Dataset Information

CHPP chr 1,8,20 proteome dataset using the HCC cell lines of Hep3B and MHCC97H, instrument is AB5600, part 3 of 3

ABSTRACT: The fresh cells as described above were harvested and lysed in buffer containing 8 M Urea, 50 mM NH4HCO3 and 5 mM IAA. The total cell lysates were centrifuged with 12,000 g for 10 min at 4 degrees Celsius to remove cell debris, and 1.5 mg proteins for each cell line were followed by sequential in-solution protein digestion by Lys-C and trypsin at 37 degrees Celsius respectively. The tryptic peptides were cleaned by C18 Sep-Pak column (Waters UK Ltd, Manchester, UK). The mass spectrometer used in this dataset was Triple TOF 5600 (AB SCIEX, Concord, ON). The dataset was produced with two technical replicates and 24 fractions per repeat. The database searching procedure was achieved using Mascot v2.3. The database is Swiss-prot (release 2013 -6).

OTHER RELATED OMICS DATASETS IN: PXD000529PXD000535PXD000533PAe005194PAe005189PAe005197PRJNA215765

INSTRUMENT(S): MS:1000031

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: None Listed

PROVIDER: MSV000080256 | MassIVE | Thu Oct 20 12:41:00 BST 2016

SECONDARY ACCESSION(S): PXD000535

REPOSITORIES: MassIVE

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Publications

Chromosome-8-coded proteome of Chinese Chromosome Proteome Data set (CCPD) 2.0 with partial immunohistochemical verifications.

Liu Yang Y Ying Wantao W Ren Zhe Z Gu Wei W Zhang Yang Y Yan Guoquan G Yang Pengyuan P Liu Yinkun Y Yin Xuefei X Chang Cheng C Jiang Jing J Fan Fengxu F Zhang Chengpu C Xu Ping P Wang Quanhui Q Wen Bo B Lin Liang L Wang Tingyou T Du Chaoqin C Zhong Jiayong J Wang Tong T He Qing-Yu QY Qian Xiaohong X Lou Xiaomin X Zhang Gong G Zhong Fan F

Journal of proteome research 20131211 1

We upgraded the preliminary CCPD 1.0 to CCPD 2.0 using the latest deep-profiling proteome (CCPD 2013) of three hepatocellular carcinoma (HCC) cell lines, namely, Hep3B, MHCC97H, and HCCLM3 (ProteomeXchange identifiers: PXD000529, PXD000533, and PXD000535). CCPD 2.0 totally covered 63.6% (438/689) of Chr. 8-coded proteins and 62.6% (439/701) of Chr. 8-coded protein-coding genes. Interestingly, we found that the missing proteins exhibited a tendency to form a cluster region in chromosomes, such as ...[more]

PMID: 24328083

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