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Proteomic databases

OptiMissP: A dashboard to assess missingness in proteomic data-independent acquisition mass spectrometry

Angelica Arioli, Arianna Dagliati, Bethany Geary, Niels Peek, Philip A. Kalra, Anthony D. Whetton, Nophar Geifman

published 15 Apr 2021

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MCPdb: The bacterial microcompartment database

Jessica M. Ochoa, Kaylie Bair, Thomas Holton, Thomas A. Bobik, Todd O. Yeates

published 29 Mar 2021

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Disclosing proteins in the leaves of cork oak plants associated with the immune response to Phytophthora cinnamomi inoculation in the roots: A long-term proteomics approach

Ana Cristina Coelho, Rosa Pires, Gabriela Schütz, Cátia Santa, Bruno Manadas, Patrícia Pinto

published 22 Jan 2021

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Missing value imputation in proximity extension assay-based targeted proteomics data

Michael Lenz, Andreas Schulz, Thomas Koeck, Steffen Rapp, Markus Nagler, Madeleine Sauer, Lisa Eggebrecht, Vincent Ten Cate, Marina Panova-Noeva, Jürgen H. Prochaska, Karl J. Lackner, Thomas Münzel, Kirsten Leineweber, Philipp S. Wild, Miguel A. Andrade-Navarro

published 14 Dec 2020

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dagLogo: An R/Bioconductor package for identifying and visualizing differential amino acid group usage in proteomics data

Jianhong Ou, Haibo Liu, Niraj K. Nirala, Alexey Stukalov, Usha Acharya, Michael R. Green, Lihua Julie Zhu

published 06 Nov 2020

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Comparative proteomic analysis of silica-induced pulmonary fibrosis in rats based on tandem mass tag (TMT) quantitation technology

Cunxiang Bo, Xiao Geng, Juan Zhang, Linlin Sai, Yu Zhang, Gongchang Yu, Zhenling Zhang, Kai Liu, Zhongjun Du, Cheng Peng, Qiang Jia, Hua Shao

published 29 Oct 2020

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ZnO and TiO₂ nanoparticles alter the ability of Bacillus subtilis to fight against a stress

Elise Eymard-Vernain, Sylvie Luche, Thierry Rabilloud, Cécile Lelong

published 12 Oct 2020

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New label-free methods for protein relative quantification applied to the investigation of an animal model of Huntington Disease

Flora Cozzolino, Alfredo Landolfi, Ilaria Iacobucci, Vittoria Monaco, Marianna Caterino, Simona Celentano, Chiara Zuccato, Elena Cattaneo, Maria Monti

published 04 Sep 2020

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Side chain flexibility and the symmetry of protein homodimers

Yaffa Shalit, Inbal Tuvi-Arad

published 24 Jul 2020

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Methylglyoxal and D-lactate in cisplatin-induced acute kidney injury: Investigation of the potential mechanism via fluorogenic derivatization liquid chromatography-tandem mass spectrometry (FD-LC-MS/MS) proteomic analysis

Shih-Ming Chen, Tsung-Hui Chen, Hui-Ting Chang, Tzu-Yao Lin, Chia-Yu Lin, Pei-Yun Tsai, Kazuhiro Imai, Chien-Ming Chen, Jen-Ai Lee

published 10 Jul 2020

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Visualisation tools for dependent peptide searches to support the exploration of in vitro protein modifications

George W. Preston, Liping Yang, David H. Phillips, Claudia S. Maier

published 08 Jul 2020

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Fermentable fiber-induced hepatocellular carcinoma in mice recapitulates gene signatures found in human liver cancer

Darshan Shimoga Chandrashekar, Rachel M. Golonka, Beng San Yeoh, David J. Gonzalez, Mathias Heikenwälder, Andrew T. Gerwirtz, Sooryanarayana Varambally, Matam Vijay-Kumar

published 19 Jun 2020

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Laser capture microdissection in combination with mass spectrometry: Approach to characterization of tissue-specific proteomes of Eudiplozoon nipponicum (Monogenea, Polyopisthocotylea)

Pavel Roudnický, David Potěšil, Zbyněk Zdráhal, Milan Gelnar, Martin Kašný

published 17 Jun 2020

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