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["Dataset EV2. Experiment name references. Table including the sample identifier used in other tables representing each one of the 146 shotgun MS experiments performed in each species (column B). Columns C and D include basic information about the protocol: buffer used and type of digestion performed. Column E includes the reference link to the raw data in the public databases. Columns F and G present information about the experimental conditions applied to the dataset."]

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["Sample Identifier (first time published: raw file // publicly available: PRIDE accession and # of sub-accession)","Organism","Buffer","Digestion","PRIDE accession (all relative information included in submission)","Description ","Additional information"]
["150717_S_EYLS_01_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_02_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_03_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_04_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_05_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_06_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_07_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_08_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_09_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_10_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_11_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_12_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_13_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_14_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_15_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_16_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_17_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_18_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_19_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_20_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_21_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_22_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_23_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150717_S_EYLS_24_01","M. pneumoniae","1%SDS in TE","FASP","PXD008243","Total cell extracts from M. pneumoniae cells grown in Hiflick medium at 37ºC.","WT strain"]
["150810_S_MLLS_01_01","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Surfome sample of M. pneumoniae. Cells incubated with BirA protein and Biotin. Technical replicate 1.","Surfome experiment in M. pneumoniae: After incubation of cells with biotin ligase protein (BirA), cells are washed to eliminate extracellular BirA and then after lysis (300uL 6M urea in TBST and sonicated for 15mins ). Lysate samples are incubated with the streptavidin magnetic bead (Invitrogen ref. 65002) for 30mins at room temp to bind, with rotation. Wash beads with 3x 1mL PBS/6Murea and 1x 1mL PBS alone. Elute with 100uL of 0.1%SDS in PBS and boil for 5mins at 95ºC."]
["150810_S_MLLS_01_02","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Surfome sample of M. pneumoniae. Cells incubated with BirA protein and Biotin. Technical replicate 2."]
["150810_S_MLLS_02_01","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Negative control of Surfome. Cell extract is not incubated with BirA protein and Biotin. Technical replicate 1."]
["150810_S_MLLS_02_02","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Negative control of Surfome. Cell extract is not incubated with BirA protein and Biotin. Technical replicate 2."]
["150810_S_MLLS_03_01","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Total cell extract of M .penumoniae expressing GFP, introduced in the cells by using a minitransposon vector. Expression of GFP under a constitutive promoter. Technical Replicate 1","Mutant strain: intracellular expresion of GFP"]
["150810_S_MLLS_03_02","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Total cell extract of M .penumoniae expressing GFP, introduced in the cells by using a minitransposon vector. Expression of GFP under a constitutive promoter. Technical Replicate 2","Mutant strain: intracellular expresion of GFP"]
["150810_S_MLLS_04_01","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Total cell extract of M. pneumonie expressing a mutated version of GFP included in this strain by transposon mutagenesis. 1ug of total cell extract was digested. Technical Replicate1","Mutant strain GFPmut"]
["150810_S_MLLS_04_02","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Total cell extract of M. pneumonie expressing a mutated version of GFP included in this strain by transposon mutagenesis. 1 ug of total cell extract was digested. Technical Replicate2","Mutant strain GFPmut"]
["150810_S_MLLS_05_01","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Total cell extract of M. pneumonie expressing a mutated version of GFP included in this strain by transposon mutagenesis. 10ug of total cell extract was digested. Technical Replicate1","Mutant strain GFPmut"]
["150810_S_MLLS_05_02","M. pneumoniae","PBS+0,1%SDS","FASP","PXD008243","Total cell extract of M. pneumonie expressing a mutated version of GFP included in this strain by transposon mutagenesis. 10 ug of total cell extract was digested. Technical Replicate2","Mutant strain GFPmut"]
["150728_S_EYLS_01_02_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN275","pMT85-tuf->275-DN strain is expressing the MPN275 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_02_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN275","pMT85-tuf->275-DN strain is expressing the MPN275 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_03_02_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN295","pMT85-tuf->295DN strain is expressing the MPN295 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_04_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN295","pMT85-tuf->295DN strain is expressing the MPN295 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_05_02_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpressimutant of MPN424","pMT85-tuf->424-DN strain is expressing the MPN424 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_06_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN424","pMT85-tuf->424-DN strain is expressing the MPN424 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_07_02_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN294","pMT85-tuf->294-DN strain is expressing the MPN294 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_08_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN294","pMT85-tuf->294-DN strain is expressing the MPN294 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_09_02_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of MPN529","pMT85-tuf->529 strain is expressing the MPN529 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_10_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of MPN529","pMT85-tuf->529 strain is expressing the MPN529 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_11_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN529","pMT85-tuf->529-DN strain is expressing the MPN529 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_12_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN529","pMT85-tuf->529-DN strain is expressing the MPN529 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_13_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of MPN608","pMT85-tuf->608 strain is expressing the MPN608 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_14_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of MPN608","pMT85-tuf->608 strain is expressing the MPN608 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_15_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mtant of MPN608","pMT85-tuf->608-DN strain is expressing the MPN608 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_16_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of mutant of MPN608","pMT85-tuf->608-DN strain is expressing the MPN608 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_17_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of MPN478","pMT85-tuf->478 strain is expressing the MPN478 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["150728_S_EYLS_18_01_FASPIII","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Overexpression of MPN478","pMT85-tuf->478 strain is expressing the MPN478 protein with a Fag tag. The gene is included by transposon mutagenesis, using the pMT85 vector and the expression of the gene is under the Eftu promoter."]
["160502_S_TFLS_01_01_45pto","M. pneumoniae","6Murea/0.1% triton","In solution","PXD008243","Total cell extract of M. pneumonie enriched in membrane proteins after extraction with urea and triton. ","Different amounts of extract where digested 45 ug (2 replicates) or 90 ug (one sample)"]
["160502_S_TFLS_02_02_45pto_dil1-10","M. pneumoniae","6Murea/0.1% triton","In solution","PXD008243","Total cell extract of M. pneumonie enriched in membrane proteins after extraction with urea and triton"]
["160502_S_TFLS_03_02_90pto","M. pneumoniae","6Murea/0.1% triton","In solution","PXD008243","Total cell extract of M. pneumonie enriched in membrane proteins after extraction with urea and triton"]
["150728_S_EYLS_19_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","pMT85-p517->dam-flag","M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter  found in the ELM-Seq experiments (Yus E., et al. 2017 Nature Communications"]
["150728_S_EYLS_20_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","pMT85-p674.1->dam-flag ","M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter found in the ELM-Seq experiments (Yus E., et al. 2017 Nature Communications)."]
["150728_S_EYLS_21_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2018","pMT85-p036->dam-flag: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under the promoter of the MPN036 gene  (Yus E., et al. 2017 Nature Communications)"]
["150728_S_EYLS_22_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2019","pMT85-tuf->dam-flag:  M. pneumoniae strain expressing the Dam methyltransferase from E. coli under the promoter of the EfTu gene"]
["150728_S_EYLS_23_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2020","pMT85-p1->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_24_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2021","pMT85-p2->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_25_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2022","pMT85-p3->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_26_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2023","pMT85-p4->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_27_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2024","pMT85-p5->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_28_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2025","pMT85-p6->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae"]
["150728_S_EYLS_29_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters and/or 5 'UTR.  Yus et al., Nature Comm 2026","pMT85-p7->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_30_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-p8->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_31_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-p9->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_32_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-p10->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_33_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-p11->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_34_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-p12->dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter; found in  the ELM-Seq experiments and not present in the genome of M. penumoniae "]
["150728_S_EYLS_35_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR1-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150728_S_EYLS_36_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR2-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150728_S_EYLS_37_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR3-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150728_S_EYLS_38_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR4-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150728_S_EYLS_39_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR5-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150728_S_EYLS_40_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR6-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150728_S_EYLS_41_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR7-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150728_S_EYLS_42_01_2ug_FASP3","M. pneumoniae","1%SDS,10 mM Tris·HCl, 1 mM EDTA pH7.5","FASP","PXD008243","Mycoplasma expressing the dam protein as a reporter for different promoters","pMT85-SyP32->UTR3-dam: M. pneumoniae strain expressing the Dam methyltransferase from E. coli under a synthetic promoter and a 5'UTR region found in  the ELM-Seq experiments"]
["150820_S_CGLS_19_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_20_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_21_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_22_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_23_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_24_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_25_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_26_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_27_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_28_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_29_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_30_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_31_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_32_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_33_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_34_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_35_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_36_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_37_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_38_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_39_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_40_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_41_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_42_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_43_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_44_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["150820_S_CGLS_45_01_FASPII","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Protein quantification using C13 peptides as a standard","Standard curves for protein quantification from M. pneumoniae total cell extracts obtained at exponential phase of growth and mixed with different labbeled peptides from ribosomal proteins as well as peptides designed to identify new SEPs."]
["160908_S_TFLS_21_02_2ug","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_21_03_2ug","M. pneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_10_01_2ug","M. pneumoniae","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_10_02_2ug","M. pneumoniae","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_02_03_2ug","M. mycoides","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_02_04_2ug","M. mycoides","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_06_03_2ug","M. gallisepticum","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_06_04_2ug","M. gallisepticum","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_12_03_2ug","M. genitalium","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_12_04_2ug","M. genitalium","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_18_03_2ug","M. capricolum","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_18_04_2ug","M. capricolum","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_20_03_2ug","M. hyopneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["160908_S_TFLS_20_04_2ug","M. hyopneumoniae","4% SDS/0.1M TRIS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_01_01_2ug","M. mycoides","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_01_02_2ug","M. mycoides","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_02_01_2ug","M. gallisepticum","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_02_02_2ug","M. gallisepticum","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_06_01_2ug.raw ","M. genitalium","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_06_02_2ug.raw ","M. genitalium","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_08_01_2ug.raw ","M. capricolum","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_08_02_2ug.raw ","M. capricolum","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_09_01_2ug.raw ","M. hyopneumoniae","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["161116_S_TFLS_09_02_2ug.raw ","M. hyopneumoniae","6Murea","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["170718_S_TFLS_01_01_2ug_AQUA","M. pneumoniae","7M Urea + 0.2 M NH4HCO3","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["170718_S_TFLS_02_01_2ug_AQUA","M. pneumoniae","7M Urea + 0.2 M NH4HCO3","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["170718_S_TFLS_03_01_2ug_AQUA","M. pneumoniae","7M Urea + 0.2 M NH4HCO3","In solution","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["170718_S_TFLS_04_01_2ug_AQUA","M. pneumoniae","100mM hepes + SDS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["170718_S_TFLS_05_01_2ug_AQUA","M. pneumoniae","100mM hepes + SDS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["170718_S_TFLS_06_01_2ug_AQUA","M. pneumoniae","100mM hepes + SDS","FASP","PXD008243","Comparison of protein quantification using SDs or urea as extraction methods","Total cell extract of different mycoplasma strains"]
["250611_Maria_Lluch_Luis_Serrano_WT_1.raw ","Escherichia coli K12","1%SDS in TE","FASP","PXD010490","Protein identification and quantification by using a non labeling approach. Total protein extract of an over night culture of E. coli.","Total cell extract of E coli strain K.12"]
["250612_Maria_Lluch_Luis_Serrano_WT_2.raw ","Escherichia coli K12","1%SDS in TE","FASP","PXD010490","Protein identification and quantification by using a non labeling approach. Total protein extract of an over night culture of E. coli.","Enriched SEPs from E. coli cell extract by using Tricine gels and cutting the band of 10 kDa"]
["180720_S_MLLS_01_01_45pto_saureus","Staphylococcus aureus","1%SDS in TE","FASP","PXD011038","Protein quantification and quantification from a total cell extract of S. aureus. After running a Ticine gel the bands correspondng to 10 kDa and smaller protein sized were cutted to enrich in SEPs.","Enriched SEPs from S. aureus coli cell extract by using Tricine gels and cutting the band of 10 kDa"]
["180720_S_MLLS_05_01_45pto_pseudomonas","Pseudomonas aeruginosa","1%SDS in TE","FASP","PXD011038","Protein quantification and quantification from a total cell extract of P. aeruginosa. After running a Ticine gel the bands correspondng to 10 kDa and smaller protein sized were cutted to enrich in SEPs.","Enriched SEPs from  P. aeruginosa cell extract by using Tricine gels and cutting the band of 10 kDa"]
["PRD000266 ; 13105","Lactococcus lactis strain AI06","SCX fraction 100 mM KH2PO4 ","Lahtvee, PJ. (2011)","PRD000266","Study of Lactococcus lactis metabolism at various specific growth rates B1T1_100mM ","Lahtvee, PJ. (2011)"]
["PXD000054; 27548","Helicobacter pylori 26695",null,"Müller SA. (2013)","PXD000054","SEC fractionation of Low Molecular Weight proteins and subsequent AspN digestion","Müller SA. (2013)"]
["PXD000054; 27550","Helicobacter pylori 26695",null,"Müller SA. (2013)","PXD000055","in-gel digestion with trypsin","Müller SA. (2013)"]
["PXD000054; 27552","Helicobacter pylori 26695",null,"Müller SA. (2013)","PXD000056","SEC fractionation of Low Molecular Weight proteins and subsequent LysC digestion","Müller SA. (2013)"]
["PXD000054; 27554","Helicobacter pylori 26695",null,"Müller SA. (2013)","PXD000057","SEC fractionation of Low Molecular Weight proteins and subsequent Trypsin digestion","Müller SA. (2013)"]
["PXD001246","Synechocystis sp. PCC 6803",null,"FASP","PXD001246","Identification of the membrane and the soluble proteins in Synechocystis sp. PCC6803 ","Gao, L. (2014)"]