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Proteomics Core Facility

This facility provides a full proteomics infrastructure for the identification and characterisation of proteins.

Publications

Global mapping of Salmonella enterica-host protein-protein interactions during infection.

Walch P, Selkrig J, Knodler LA, Rettel M, Stein F, Fernandez K, Viéitez C, Potel CM, Scholzen K, Geyer M, Rottner K, Steele-Mortimer O, Savitski MM, Holden DW, Typas A

2021

doi:10.1016/j.chom.2021.06.004.

Extensive OMICS resource for Sf21 and Tni cell lines.

Galik B, Landry JM, Kirkpatrick J, Fritz M, Baying B, Blake J, Haase B, Collier PG, Hercog R, Pavlinic D, Stolt-Bergner P, Besir H, Remans K, Gyenesei A, Benes V

2021

doi:10.1101/2021.04.06.438574.

Bacterial retrons encode tripartite toxin/antitoxin systems.

Bobonis J, Mateus A, Pfalz B, Garcia-Santamarina S, Galardini M, Kobayashi C, Stein F, Savitski MM, Elfenbein JR, Andrews-Poymenis H, Typas A

2020

doi:10.1101/2020.06.22.160168.

Phage proteins block and trigger retron toxin/antitoxin systems.

Bobonis J, Mitosch K, Mateus A, Kritikos G, Elfenbein JR, Savitski MM, Andrews-Polymenis H, Typas A

2020

doi:10.1101/2020.06.22.160242.

Meltome atlas-thermal proteome stability across the tree of life.

Jarzab A, Kurzawa N, Hopf T, Moerch M, Zecha J, Leijten N, Bian Y, Musiol E, Maschberger M, Stoehr G, Becher I, Daly C, Samaras P, Mergner J, Spanier B, Werner T, Angelov A, Wilhelm M, Bantscheff M, Lemeer S, Klingenspor M, Hahne H, Liebl W, Kuster B, Savitski MM

Nature methods 2020

32284610. doi:10.1038/s41592-020-0801-4.

Impact of phosphorylation on thermal stability of proteins.

Potel CM, Kurzawa N, Becher I, Typas A, Mateus A, Savitski MM

2020

doi:10.1101/2020.01.14.903849.

Towards a systematic map of the functional role of protein phosphorylation.

Viéitez​ C​, Busby​ BP, Ochoa​ D​, Mateus​ A​, Galardini​ M​, Jawed​ A​, Memon​ D​, Potel​ CM​, Vonesch SC​, Tu​ CS, Shahraz​ M​, Stein​ F​, Steinmetz​ LM, Savitski​ MM, Typas A, Beltrao​ P

2019

doi:10.1101/872770.

The functional landscape of the human phosphoproteome.

Ochoa D, Jarnuczak AF, Viéitez C, Gehre M, Soucheray M, Mateus A, Kleefeldt AA, Hill A, Garcia-Alonso L, Stein F, Krogan NJ, Savitski MM, Swaney DL, Vizcaíno JA, Noh KM, Beltrao P

Nature biotechnology 2019

31819260. doi:10.1038/s41587-019-0344-3.

A new antibiotic selectively kills Gram-negative pathogens.

Imai Y, Meyer KJ, Iinishi A, Favre-Godal Q, Green R, Manuse S, Caboni M, Mori M, Niles S, Ghiglieri M, Honrao C, Ma X, Guo J, Makriyannis A, Linares-Otoya L, Wuisan ZG, Böhringer N, Wu R, Kaur H, Typas A, Mateus A, Espinoza JL, Savitski MM, Nelson KE, O'Rourke A, Noinaj N, Hiller S, D'Onofrio A, Schäberle TF, Lewis K

Nature 2019

31747680. doi:10.1038/s41586-019-1791-1.

Target discovery using thermal proteome profiling.

Sridharan S, Günthner I, Becher I, Savitski M, Bantscheff M

2019

doi:10.1002/9781118970195.ch11.

Species-specific activity of antibacterial drug combinations.

Brochado AR, Telzerow A, Bobonis J, Banzhaf M, Mateus A, Selkrig J, Huth E, Bassler S, Zamarreño Beas J, Zietek M, Ng N, Foerster S, Ezraty B, Py B, Barras F, Bork P, Savitski MM, Göttig S, Typas A

Nature 2018

29973719. doi:10.1038/s41586-018-0278-9.

Systematic analysis of protein turnover in primary cells.

Mathieson T, Franken H, Kosinski J, Kurzawa N, Zinn N, Sweetman G, Poeckel D, Ratnu VS, Schramm M, Becher I, Steidel M, Noh KM, Bergamini G, Beck M, Bantscheff M, Savitski MM

Nature communications 2018

29449567. doi:10.1038/s41467-018-03106-1.

Wilhelm et al. reply.

Wilhelm M, Hahne H, Savitski M, Marx H, Lemeer S, Bantscheff M, Kuster B

Nature 2017

28748931. doi:10.1038/nature22294.

The ecoresponsive genome of Daphnia pulex

Colbourne JK, Pfrender ME, Gilbert D, Thomas WK, Tucker A, Oakley TH, Tokishita S, Aerts A, Arnold GJ, Basu MK, Bauer DJ, Cáceres CE, Carmel L, Casola C, Choi JH, Detter JC, Dong Q, Dusheyko S, Eads BD, Fröhlich T, Geiler-Samerotte KA, Gerlach D, Hatcher P, Jogdeo S, Krijgsveld J, Kriventseva EV, Kültz D, Laforsch C, Lindquist E, Lopez J, Manak JR, Muller J, Pangilinan J, Patwardhan RP, Pitluck S, Pritham EJ, Rechtsteiner A, Rho M, Rogozin IB, Sakarya O, Salamov A, Schaack S, Shapiro H, Shiga Y, Skalitzky C, Smith Z, Souvorov A, Sung W, Tang Z, Tsuchiya D, Tu H, Vos H, Wang M, Wolf YI, Yamagata H, Yamada T, Ye Y, Shaw JR, Andrews J, Crease TJ, Tang H, Lucas SM, Robertson HM, Bork P, Koonin EV, Zdobnov EM, Grigoriev IV, Lynch M, Boore JL

Science (New York, N.Y.) 2011

21292972. doi:10.1126/science.1197761.


Global mapping of Salmonella enterica-host protein-protein interactions during infection.

Walch P, Selkrig J, Knodler LA, Rettel M, Stein F, Fernandez K, Viéitez C, Potel CM, Scholzen K, Geyer M, Rottner K, Steele-Mortimer O, Savitski MM, Holden DW, Typas A

2021

doi:10.1016/j.chom.2021.06.004.

Extensive OMICS resource for Sf21 and Tni cell lines.

Galik B, Landry JM, Kirkpatrick J, Fritz M, Baying B, Blake J, Haase B, Collier PG, Hercog R, Pavlinic D, Stolt-Bergner P, Besir H, Remans K, Gyenesei A, Benes V

2021

doi:10.1101/2021.04.06.438574.

Bacterial retrons encode tripartite toxin/antitoxin systems.

Bobonis J, Mateus A, Pfalz B, Garcia-Santamarina S, Galardini M, Kobayashi C, Stein F, Savitski MM, Elfenbein JR, Andrews-Poymenis H, Typas A

2020

doi:10.1101/2020.06.22.160168.

Phage proteins block and trigger retron toxin/antitoxin systems.

Bobonis J, Mitosch K, Mateus A, Kritikos G, Elfenbein JR, Savitski MM, Andrews-Polymenis H, Typas A

2020

doi:10.1101/2020.06.22.160242.

Meltome atlas-thermal proteome stability across the tree of life.

Jarzab A, Kurzawa N, Hopf T, Moerch M, Zecha J, Leijten N, Bian Y, Musiol E, Maschberger M, Stoehr G, Becher I, Daly C, Samaras P, Mergner J, Spanier B, Werner T, Angelov A, Wilhelm M, Bantscheff M, Lemeer S, Klingenspor M, Hahne H, Liebl W, Kuster B, Savitski MM

Nature methods 2020

32284610. doi:10.1038/s41592-020-0801-4.

Impact of phosphorylation on thermal stability of proteins.

Potel CM, Kurzawa N, Becher I, Typas A, Mateus A, Savitski MM

2020

doi:10.1101/2020.01.14.903849.

Towards a systematic map of the functional role of protein phosphorylation.

Viéitez​ C​, Busby​ BP, Ochoa​ D​, Mateus​ A​, Galardini​ M​, Jawed​ A​, Memon​ D​, Potel​ CM​, Vonesch SC​, Tu​ CS, Shahraz​ M​, Stein​ F​, Steinmetz​ LM, Savitski​ MM, Typas A, Beltrao​ P

2019

doi:10.1101/872770.

The functional landscape of the human phosphoproteome.

Ochoa D, Jarnuczak AF, Viéitez C, Gehre M, Soucheray M, Mateus A, Kleefeldt AA, Hill A, Garcia-Alonso L, Stein F, Krogan NJ, Savitski MM, Swaney DL, Vizcaíno JA, Noh KM, Beltrao P

Nature biotechnology 2019

31819260. doi:10.1038/s41587-019-0344-3.

A new antibiotic selectively kills Gram-negative pathogens.

Imai Y, Meyer KJ, Iinishi A, Favre-Godal Q, Green R, Manuse S, Caboni M, Mori M, Niles S, Ghiglieri M, Honrao C, Ma X, Guo J, Makriyannis A, Linares-Otoya L, Wuisan ZG, Böhringer N, Wu R, Kaur H, Typas A, Mateus A, Espinoza JL, Savitski MM, Nelson KE, O'Rourke A, Noinaj N, Hiller S, D'Onofrio A, Schäberle TF, Lewis K

Nature 2019

31747680. doi:10.1038/s41586-019-1791-1.

Target discovery using thermal proteome profiling.

Sridharan S, Günthner I, Becher I, Savitski M, Bantscheff M

2019

doi:10.1002/9781118970195.ch11.

Species-specific activity of antibacterial drug combinations.

Brochado AR, Telzerow A, Bobonis J, Banzhaf M, Mateus A, Selkrig J, Huth E, Bassler S, Zamarreño Beas J, Zietek M, Ng N, Foerster S, Ezraty B, Py B, Barras F, Bork P, Savitski MM, Göttig S, Typas A

Nature 2018

29973719. doi:10.1038/s41586-018-0278-9.

Systematic analysis of protein turnover in primary cells.

Mathieson T, Franken H, Kosinski J, Kurzawa N, Zinn N, Sweetman G, Poeckel D, Ratnu VS, Schramm M, Becher I, Steidel M, Noh KM, Bergamini G, Beck M, Bantscheff M, Savitski MM

Nature communications 2018

29449567. doi:10.1038/s41467-018-03106-1.

Wilhelm et al. reply.

Wilhelm M, Hahne H, Savitski M, Marx H, Lemeer S, Bantscheff M, Kuster B

Nature 2017

28748931. doi:10.1038/nature22294.

The ecoresponsive genome of Daphnia pulex

Colbourne JK, Pfrender ME, Gilbert D, Thomas WK, Tucker A, Oakley TH, Tokishita S, Aerts A, Arnold GJ, Basu MK, Bauer DJ, Cáceres CE, Carmel L, Casola C, Choi JH, Detter JC, Dong Q, Dusheyko S, Eads BD, Fröhlich T, Geiler-Samerotte KA, Gerlach D, Hatcher P, Jogdeo S, Krijgsveld J, Kriventseva EV, Kültz D, Laforsch C, Lindquist E, Lopez J, Manak JR, Muller J, Pangilinan J, Patwardhan RP, Pitluck S, Pritham EJ, Rechtsteiner A, Rho M, Rogozin IB, Sakarya O, Salamov A, Schaack S, Shapiro H, Shiga Y, Skalitzky C, Smith Z, Souvorov A, Sung W, Tang Z, Tsuchiya D, Tu H, Vos H, Wang M, Wolf YI, Yamagata H, Yamada T, Ye Y, Shaw JR, Andrews J, Crease TJ, Tang H, Lucas SM, Robertson HM, Bork P, Koonin EV, Zdobnov EM, Grigoriev IV, Lynch M, Boore JL

Science (New York, N.Y.) 2011

21292972. doi:10.1126/science.1197761.

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