35. Wang K, Wang Y, Wang X, Ren Q, Han S,
Ding L, Li Z, Zhou X, Li W, Zhang L (2018)
Comparative salivary proteomics analysis of
children with and without dental caries using
the iTRAQ/MRM approach. J Transl Med
16:1–13
36. Torabi M, Drahansky M, Paridah M, Moradbak A, Mohamed A, abdulwahab taiwo Owolabi F, Asniza M, Abdul Khalid SH (2016) We
are IntechOpen, the world’s leading publisher
of Open Access books Built by scientists, for
scientists TOP 1 %, Intech, vol. i, no. tourism,
p. 13
37. Jessie K, Hashim OH, Rahim ZHA (2008)
Protein precipitation method for salivary proteins and rehydration buffer for two-dimensional electrophoresis. Biotechnology 7(4):
686–693
38. Wessel D, Flu ¨gge UI (1984) A method for
the quantitative recovery of protein in dilute
solution in the presence of detergents and
lipids. Anal Biochem 138:141–143
39. Fullard RJ, Snyder C (1990) Protein levels in
nonstimulated and stimulated tears of normal
human subjects. IOVS 31(6)
40. Tiffany JM (2003) Tears in health and disease.
Eye 17:923–926
41. Zhou L, Zhao SZ, Koh SK, Chen L, Vaz C,
Tanavde V, Li XR, Beuerman RW (2012)
In-depth analysis of the human tear proteome. J Proteomics 75:3877–3885
42. Li N, Wang N, Zheng J, Liu XM, Lever OW,
Erickson PM, Li L (2005) Characterization of
human tear proteome using multiple proteomic analysis techniques. J Proteome Res
4:2052–2061
43. Green-Church KB, Nichols KK, Kleinholz
NM, Zhang L, Nichols JJ (2008) Investigation of the human tear film proteome using
multiple proteomic approaches. Mol Vis
14:456–470
44. Ablamowicz AF, Nichols JJ (2017) Concentrations of MUC16 and MUC5AC using
three tear collection methods. Mol Vis
23:529–537
45. Lema I, Brea D, Rodrı ´guez-Gonza ´lez R,
Dı ´ez-Feijoo E, Sobrino T (2010) Proteomic
analysis of the tear film in patients with keratoconus. Mol Vis 16:2055–2061
46. de Souza GA, Godoy LMF, Mann M (2006)
Identification of 491 proteins in the tear fluid
proteome reveals a large number of proteases
and protease inhibitors. Genome Biol 7(8):
R72
47. Nagaraj N, Mann M (2011) Quantitative
analysis of the intra- and inter-individual variability of the normal urinary proteome. J Proteome Res 10:637–645
48. Adachi J, Kumar C, Zhang Y, Olsen JV, Mann
M (2006) The human urinary proteome contains more than 1500 proteins, including a
large proportion of membrane proteins.
Genome Biol 7(9):R80
49. McDougal WS, William S (2012) CampbellWalsh urology tenth edition review. Elsevier/
Saunders, Philadelphia
50. Pusch W, Flocco MT, Leung SM, Thiele H,
Kostrzewa M (2003) Mass spectrometrybased clinical proteomics. Pharmacogenomics
4:463–476
51. Kalantari S, Jafari A, Moradpoor R,
Ghasemi E, Khalkhal E (2015) Human urine
proteomics: analytical techniques and clinical
applications in renal diseases. Int J Proteomics
2015:782798
52. Wu J, Chen YD, Gu W (2010) Urinary proteomics as a novel tool for biomarker discovery
in kidney diseases. J Zhejiang Univ Sci B
11:227–237
53. Shao C, Zhao M, Chen X, Sun H, Yang Y,
Xiao X, Guo Z, Liu X, Lv Y, Chen X, Sun W,
Wu D, Gao Y (2019) Comprehensive analysis
of individual variation in the urinary proteome
revealed significant gender differences. Mol
Cell Proteomics 18:1110–1122
54. Zhao M, Li M, Yang Y, Guo Z, Sun Y,
Shao C, Li M, Sun W, Gao Y (2017) A comprehensive analysis and annotation of human
normal urinary proteome. Sci Rep 7. https://
doi.org/10.1038/s41598-017-03226-6
55. Kong F-M, Zhao L, Wang L, Chen Y, Hu J,
Fu X, Bai C, Wang L, Lawrence TS, Anscher
MS, Dicker A, Okunieff P, Wang L, Chen Y,
Hu J, Fu X (2017) Ensuring sample quality
for blood biomarker studies in clinical trials: a
multicenter international study for plasma and
serum sample preparation. Transl Lung Cancer Res 6:625–634
56. Arapidi G, Osetrova M, Ivanova O,
Butenko I, Saveleva T, Pavlovich P,
Anikanov N, Ivanov V, Govorun V (2018)
Peptidomics dataset: blood plasma and
serum samples of healthy donors fractionated
on a set of chromatography sorbents. Data
Brief 18:1204–1211
57. Ignjatovic V, Geyer PE, Palaniappan K,
Chaaban J, Omenn G, Baker M, Deutsch E,
Schwenk J (2019) Mass spectrometry-based
plasma proteomics: considerations from sample collection to achieving translational data. J
Proteome Res 18(12):4085–4097
58. Geyer PE, Voytik E, Treit PV, Doll S,
Kleinhempel A, Niu L, Mu ¨ller JB,
Buchholtz M, Bader JM, Teupser D, Holdt
LM, Mann M (2019) Plasma Proteome
Profiling to detect and avoid sample-related
SWATH-MS Protocols in Human Diseases
137
Ding L, Li Z, Zhou X, Li W, Zhang L (2018)
Comparative salivary proteomics analysis of
children with and without dental caries using
the iTRAQ/MRM approach. J Transl Med
16:1–13
36. Torabi M, Drahansky M, Paridah M, Moradbak A, Mohamed A, abdulwahab taiwo Owolabi F, Asniza M, Abdul Khalid SH (2016) We
are IntechOpen, the world’s leading publisher
of Open Access books Built by scientists, for
scientists TOP 1 %, Intech, vol. i, no. tourism,
p. 13
37. Jessie K, Hashim OH, Rahim ZHA (2008)
Protein precipitation method for salivary proteins and rehydration buffer for two-dimensional electrophoresis. Biotechnology 7(4):
686–693
38. Wessel D, Flu ¨gge UI (1984) A method for
the quantitative recovery of protein in dilute
solution in the presence of detergents and
lipids. Anal Biochem 138:141–143
39. Fullard RJ, Snyder C (1990) Protein levels in
nonstimulated and stimulated tears of normal
human subjects. IOVS 31(6)
40. Tiffany JM (2003) Tears in health and disease.
Eye 17:923–926
41. Zhou L, Zhao SZ, Koh SK, Chen L, Vaz C,
Tanavde V, Li XR, Beuerman RW (2012)
In-depth analysis of the human tear proteome. J Proteomics 75:3877–3885
42. Li N, Wang N, Zheng J, Liu XM, Lever OW,
Erickson PM, Li L (2005) Characterization of
human tear proteome using multiple proteomic analysis techniques. J Proteome Res
4:2052–2061
43. Green-Church KB, Nichols KK, Kleinholz
NM, Zhang L, Nichols JJ (2008) Investigation of the human tear film proteome using
multiple proteomic approaches. Mol Vis
14:456–470
44. Ablamowicz AF, Nichols JJ (2017) Concentrations of MUC16 and MUC5AC using
three tear collection methods. Mol Vis
23:529–537
45. Lema I, Brea D, Rodrı ´guez-Gonza ´lez R,
Dı ´ez-Feijoo E, Sobrino T (2010) Proteomic
analysis of the tear film in patients with keratoconus. Mol Vis 16:2055–2061
46. de Souza GA, Godoy LMF, Mann M (2006)
Identification of 491 proteins in the tear fluid
proteome reveals a large number of proteases
and protease inhibitors. Genome Biol 7(8):
R72
47. Nagaraj N, Mann M (2011) Quantitative
analysis of the intra- and inter-individual variability of the normal urinary proteome. J Proteome Res 10:637–645
48. Adachi J, Kumar C, Zhang Y, Olsen JV, Mann
M (2006) The human urinary proteome contains more than 1500 proteins, including a
large proportion of membrane proteins.
Genome Biol 7(9):R80
49. McDougal WS, William S (2012) CampbellWalsh urology tenth edition review. Elsevier/
Saunders, Philadelphia
50. Pusch W, Flocco MT, Leung SM, Thiele H,
Kostrzewa M (2003) Mass spectrometrybased clinical proteomics. Pharmacogenomics
4:463–476
51. Kalantari S, Jafari A, Moradpoor R,
Ghasemi E, Khalkhal E (2015) Human urine
proteomics: analytical techniques and clinical
applications in renal diseases. Int J Proteomics
2015:782798
52. Wu J, Chen YD, Gu W (2010) Urinary proteomics as a novel tool for biomarker discovery
in kidney diseases. J Zhejiang Univ Sci B
11:227–237
53. Shao C, Zhao M, Chen X, Sun H, Yang Y,
Xiao X, Guo Z, Liu X, Lv Y, Chen X, Sun W,
Wu D, Gao Y (2019) Comprehensive analysis
of individual variation in the urinary proteome
revealed significant gender differences. Mol
Cell Proteomics 18:1110–1122
54. Zhao M, Li M, Yang Y, Guo Z, Sun Y,
Shao C, Li M, Sun W, Gao Y (2017) A comprehensive analysis and annotation of human
normal urinary proteome. Sci Rep 7. https://
doi.org/10.1038/s41598-017-03226-6
55. Kong F-M, Zhao L, Wang L, Chen Y, Hu J,
Fu X, Bai C, Wang L, Lawrence TS, Anscher
MS, Dicker A, Okunieff P, Wang L, Chen Y,
Hu J, Fu X (2017) Ensuring sample quality
for blood biomarker studies in clinical trials: a
multicenter international study for plasma and
serum sample preparation. Transl Lung Cancer Res 6:625–634
56. Arapidi G, Osetrova M, Ivanova O,
Butenko I, Saveleva T, Pavlovich P,
Anikanov N, Ivanov V, Govorun V (2018)
Peptidomics dataset: blood plasma and
serum samples of healthy donors fractionated
on a set of chromatography sorbents. Data
Brief 18:1204–1211
57. Ignjatovic V, Geyer PE, Palaniappan K,
Chaaban J, Omenn G, Baker M, Deutsch E,
Schwenk J (2019) Mass spectrometry-based
plasma proteomics: considerations from sample collection to achieving translational data. J
Proteome Res 18(12):4085–4097
58. Geyer PE, Voytik E, Treit PV, Doll S,
Kleinhempel A, Niu L, Mu ¨ller JB,
Buchholtz M, Bader JM, Teupser D, Holdt
LM, Mann M (2019) Plasma Proteome
Profiling to detect and avoid sample-related
SWATH-MS Protocols in Human Diseases
137