Dataset Information

CHPP chr 1,8,20 proteome dataset using the HCC cell lines of Hep3B and MHCC97H, instrument is Q Exactive, part 2 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 Q-Exactive. 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).

REANALYSED by: PAe005197

OTHER RELATED OMICS DATASETS IN: MSV000080255MSV000080256MSV000080254PAe005194PAe005189PAe005197PRJNA215765

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Liver, Permanent Cell Line Cell

SUBMITTER: Zhang Chengpu Zhang Chengpu

LAB HEAD: Zhang Chengpu Zhang Chengpu

PROVIDER: PXD000533 | Pride | 2013-12-16

REPOSITORIES: Pride

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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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