U of Geneva Loewith Lab - 20191004_AGC_kinases

U of Geneva Loewith Lab - 20191004_AGC_kinases
Clustergrammer Heatmap
 
Download
Bruderer.sky.zip2021-06-11 09:20:413,86625,31129,238175,3950
Selevsek.sky.zip2021-06-08 13:46:483,59738,88950,764304,5840
BSA-QC_68fmol_Apr2021_Impact-II_2021-05-20_15-45-54.sky.zip2021-05-20 15:46:21131402164
210512_Trypsin_P100_upload_2021-05-12_13-19-24.sky.zip2021-05-12 04:19:42902765792,8570
210512_Lysarginase_P100_upload_2021-05-12_13-17-23.sky.zip2021-05-12 04:17:39741633411,6630
20200704_ITvOT_plasma_final_2021-04-28_13-32-15.sky.zip2021-04-28 20:58:381544344342,98414
qLITvsqOT_matrix_matched_originaltransitions_LIT_2021-04-27_14-24-59.sky.zip2021-04-28 20:58:381244234232,95933
qLITvsqOT_matrix_matched_originaltransitions_OT_2021-04-27_14-23-49.sky.zip2021-04-28 20:58:381244234232,95933
qLITvsqOT_matrix_matched_alltransitions_OT_2021-04-27_14-18-08.sky.zip2021-04-28 20:58:381244234236,20233
qLITvsqOT_matrix_matched_alltransitions_LIT_2021-04-27_14-13-12.sky.zip2021-04-28 20:58:381244234236,20233
qLITvsqOT_precision_final_2020-12-30_07-35-14.sky.zip2021-04-28 20:58:381284604603,01420
LINCS_GCP_Plate70_annotated_minimized_2019-12-16_17-22-40.sky.zip2021-04-21 20:21:56818116280285
LINCS_GCP_Plate94_annotated_minimized_2020-04-03_16-19-23.sky.zip2021-04-18 11:14:24818116285096
BSA-QC_68fmol_Jan-Feb2021_Impact-II_2021-04-16_07-04-15.sky.zip2021-04-16 07:04:33131402164
MRM Brain_2021-02-24_11-23-27.sky.zip2021-04-13 15:28:2822459026841
MRM Heart_2021-02-26_13-08-25.sky.zip2021-04-13 15:28:2822438625638
MRM Cerebelum_2021-02-24_13-23-28.sky.zip2021-04-13 15:28:2822438625640
DDR2_chromatogram5.sky.zip2021-04-08 06:02:52112141
DDR2_chromatogram1.sky.zip2021-04-07 18:04:172738765261
DDR2_chromatogram2.sky.zip2021-04-07 18:03:1078161101
DDR2_chromatogram4.sky.zip2021-04-07 18:02:2011281
DDR2_chromatogram3.sky.zip2021-04-07 18:01:31112141
ARP_Plasma_0.2_vs_2.0_mg_2021-02-24_18-55-48.sky.zip2021-04-02 14:46:32404124891,40511
ARP-OxHSA-PlasmaMatrix_DilSeries_2021-02-25_11-31-34.sky.zip2021-04-02 14:46:32224129686218
Plasma-OxHSA_2021-02-25_11-37-12.sky.zip2021-04-02 14:46:32626330991811
3cm_preliminary_data_2021-03-26_18-17-25.sky.zip2021-03-31 10:24:111371312
20190927 PIP extraction efficiency.sky.zip2021-03-29 06:45:2710114122
20190928 Donor 6-7 PIPs MRM 190926.sky.zip2021-03-29 06:45:2610114130
20190929 Extraction efficiency.sky.zip2021-03-29 06:45:2610114120
20191002 Brain samples.sky.zip2021-03-29 06:45:2610114113
20191003 Donor 6-7 + calibration curve.sky.zip2021-03-29 06:45:2610114136
20191105 Calibration curve.sky.zip2021-03-29 06:45:2610114130
20191108 Gradient.sky.zip2021-03-29 06:45:261011413
D2 15 CRP.sky.zip2021-03-29 06:45:2610114120
20191114 Extraction efficiency.sky.zip2021-03-29 06:45:2610114119
PIPs MRM 191001 Donor 45.sky.zip2021-03-29 06:45:2610114124
PIPs MRM 190930 OP9.sky.zip2021-03-29 06:45:2610114111
LINCS_P100_DIA_Plate15_annotated_minimized_2018-05-02_19-32-22.sky.zip2021-03-19 20:17:4890961921,20296
LINCS_P100_DIA_Plate16_annotated_minimized_2018-05-02_19-43-10.sky.zip2021-03-19 20:17:4890961921,12295
LINCS_P100_DIA_Plate17_annotated_minimized_2018-05-02_17-35-29.sky.zip2021-03-19 20:17:4890961921,05495
LINCS_P100_DIA_Plate19_annotated_minimized_2018-05-02_17-18-22.sky.zip2021-03-19 20:17:4890961921,16096
LINCS_P100_DIA_Plate20_annotated_minimized_2018-05-02_21-04-33.sky.zip2021-03-19 20:17:4890961921,07496
LINCS_P100_DIA_Plate22_annotated_minimized_2018-05-02_22-33-32.sky.zip2021-03-19 20:17:4890961921,09695
LINCS_P100_DIA_Plate23_annotated_minimized_2018-05-02_18-13-55.sky.zip2021-03-19 20:17:48909619296096
LINCS_P100_DIA_Plate24_annotated_minimized_2018-05-02_19-07-44.sky.zip2021-03-19 20:17:48909619273296
LINCS_P100_DIA_Plate27_annotated_minimized_2018-05-02_19-16-47.sky.zip2021-03-19 20:17:4890961921,06496
LINCS_P100_DIA_Plate30_annotated_minimized_2018-05-02_18-33-32.sky.zip2021-03-19 20:17:48909619278596
LINCS_P100_DIA_Plate33_annotated_minimized_2018-05-02_17-47-07.sky.zip2021-03-19 20:17:48909619279696
LINCS_P100_DIA_Plate34_annotated_minimized_2019-08-30_17-25-21.sky.zip2021-03-19 20:17:48909619275296
LINCS_P100_DIA_Plate58_annotated_minimized_2017-11-28_11-50-08.sky.zip2021-03-19 20:17:48909619283495
LINCS_P100_DIA_Plate59a_annotated_minimized_2018-11-30_14-13-58.sky.zip2021-03-19 20:17:4890961922,76494
LINCS_P100_DIA_Plate60_annotated_minimized_2017-11-29_16-22-26.sky.zip2021-03-19 20:17:48909619297895
LINCS_P100_DIA_Plate61_annotated_minimized_2018-02-06_17-09-06.sky.zip2021-03-19 20:17:48909619299095
LINCS_P100_DIA_Plate62_annotated_minimized_2018-04-20_15-55-05.sky.zip2021-03-19 20:17:48909619298696
LINCS_P100_DIA_Plate63a_annotated_minimized_2019-11-14_15-28-26.sky.zip2021-03-19 20:17:4890961922,76494
LINCS_P100_DIA_Plate64_annotated_minimized_2018-05-02_20-34-19.sky.zip2021-03-19 20:17:48909619298295
LINCS_P100_DIA_Plate66_annotated_minimized_2018-08-31_10-36-13.sky.zip2021-03-19 20:17:4790961922,76496
LINCS_P100_PRM_Plate25_annotated_minimized_2018-05-02_18-24-10.sky.zip2021-03-19 20:17:4790961921,24296
LINCS_P100_DIA_Plate67_annotated_minimized_2018-08-02_13-56-24.sky.zip2021-03-19 20:17:4790961922,75496
LINCS_P100_PRM_Plate18_annotated_minimized_2020-01-08_17-11-19.sky.zip2021-03-19 20:17:4790961921,53896
LINCS_P100_PRM_Plate28_annotated_minimized_2018-05-02_18-51-02.sky.zip2021-03-19 20:17:4790961921,15896
LINCS_P100_PRM_Plate29_03H_annotated_minimized_2018-05-02_21-16-28.sky.zip2021-03-19 20:17:4790961921,53696
LINCS_P100_DIA_Plate65_annotated_minimized_2019-10-21_16-54-32.sky.zip2021-03-19 20:17:4790961921,58694
LINCS_P100_PRM_Plate31_annotated_minimized_2018-05-02_18-00-17.sky.zip2021-03-19 20:17:47909619299684
LINCS_P100_PRM_Plate32_annotated_minimized_2018-05-02_20-45-26.sky.zip2021-03-19 20:17:4790961921,14696
ZaharaN_MM_Final_SkylineReport_2020-07-30_12-54-33.sky.zip2021-03-18 16:36:239212321832
Martinez et al_PRM Replicates 5-7_MCP_2021-01-28_10-13-34.sky.zip2021-03-18 16:36:23919192378
DDR2_repeatability2.sky.zip2021-03-18 07:29:152365057
DDR2_repeatability1.sky.zip2021-03-18 07:29:0931499868857
DDR2_response curve2.sky.zip2021-03-18 07:22:231242827
DDR2_response curve.sky.zip2021-03-18 07:22:2027469264634
BSA_method_dev.sky.zip2021-03-14 13:29:58143545443
BSA_and_PRTC.sky.zip2021-03-14 13:29:5361021171,1683
Meningioma_CSF_MRM_2021-02-17_13-51-29.sky.zip2021-03-11 11:32:2851515627
Glioma_CSF_MRM_2021-02-17_13-57-43.sky.zip2021-03-11 11:32:28515156410
Medulloblastoma_MRM_2021-02-17_14-29-27.sky.zip2021-03-11 11:32:2831010539
MCF-7_QC_Analysed_2021-02-17_14-54-14.sky.zip2021-03-11 11:32:28266675
BSA_QC_Analysed_2021-02-17_14-56-13.sky.zip2021-03-11 11:32:28177655
BSA_QC_standard curve_2021-02-17_14-57-03.sky.zip2021-03-11 11:32:28177655
Glioma_tissue_MRM_2021-03-11_17-52-52.sky.zip2021-03-11 11:32:28312121039
Meningioma_tissue_MRM_2021-03-11_19-28-51.sky.zip2021-03-11 11:32:2831010839
LMR0015_Orenil-Gill_minPanorama_2020-05-15_21-01-53.sky.zip2021-03-10 06:39:591,9017,1557,15539,84312
Skin AMP_2021-03-09_15-18-28.sky.zip2021-03-09 06:19:5716244882460
Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip2021-03-04 09:45:02120206016
6-PRM_ACOs_WT_anac017-1_AA_Fig4B_S3B.sky.zip2021-02-25 10:10:506192723012
5-PRM_ACOs_WT_anac017-1_UV-B-24h_Fig4A_S3A.sky.zip2021-02-25 10:10:506192723012
3-PRM_ACOs_aco3 phosphomutants_R3_Fig3B.sky.zip2021-02-25 10:10:49399976
7-tSIM-PRM_ACO3-Ser91_WT_anac017-1_UV-B-24h_Fig4C.sky.zip2021-02-25 10:10:491237812
13-tSIM-PRM_ACO3-Ser91_UV-B_11d_Fig8D.sky.zip2021-02-25 10:10:491231096
12-tSIM-PRM_ACO3-Ser91_aco3-ox-3_UV-B-24h_Fig6C.sky.zip2021-02-25 10:10:491236711
10-tSIM-PRM_ACO3-Ser91_CHX_UV-B-24h_Fig5B.sky.zip2021-02-25 10:10:491238611
11-PRM_ACOs_HKs_aco3-ox-3_UV-B-24h_Fig6B.sky.zip2021-02-25 10:10:49619273256
9-PRM_ACOs_HKs_CHX_UV-B-24h_Fig5A_S3C.sky.zip2021-02-25 10:10:496192732312
1-PRM_ACOs_aco3 phosphomutants_R1_Fig3B.sky.zip2021-02-25 10:10:49399976
2-PRM_ACOs_aco3 phosphomutants_R2_Fig3B.sky.zip2021-02-25 10:10:49399996
4-PRM_ACOs_aco3-ox-3_Fig3C.sky.zip2021-02-25 10:10:49399956
8-tSIM-PRM_ACO3-Ser91_WT_anac017-1_AA_Fig4D.sky.zip2021-02-25 10:10:491238012
14-PRM_ACOs_aco3_phosphomutants_second_set_mutant_lines_FigS2A.sky.zip2021-02-25 10:10:493997818
tSIM-PRM_ACO3-Ser91_WT_vs_aco3.sky.zip2021-02-25 10:10:491231062
T11X_R2021-02-23 07:17:23177564
PRM of Nth1 phospho-peptides in response to AGC-kinase inhibition
Data License: CC BY 4.0 | ProteomeXchange: PXD015760
  • Organism: Saccharomyces cerevisiae
  • Instrument: Orbitrap Fusion ETD
  • SpikeIn: No
  • Keywords: AGC-kinases, Sch9, Ypk1, PKA, chemical genetics
  • Lab head: Michael Plank Submitter: Michael Plank
Abstract
Protein phosphorylation cascades play a central role in the regulation of cell growth and protein kinases PKA, Sch9 and Ypk1 take centre stage in regulating this process in S. cerevisiae. To understand how these kinases co-ordinately regulate cellular functions we compared the phospho-proteome of exponentially growing cells without and with acute chemical inhibition of PKA, Sch9 and Ypk1. Reduced phosphorylation of Nth1 S83 upon PKA- and Ypk1-inhibition was validated by Western blotting and PRM.
Experiment Description
Samples for targeted proteomics by PRM were prepared from 250 µg of protein of yeast cultures (wt, PKA-, Ypk1- or PKA+Ypk1- analog sensitive) treated with 500 nM 1NM-PP1 or DMSO for 15 min. Proteins were digested with LysC and trypsin and a mixture of magnetic TiO2, ZrO2 and Ti(IV)-IMAC beads (15 µl each; ReSyn Biosciences) were used for phospho-peptide enrichment, essentially following the manufacturer`s instructions. Data acquisition was performed on an Orbitrap Fusion Tribrid mass spectrometer coupled to an nLC1000 uHPLC without use of internal standard peptides (Tier 3). Peptides were separated on a 25 cm EASY-spray column (Thermo Scientific) with a 30 min gradient from 3 to 25% acetonitrile, 0.1% formic acid vs. 0.1% formic acid in water. MS-scans were acquired at 60 000 resolution, with an ion target of 4x 105 and maximum injection time of 118 ms. Targeted MS/MS employing higher energy collisional dissociation on 9 selected precursors representing Nth1 phospho-peptides and targeted single ion monitoring on two precursors were each acquired at a resolution of 60 000 with an ion target of 4x 105 and maximum injection time of 200 ms. For data analysis in Skyline 4.2.0.19072 we employed spectral libraries from previously generated data-dependent acquisition and filtered for seven b- or y-ions from ion 3 to last ion.
Sample Description
Three replicates each of 250 µg of protein of yeast cultures (wt, PKA-, Ypk1- or PKA+Ypk1- analog sensitive) treated with 500 nM 1NM-PP1 or DMSO for 15 min.
Created on 10/9/19, 9:14 AM

This data is available under the CC BY 4.0 license.