Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 Study
One of the major goals of the Chromosome-Centric Human Proteome Project (C-HPP) is to catalog and annotate a myriad of heterogeneous proteoforms, produced by ca. 20 thousand genes. To achieve a detailed and personalized understanding into proteomes, we suggest using a customized RNA-seq library of p...
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doaj-f695ade779a4456fab0102c62514d15e2020-11-25T03:21:55ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672020-05-01213813381310.3390/ijms21113813Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 StudyOlga Kiseleva0Elena Ponomarenko1Ekaterina Poverennaya2Institute of Biomedical Chemistry, Moscow 119121, RussiaInstitute of Biomedical Chemistry, Moscow 119121, RussiaInstitute of Biomedical Chemistry, Moscow 119121, RussiaOne of the major goals of the Chromosome-Centric Human Proteome Project (C-HPP) is to catalog and annotate a myriad of heterogeneous proteoforms, produced by ca. 20 thousand genes. To achieve a detailed and personalized understanding into proteomes, we suggest using a customized RNA-seq library of potential proteoforms, which includes aberrant variants specific to certain biological samples. Two-dimensional electrophoresis coupled with high-performance liquid chromatography allowed us to downgrade the difficulty of biological mixing following shotgun mass spectrometry. To benchmark the proposed pipeline, we examined heterogeneity of the HepG2 hepatoblastoma cell line proteome. Data are available via ProteomeXchange with identifier PXD018450.https://www.mdpi.com/1422-0067/21/11/3813proteometranscriptomeproteoformsalternative splicingsingle amino acid polymorphismspost-translational modifications |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Olga Kiseleva Elena Ponomarenko Ekaterina Poverennaya |
spellingShingle |
Olga Kiseleva Elena Ponomarenko Ekaterina Poverennaya Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 Study International Journal of Molecular Sciences proteome transcriptome proteoforms alternative splicing single amino acid polymorphisms post-translational modifications |
author_facet |
Olga Kiseleva Elena Ponomarenko Ekaterina Poverennaya |
author_sort |
Olga Kiseleva |
title |
Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 Study |
title_short |
Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 Study |
title_full |
Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 Study |
title_fullStr |
Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 Study |
title_full_unstemmed |
Empowering Shotgun Mass Spectrometry with 2DE: A HepG2 Study |
title_sort |
empowering shotgun mass spectrometry with 2de: a hepg2 study |
publisher |
MDPI AG |
series |
International Journal of Molecular Sciences |
issn |
1661-6596 1422-0067 |
publishDate |
2020-05-01 |
description |
One of the major goals of the Chromosome-Centric Human Proteome Project (C-HPP) is to catalog and annotate a myriad of heterogeneous proteoforms, produced by ca. 20 thousand genes. To achieve a detailed and personalized understanding into proteomes, we suggest using a customized RNA-seq library of potential proteoforms, which includes aberrant variants specific to certain biological samples. Two-dimensional electrophoresis coupled with high-performance liquid chromatography allowed us to downgrade the difficulty of biological mixing following shotgun mass spectrometry. To benchmark the proposed pipeline, we examined heterogeneity of the HepG2 hepatoblastoma cell line proteome. Data are available via ProteomeXchange with identifier PXD018450. |
topic |
proteome transcriptome proteoforms alternative splicing single amino acid polymorphisms post-translational modifications |
url |
https://www.mdpi.com/1422-0067/21/11/3813 |
work_keys_str_mv |
AT olgakiseleva empoweringshotgunmassspectrometrywith2deahepg2study AT elenaponomarenko empoweringshotgunmassspectrometrywith2deahepg2study AT ekaterinapoverennaya empoweringshotgunmassspectrometrywith2deahepg2study |
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1724612413764927488 |