557.
Perez-Riverol Y, European Bioinformatics Community for Mass Spectrometry.
J Proteome Res,
2020
doi:10.1021/acs.jproteome.0c00376.
Bai J, Bandla C, Guo J, Alvarez RV, Vizcaíno JA, Bai M, Moreno P, Grüning BA, Sallou O, Perez-Riverol Y.
2020
doi:10.1101/2020.07.21.187609.
Audain E, Wilsdon A, Breckpot J, Izarzugaza J, Fitzgerald T, Kahlert A, Sifrim A, Wünnemann F, Perez-Riverol Y, Abdul-Khaliq H, Bak M, Bassett A, Belmont J, Benson D, Berger F, Daehnert I, Devriendt K, Dittrich S, Daubeney P, Garg V, Hackmann K, Hoff K, Hofmann P, Dombrowsky G, Pickardt T, Bauer U, Keavney B, Klaassen S, Kramer H, Marshall C, Milewicz D, Lemaire S, Coselli J, Mitchell M, Tomita-Mitchell A, Prakash S, Stamm K, Stewart A, Silversides C, Siebert R, Stiller B, Rosenfeld J, Vater I, Postma A, Caliebe A, Brook J, Andelfinger G, Hurles M, Thienpont B, Larsen L, Hitz M.
2020
doi:10.1101/2020.06.25.169573.
Dass G, Vu MT, Xu P, Audain E, Hitz MP, Grüning BA, Hermjakob H, Perez-Riverol Y.
Nucleic Acids Res,
2020
doi:10.1093/nar/gkaa326.
Moreno P, Huang N, Manning J, Mohammed S, Solovyev A, Polanski K, Chazarra R, Talavera-Lopez C, Doyle M, Marnier G, Grüning B, Rasche H, Bacon W, Perez-Riverol Y, Haeussler M, Meyer K, Teichmann S, Papatheodorou I.
2020
doi:10.1101/2020.04.08.032698.
Dass G, Vu M, Xu P, Audain E, Hitz M, Hermjakob H, Perez-Riverol Y.
2020
doi:10.1101/2020.02.10.939967.
Hulstaert N, Shofstahl J, Sachsenberg T, Walzer M, Barsnes H, Martens L, Perez-Riverol Y.
J Proteome Res,
2020
doi:10.1021/acs.jproteome.9b00328.
Deutsch EW, Bandeira N, Sharma V, Perez-Riverol Y, Carver JJ, Kundu DJ, García-Seisdedos D, Jarnuczak AF, Hewapathirana S, Pullman BS, Wertz J, Sun Z, Kawano S, Okuda S, Watanabe Y, Hermjakob H, MacLean B, MacCoss MJ, Zhu Y, Ishihama Y, Vizcaíno JA.
Nucleic Acids Res,
2020
doi:10.1093/nar/gkz984.
Perez-Riverol Y, Moreno P.
Proteomics,
2020
doi:10.1002/pmic.201900147.
Sanchez A, Kuras M, Murillo JR, Pla I, Pawlowski K, Szasz AM, Gil J, Nogueira FCS, Perez-Riverol Y, Eriksson J, Appelqvist R, Miliotis T, Kim Y, Baldetorp B, Ingvar C, Olsson H, Lundgren L, Ekedahl H, Horvatovich P, Sugihara Y, Welinder C, Wieslander E, Kwon HJ, Domont GB, Malm J, Rezeli M, Betancourt LH, Marko-Varga G.
Cell Biol Toxicol,
2020
doi:10.1007/s10565-019-09494-4.
Bai M, Qin C, Shu K, Griss J, Perez-Riverol Y, Zhu W, Hermjakob H.
2019
doi:10.1101/846303.
Ramos Y, González A, Sosa-Acosta P, Perez-Riverol Y, García Y, Castellanos-Serra L, Gil J, Sánchez A, González LJ, Besada V.
J Sep Sci,
2019
doi:10.1002/jssc.201900495.
Katayama T, Kawashima S, Micklem G, Kawano S, Kim J, Kocbek S, Okamoto S, Wang Y, Wu H, Yamaguchi A, Yamamoto Y, Antezana E, Aoki-Kinoshita KF, Arakawa K, Banno M, Baran J, Bolleman JT, Bonnal RJP, Bono H, Fernández-Breis JT, Buels R, Campbell MP, Chiba H, Cock PJA, Cohen KB, Dumontier M, Fujisawa T, Fujiwara T, Garcia L, Gaudet P, Hattori E, Hoehndorf R, Itaya K, Ito M, Jamieson D, Jupp S, Juty N, Kalderimis A, Kato F, Kawaji H, Kawashima T, Kinjo AR, Komiyama Y, Kotera M, Kushida T, Malone J, Matsubara M, Mizuno S, Mizutani S, Mori H, Moriya Y, Murakami K, Nakazato T, Nishide H, Nishimura Y, Ogishima S, Ohta T, Okuda S, Ono H, Perez-Riverol Y, Shinmachi D, Splendiani A, Strozzi F, Suzuki S, Takehara J, Thompson M, Tokimatsu T, Uchiyama I, Verspoor K, Wilkinson MD, Wimalaratne S, Yamada I, Yamamoto N, Yarimizu M, Kawamoto S, Takagi T.
2019
doi:10.12688/f1000research.18238.1.
Perez-Riverol Y, Zorin A, Dass G, Vu MT, Xu P, Glont M, Vizcaíno JA, Jarnuczak AF, Petryszak R, Ping P, Hermjakob H.
Nat Commun,
2019
doi:10.1038/s41467-019-11461-w.
PLOS Computational Biology Staff.
PLoS Comput Biol,
2019
doi:10.1371/journal.pcbi.1007142.
Jarnuczak AF, Najgebauer H, Barzine M, Kundu DJ, Ghavidel F, Perez-Riverol Y, Papatheodorou I, Brazma A, Vizcaíno JA.
2019
doi:10.1101/665968.
Binz PA, Shofstahl J, Vizcaíno JA, Barsnes H, Chalkley RJ, Menschaert G, Alpi E, Clauser K, Eng JK, Lane L, Seymour SL, Sánchez LFH, Mayer G, Eisenacher M, Perez-Riverol Y, Kapp EA, Mendoza L, Baker PR, Collins A, Van Den Bossche T, Deutsch EW.
J Proteome Res,
2019
doi:10.1021/acs.jproteome.9b00064.
Binz P, Shofstahl J, Vizcaíno JA, Barsnes H, Chalkley RJ, Menschaert G, Alpi E, Clauser K, Eng JK, Lane L, Seymour SL, Sánchez LFH, Mayer G, Eisenacher M, Perez-Riverol Y, Kapp EA, Mendoza L, Baker PR, Collins A, Van Den Bossche T, Deutsch EW.
2019
doi:10.1101/624494.
Hulstaert N, Sachsenberg T, Walzer M, Barsnes H, Martens L, Perez-Riverol Y.
2019
doi:10.1101/622852.
Perez-Riverol Y, Moreno P.
2019
doi:10.1101/604413.
Gruening B, Sallou O, Moreno P, da Veiga Leprevost F, Ménager H, Søndergaard D, Röst H, Sachsenberg T, O'Connor B, Madeira F, Dominguez Del Angel V, Crusoe MR, Varma S, Blankenberg D, Jimenez RC, Perez-Riverol Y, BioContainers Community.
2019
doi:10.12688/f1000research.15140.2.
Griss J, Stanek F, Hudecz O, Dürnberger G, Perez-Riverol Y, Vizcaíno JA, Mechtler K.
J Proteome Res,
2019
doi:10.1021/acs.jproteome.8b00377.
Hoffmann N, Rein J, Sachsenberg T, Hartler J, Haug K, Mayer G, Alka O, Dayalan S, Pearce JTM, Rocca-Serra P, Qi D, Eisenacher M, Perez-Riverol Y, Vizcaíno JA, Salek RM, Neumann S, Jones AR.
Anal Chem,
2019
doi:10.1021/acs.analchem.8b04310.
Uszkoreit J, Perez-Riverol Y, Eggers B, Marcus K, Eisenacher M.
J Proteome Res,
2019
doi:10.1021/acs.jproteome.8b00723.
Perez-Riverol Y, Csordas A, Bai J, Bernal-Llinares M, Hewapathirana S, Kundu DJ, Inuganti A, Griss J, Mayer G, Eisenacher M, Pérez E, Uszkoreit J, Pfeuffer J, Sachsenberg T, Yilmaz S, Tiwary S, Cox J, Audain E, Walzer M, Jarnuczak AF, Ternent T, Brazma A, Vizcaíno JA.
Nucleic Acids Res,
2019
doi:10.1093/nar/gky1106.
Ramos Y, Huerta V, Martín D, Palomares S, Yero A, Pupo D, Gallien S, Martín AM, Pérez-Riverol Y, Sarría M, Guirola O, Chinea G, Domon B, González LJ.
J Proteomics,
2019
doi:10.1016/j.jprot.2017.07.004.
Gruening B, Sallou O, Moreno P, da Veiga Leprevost F, Ménager H, Søndergaard D, Röst H, Sachsenberg T, O'Connor B, Madeira F, Dominguez Del Angel V, Crusoe MR, Varma S, Blankenberg D, Jimenez RC, BioContainers Community, Perez-Riverol Y.
F1000Res,
2018
doi:10.12688/f1000research.15140.2.
Moreno P, Pireddu L, Roger P, Goonasekera N, Afgan E, van den Beek M, He S, Larsson A, Schober D, Ruttkies C, Johnson D, Rocca-Serra P, Weber RJ, Gruening B, Salek RM, Kale N, Perez-Riverol Y, Papatheodorou I, Spjuth O, Neumann S.
2018
doi:10.1101/488643.
Deutsch EW, Perez-Riverol Y, Chalkley RJ, Wilhelm M, Tate S, Sachsenberg T, Walzer M, Käll L, Delanghe B, Böcker S, Schymanski EL, Wilmes P, Dorfer V, Kuster B, Volders PJ, Jehmlich N, Vissers JPC, Wolan DW, Wang AY, Mendoza L, Shofstahl J, Dowsey AW, Griss J, Salek RM, Neumann S, Binz PA, Lam H, Vizcaíno JA, Bandeira N, Röst H.
J Proteome Res,
2018
doi:10.1021/acs.jproteome.8b00485.
Uszkoreit J, Perez-Riverol Y, Eggers B, Marcus K, Eisenacher M.
2018
doi:10.1101/424473.
Murillo JR, Pla I, Goto-Silva L, Nogueira FCS, Domont GB, Perez-Riverol Y, Sánchez A, Junqueira M.
Anal Biochem,
2018
doi:10.1016/j.ab.2018.08.013.
Perez-Riverol Y, Zorin A, Dass G, Glont M, Vizcaíno JA, Jarnuczak AF, Petryszak R, Ping P, Hermjakob H.
2018
doi:10.1101/282517.
Lee JY, Choi H, Colangelo CM, Davis D, Hoopmann MR, Käll L, Lam H, Payne SH, Perez-Riverol Y, The M, Wilson R, Weintraub ST, Palmblad M.
J Biomol Tech,
2018
doi:10.7171/jbt.18-2902-003.
Grüning B, Dale R, Sjödin A, Chapman BA, Rowe J, Tomkins-Tinch CH, Valieris R, Köster J, Bioconda Team.
Nat Methods,
2018
doi:10.1038/s41592-018-0046-7.
Perez-Riverol Y, Vizcaíno JA, Griss J.
Proteomics,
2018
doi:10.1002/pmic.201700454.
Griss J, Perez-Riverol Y, The M, Käll L, Vizcaíno JA.
J Proteome Res,
2018
doi:10.1021/acs.jproteome.7b00824.
The M, Edfors F, Perez-Riverol Y, Payne SH, Hoopmann MR, Palmblad M, Forsström B, Käll L.
J Proteome Res,
2018
doi:10.1021/acs.jproteome.7b00899.
Grüning B, Dale R, Sjödin A, Chapman BA, Rowe J, Tomkins-Tinch CH, Valieris R, Caprez A, Batut B, Haudgaard M, Cokelaer T, Beauchamp KA, Pedersen BS, Hoogstrate Y, Bretaudeau A, Ryan D, Corguillé GL, Yusuf D, Luna-Valero S, Kirchner R, Brinda K, Wollmann T, Raden M, Heeringen SJv, Soranzo N, Pantano L, Charlop-Powers Z, Unneberg P, Smet MD, Martin M, Kuster GV, Antao T, Miladi M, Thornton K, Brueffer C, Beek Mvd, Maticzka D, Blank C, Will S, Gravouil K, Wolff J, Holtgrewe M, Fallmann J, Piro VC, Shlyakhter I, Yousif A, Mabon P, Zhang X, Shen W, Cabral J, Thomas C, Enns E, Brown J, Boekel J, Hollander Md, Kelleher J, Turaga N, Ruiter JRd, Bouvier D, Gladman S, Choudhary S, Harding N, Eggenhofer F, Kratz A, Fang Z, Kleinkauf R, Timm H, Cock PJA, Seiler E, Brislawn C, Nguyen H, Stovner EB, Ewels P, Chambers M, Johnson JE, Hägglund E, Ye S, Guimera RV, Pruesse E, Dunn WA, Parsons L, Patro R, Koppstein D, Grassi E, Wohlers I, Reynolds A, Cornwell M, Stoler N, Blankenberg D, He G, Bargull M, Junge A, Farouni R, Freeberg M, Singh S, Bogema DR, Cumbo F, Wang L, Larson DE, Workentine ML, Devisetty UK, Laurent S, Roger P, Garnier X, Agren R, Khan A, Eppley JM, Li W, Stöcker BK, Rausch T, Taylor J, Wright PR, Taranto AP, Chicco D, Sennblad B, Baaijens JA, Gopez M, Abdennur N, Milne I, Preussner J, Pinello L, Srivastava A, Chande AT, Kensche PR, Pirola Y, Knudsen M, Bruijn Id, Blin K, Gonnella G, Enache OM, Rai V, Waters NR, Hiltemann S, Bendall ML, Stahl C, Miles A, Boursin Y, Perez-Riverol Y, Schmeier S, Clarke E, Arvai K, Jung M, Domenico TD, Seiler J, Rasche E, Kornobis E, Beisser D, Rahmann S, Mikheyev AS, Tran C, Capellades J, Schröder C, Salatino AE, Dirmeier S, Webster TH, Moskalenko O, Stephen G, Köster J.
2017
doi:10.1101/207092.
The M, Edfors F, Perez-Riverol Y, Payne SH, Hoopmann MR, Palmblad M, Forsström B, Käll L.
2017
doi:10.1101/236471.
Perez-Riverol Y, Kuhn M, Vizcaíno JA, Hitz MP, Audain E.
PLoS One,
2017
doi:10.1371/journal.pone.0189875.
Guruceaga E, Garin-Muga A, Prieto G, Bejarano B, Marcilla M, Marín-Vicente C, Perez-Riverol Y, Casal JI, Vizcaíno JA, Corrales FJ, Segura V.
J Proteome Res,
2017
doi:10.1021/acs.jproteome.7b00388.
Deutsch EW, Orchard S, Binz PA, Bittremieux W, Eisenacher M, Hermjakob H, Kawano S, Lam H, Mayer G, Menschaert G, Perez-Riverol Y, Salek RM, Tabb DL, Tenzer S, Vizcaíno JA, Walzer M, Jones AR.
J Proteome Res,
2017
doi:10.1021/acs.jproteome.7b00370.
Perez-Riverol Y, Ternent T, Koch M, Barsnes H, Vrousgou O, Jupp S, Vizcaíno JA.
Proteomics,
2017
doi:10.1002/pmic.201700244.
Jiménez RC, Kuzak M, Alhamdoosh M, Barker M, Batut B, Borg M, Capella-Gutierrez S, Chue Hong N, Cook M, Corpas M, Flannery M, Garcia L, Gelpí JL, Gladman S, Goble C, González Ferreiro M, Gonzalez-Beltran A, Griffin PC, Grüning B, Hagberg J, Holub P, Hooft R, Ison J, Katz DS, Leskošek B, López Gómez F, Oliveira LJ, Mellor D, Mosbergen R, Mulder N, Perez-Riverol Y, Pergl R, Pichler H, Pope B, Sanz F, Schneider MV, Stodden V, Suchecki R, Svobodová Vařeková R, Talvik HA, Todorov I, Treloar A, Tyagi S, van Gompel M, Vaughan D, Via A, Wang X, Watson-Haigh NS, Crouch S.
F1000Res,
2017
doi:10.12688/f1000research.11407.1.
Perez-Riverol Y, Kun M, Vizcaíno JA, Hitz M, Audain E.
2017
doi:10.1101/144162.
Vizcaíno JA, Mayer G, Perkins S, Barsnes H, Vaudel M, Perez-Riverol Y, Ternent T, Uszkoreit J, Eisenacher M, Fischer L, Rappsilber J, Netz E, Walzer M, Kohlbacher O, Leitner A, Chalkley RJ, Ghali F, Martínez-Bartolomé S, Deutsch EW, Jones AR.
Mol Cell Proteomics,
2017
doi:10.1074/mcp.m117.068429.
Perez-Riverol Y, Bai M, da Veiga Leprevost F, Squizzato S, Park YM, Haug K, Carroll AJ, Spalding D, Paschall J, Wang M, Del-Toro N, Ternent T, Zhang P, Buso N, Bandeira N, Deutsch EW, Campbell DS, Beavis RC, Salek RM, Sarkans U, Petryszak R, Keays M, Fahy E, Sud M, Subramaniam S, Barbera A, Jiménez RC, Nesvizhskii AI, Sansone SA, Steinbeck C, Lopez R, Vizcaíno JA, Ping P, Hermjakob H.
Nat Biotechnol,
2017
doi:10.1038/nbt.3790.
da Veiga Leprevost F, Grüning BA, Alves Aflitos S, Röst HL, Uszkoreit J, Barsnes H, Vaudel M, Moreno P, Gatto L, Weber J, Bai M, Jimenez RC, Sachsenberg T, Pfeuffer J, Vera Alvarez R, Griss J, Nesvizhskii AI, Perez-Riverol Y.
Bioinformatics,
2017
doi:10.1093/bioinformatics/btx192.
Perez-Riverol Y, Vizcaíno JA.
Nat Methods,
2017
doi:10.1038/nmeth.4191.
Deutsch EW, Csordas A, Sun Z, Jarnuczak A, Perez-Riverol Y, Ternent T, Campbell DS, Bernal-Llinares M, Okuda S, Kawano S, Moritz RL, Carver JJ, Wang M, Ishihama Y, Bandeira N, Hermjakob H, Vizcaíno JA.
Nucleic Acids Res,
2017
doi:10.1093/nar/gkw936.
Audain E, Uszkoreit J, Sachsenberg T, Pfeuffer J, Liang X, Hermjakob H, Sanchez A, Eisenacher M, Reinert K, Tabb DL, Kohlbacher O, Perez-Riverol Y.
J Proteomics,
2017
doi:10.1016/j.jprot.2016.08.002.
Perez-Riverol Y, Gatto L, Wang R, Sachsenberg T, Uszkoreit J, Veiga Leprevost Fd, Fufezan C, Ternent T, Eglen SJ, Katz DS, Pollard TJ, Konovalov A, Flight RM, Blin K, Vizcaino JA.
2016
doi:10.1101/048744.
Perez-Riverol Y, Bai M, Leprevost F, Squizzato S, Park YM, et al.
2016
doi:10.1101/049205.
Navarro P, Kuharev J, Gillet LC, Bernhardt OM, MacLean B, Röst HL, Tate SA, Tsou CC, Reiter L, Distler U, Rosenberger G, Perez-Riverol Y, Nesvizhskii AI, Aebersold R, Tenzer S.
Nat Biotechnol,
2016
doi:10.1038/nbt.3685.
Vizcaíno JA, Csordas A, Del-Toro N, Dianes JA, Griss J, Lavidas I, Mayer G, Perez-Riverol Y, Reisinger F, Ternent T, Xu QW, Wang R, Hermjakob H.
Nucleic Acids Res,
2016
doi:10.1093/nar/gkw880.
Griss J, Perez-Riverol Y, Lewis S, Tabb DL, Dianes JA, Del-Toro N, Rurik M, Walzer MW, Kohlbacher O, Hermjakob H, Wang R, Vizcaíno JA.
Nat Methods,
2016
doi:10.1038/nmeth.3902.
Perez-Riverol Y, Gatto L, Wang R, Sachsenberg T, Uszkoreit J, Leprevost Fda V, Fufezan C, Ternent T, Eglen SJ, Katz DS, Pollard TJ, Konovalov A, Flight RM, Blin K, Vizcaíno JA.
PLoS Comput Biol,
2016
doi:10.1371/journal.pcbi.1004947.
Audain E, Ramos Y, Hermjakob H, Flower DR, Perez-Riverol Y.
Bioinformatics,
2016
doi:10.1093/bioinformatics/btv674.
Huerta V, Ramos Y, Yero A, Pupo D, Martín D, Toledo P, Fleitas N, Gallien S, Martín AM, Márquez GJ, Pérez-Riverol Y, Sarría M, Guirola O, González LJ, Domon B, Chinea G.
J Proteomics,
2016
doi:10.1016/j.jprot.2015.11.003.
Perez-Riverol Y, Xu QW, Wang R, Uszkoreit J, Griss J, Sanchez A, Reisinger F, Csordas A, Ternent T, Del-Toro N, Dianes JA, Eisenacher M, Hermjakob H, Vizcaíno JA.
Mol Cell Proteomics,
2016
doi:10.1074/mcp.o115.050229.
Vizcaíno JA, Csordas A, del-Toro N, Dianes JA, Griss J, Lavidas I, Mayer G, Perez-Riverol Y, Reisinger F, Ternent T, Xu QW, Wang R, Hermjakob H.
Nucleic Acids Res,
2016
doi:10.1093/nar/gkv1145.
Carvalho PC, Padron G, Calvete JJ, Perez-Riverol Y.
J Proteomics,
2015
doi:10.1016/j.jprot.2015.10.013.
Núñez de Villavicencio-Díaz T, Ramos Gómez Y, Oliva Argüelles B, Fernández Masso JR, Rodríguez-Ulloa A, Cruz García Y, Guirola-Cruz O, Perez-Riverol Y, Javier González L, Tiscornia I, Victoria S, Bollati-Fogolín M, Besada Pérez V, Guerra Vallespi M.
Data Brief,
2015
doi:10.1016/j.dib.2015.06.024.
Núñez de Villavicencio-Díaz T, Ramos Gómez Y, Oliva Argüelles B, Fernández Masso JR, Rodríguez-Ulloa A, Cruz García Y, Guirola-Cruz O, Perez-Riverol Y, Javier González L, Tiscornia I, Victoria S, Bollati-Fogolín M, Besada Pérez V, Guerra Vallespi M.
J Proteomics,
2015
doi:10.1016/j.jprot.2015.05.024.
Uszkoreit J, Maerkens A, Perez-Riverol Y, Meyer HE, Marcus K, Stephan C, Kohlbacher O, Eisenacher M.
J Proteome Res,
2015
doi:10.1021/acs.jproteome.5b00121.
Perez-Riverol Y, Uszkoreit J, Sanchez A, Ternent T, Del Toro N, Hermjakob H, Vizcaíno JA, Wang R.
Bioinformatics,
2015
doi:10.1093/bioinformatics/btv250.
Wang R, Perez-Riverol Y, Hermjakob H, Vizcaíno JA.
Proteomics,
2015
doi:10.1002/pmic.201400377.
Griss J, Perez-Riverol Y, Hermjakob H, Vizcaíno JA.
Proteomics Clin Appl,
2015
doi:10.1002/prca.201400107.
Perez-Riverol Y, Alpi E, Wang R, Hermjakob H, Vizcaíno JA.
Proteomics,
2015
doi:10.1002/pmic.201400302.
Leprevost Fda V, Barbosa VC, Francisco EL, Perez-Riverol Y, Carvalho PC.
Front Genet,
2014
doi:10.3389/fgene.2014.00199.
Griss J, Jones AR, Sachsenberg T, Walzer M, Gatto L, Hartler J, Thallinger GG, Salek RM, Steinbeck C, Neuhauser N, Cox J, Neumann S, Fan J, Reisinger F, Xu QW, Del Toro N, Pérez-Riverol Y, Ghali F, Bandeira N, Xenarios I, Kohlbacher O, Vizcaíno JA, Hermjakob H.
Mol Cell Proteomics,
2014
doi:10.1074/mcp.o113.036681.
Perez-Riverol Y, Carvalho PC.
Curr Top Med Chem,
2014
doi:10.2174/1568026613666131204101110.
Villavicencio-Diaz TN, Rodriguez-Ulloa A, Guirola-Cruz O, Perez-Riverol Y.
Curr Top Med Chem,
2014
doi:10.2174/1568026613666131204105110.
Audain E, Sanchez A, Vizcaíno JA, Perez-Riverol Y.
Curr Top Med Chem,
2014
doi:10.2174/1568026613666131204113537.
Perez-Riverol Y, Wang R, Hermjakob H, Müller M, Vesada V, Vizcaíno JA.
Biochim Biophys Acta,
2014
doi:10.1016/j.bbapap.2013.02.032.
Betancourt LH, De Bock PJ, Staes A, Timmerman E, Perez-Riverol Y, Sanchez A, Besada V, Gonzalez LJ, Vandekerckhove J, Gevaert K.
J Proteomics,
2013
doi:10.1016/j.jprot.2013.06.033.
Vera R, Perez-Riverol Y, Perez S, Ligeti B, Kertész-Farkas A, Pongor S.
Database (Oxford),
2013
doi:10.1093/database/bat051.
Leprevost FV, Lima DB, Crestani J, Perez-Riverol Y, Zanchin N, Barbosa VC, Carvalho PC.
J Proteomics,
2013
doi:10.1016/j.jprot.2013.06.013.
Perez-Riverol Y, Sánchez A, Noda J, Borges D, Carvalho PC, Wang R, Vizcaíno JA, Betancourt L, Ramos Y, Duarte G, Nogueira FC, González LJ, Padrón G, Tabb DL, Hermjakob H, Domont GB, Besada V.
Anal Chem,
2013
doi:10.1021/ac303239g.
Borges D, Perez-Riverol Y, Nogueira FC, Domont GB, Noda J, da Veiga Leprevost F, Besada V, França FM, Barbosa VC, Sánchez A, Carvalho PC.
Bioinformatics,
2013
doi:10.1093/bioinformatics/btt106.
Perez-Riverol Y, Hermjakob H, Kohlbacher O, Martens L, Creasy D, Cox J, Leprevost F, Shan BP, Pérez-Nueno VI, Blazejczyk M, Punta M, Vierlinger K, Valiente PA, Leon K, Chinea G, Guirola O, Bringas R, Cabrera G, Guillen G, Padron G, Gonzalez LJ, Besada V.
J Proteomics,
2013
doi:10.1016/j.jprot.2013.01.019.
Vizcaíno JA, Côté RG, Csordas A, Dianes JA, Fabregat A, Foster JM, Griss J, Alpi E, Birim M, Contell J, O'Kelly G, Schoenegger A, Ovelleiro D, Pérez-Riverol Y, Reisinger F, Ríos D, Wang R, Hermjakob H.
Nucleic Acids Res,
2013
doi:10.1093/nar/gks1262.
Sanchez A, Sun W, Ma J, Betancourt L, Perez-Riverol Y, de-Cossio JF, Padron G, Jiang Y, He F, Gonzalez LJ, Besada V.
Eur J Mass Spectrom (Chichester),
2012
doi:10.1255/ejms.1204.
Perez-Riverol Y, Vera R, Mazola Y, Musacchio A.
Curr Top Med Chem,
2012
doi:10.2174/1568026611209061790.
Côté RG, Griss J, Dianes JA, Wang R, Wright JC, van den Toorn HW, van Breukelen B, Heck AJ, Hulstaert N, Martens L, Reisinger F, Csordas A, Ovelleiro D, Perez-Rivevol Y, Barsnes H, Hermjakob H, Vizcaíno JA.
Mol Cell Proteomics,
2012
doi:10.1074/mcp.o112.021543.
Perez-Riverol Y, Audain E, Millan A, Ramos Y, Sanchez A, Vizcaíno JA, Wang R, Müller M, Machado YJ, Betancourt LH, González LJ, Padrón G, Besada V.
J Proteomics,
2012
doi:10.1016/j.jprot.2012.01.029.
Wang R, Fabregat A, Ríos D, Ovelleiro D, Foster JM, Côté RG, Griss J, Csordas A, Perez-Riverol Y, Reisinger F, Hermjakob H, Martens L, Vizcaíno JA.
Nat Biotechnol,
2012
doi:10.1038/nbt.2112.
Masforrol Y, Gil J, González LJ, Pérez-Riverol Y, Fernández-de-Cossío J, Sánchez A, Betancourt LH, Garay HE, Cabrales A, Albericio F, Yang H, Zubarev RA, Besada V, Acosta OR.
ACS Comb Sci,
2012
doi:10.1021/co200159r.
Perez-Riverol Y, Sánchez A, Ramos Y, Schmidt A, Müller M, Betancourt L, González LJ, Vera R, Padron G, Besada V.
J Proteomics,
2011
doi:10.1016/j.jprot.2011.05.034.
Betancourt LH, Sánchez A, Pérez Y, Fernandez de Cossio J, Gil J, Toledo P, Iguchi S, Aimoto S, González LJ, Padrón G, Takao T, Besada V.
J Proteomics,
2011
doi:10.1016/j.jprot.2011.04.029.
Ramos Y, Garcia Y, Pérez-Riverol Y, Leyva A, Padrón G, Sánchez A, Castellanos-Serra L, González LJ, Besada V.
Electrophoresis,
2011
doi:10.1002/elps.201000677.
Sanchez A, Sun W, Wang L, Ma J, Betancourt L, Gil J, Perez-Riverol Y, Fernandez de-Cossio J, Padron G, Jiang Y, He F, Gonzalez LJ, Besada V.
Eur J Mass Spectrom (Chichester),
2010
doi:10.1255/ejms.1105.
Sanchez A, Perez-Riverol Y, González LJ, Noda J, Betancourt L, Ramos Y, Gil J, Vera R, Padrón G, Besada V.
Anal Chem,
2010
doi:10.1021/ac1012738.
Ramos Y, Gutierrez E, Machado Y, Sánchez A, Castellanos-Serra L, González LJ, Fernández-de-Cossio J, Pérez-Riverol Y, Betancourt L, Gil J, Padrón G, Besada V.
J Proteome Res,
2008
doi:10.1021/pr700840y.