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Omics evidence: single nucleotide variants transmissions on chromosome 20 in liver cancer cell lines.

Wang Q, Wen B, Wang T, Xu Z, Yin X, Xu S, Ren Z, Hou G, Zhou R, Zhao H, Zi J, Zhang S, Gao H, Lou X, Sun H, Feng Q, Chang C, Qin P, Zhang C, Li N, Zhu Y, Gu W, Zhong J, Zhang G, Yang P, Yan G, Shen H, Liu X, Lu H, Zhong F, He QY, Xu P, Lin L, Liu S.

J Proteome Res. 2014 Jan 3;13(1):200-11. doi: 10.1021/pr400899b. Epub 2013 Dec 5.


Qualitative and quantitative expression status of the human chromosome 20 genes in cancer tissues and the representative cell lines.

Wang Q, Wen B, Yan G, Wei J, Xie L, Xu S, Jiang D, Wang T, Lin L, Zi J, Zhang J, Zhou R, Zhao H, Ren Z, Qu N, Lou X, Sun H, Du C, Chen C, Zhang S, Tan F, Xian Y, Gao Z, He M, Chen L, Zhao X, Xu P, Zhu Y, Yin X, Shen H, Zhang Y, Jiang J, Zhang C, Li L, Chang C, Ma J, Yan G, Yao J, Lu H, Ying W, Zhong F, He QY, Liu S.

J Proteome Res. 2013 Jan 4;12(1):151-61. doi: 10.1021/pr3008336. Epub 2012 Dec 19.


Resolving chromosome-centric human proteome with translating mRNA analysis: a strategic demonstration.

Zhong J, Cui Y, Guo J, Chen Z, Yang L, He QY, Zhang G, Wang T.

J Proteome Res. 2014 Jan 3;13(1):50-9. doi: 10.1021/pr4007409. Epub 2013 Nov 15.


Systematic analysis of missing proteins provides clues to help define all of the protein-coding genes on human chromosome 1.

Zhang C, Li N, Zhai L, Xu S, Liu X, Cui Y, Ma J, Han M, Jiang J, Yang C, Fan F, Li L, Qin P, Yu Q, Chang C, Su N, Zheng J, Zhang T, Wen B, Zhou R, Lin L, Lin Z, Zhou B, Zhang Y, Yan G, Liu Y, Yang P, Guo K, Gu W, Chen Y, Zhang G, He QY, Wu S, Wang T, Shen H, Wang Q, Zhu Y, He F, Xu P.

J Proteome Res. 2014 Jan 3;13(1):114-25. doi: 10.1021/pr400900j. Epub 2013 Nov 25.


Proteogenomic analysis of human chromosome 9-encoded genes from human samples and lung cancer tissues.

Ahn JM, Kim MS, Kim YI, Jeong SK, Lee HJ, Lee SH, Paik YK, Pandey A, Cho JY.

J Proteome Res. 2014 Jan 3;13(1):137-46. doi: 10.1021/pr400792p. Epub 2013 Dec 6.


Induction of rat WT1 gene expression correlates with human chromosome 11p11.2-p12-mediated suppression of tumorigenicity in rat liver epithelial tumor cell lines.

Coleman WB, Ricketts SL, Borchert KM, Presnell SC, Esch GL, McCullough KD, Weissman BE, Smith GJ, Grisham JW.

Int J Oncol. 1999 May;14(5):957-63.


Mass spectrometry (LC-MS/MS) identified proteomic biosignatures of breast cancer in proximal fluid.

Whelan SA, He J, Lu M, Souda P, Saxton RE, Faull KF, Whitelegge JP, Chang HR.

J Proteome Res. 2012 Oct 5;11(10):5034-45. doi: 10.1021/pr300606e. Epub 2012 Sep 20.


A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17.

Liu S, Im H, Bairoch A, Cristofanilli M, Chen R, Deutsch EW, Dalton S, Fenyo D, Fanayan S, Gates C, Gaudet P, Hincapie M, Hanash S, Kim H, Jeong SK, Lundberg E, Mias G, Menon R, Mu Z, Nice E, Paik YK, Uhlen M, Wells L, Wu SL, Yan F, Zhang F, Zhang Y, Snyder M, Omenn GS, Beavis RC, Hancock WS.

J Proteome Res. 2013 Jan 4;12(1):45-57. doi: 10.1021/pr300985j. Epub 2012 Dec 21.


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

Liu Y, Ying W, Ren Z, Gu W, Zhang Y, Yan G, Yang P, Liu Y, Yin X, Chang C, Jiang J, Fan F, Zhang C, Xu P, Wang Q, Wen B, Lin L, Wang T, Du C, Zhong J, Wang T, He QY, Qian X, Lou X, Zhang G, Zhong F.

J Proteome Res. 2014 Jan 3;13(1):126-36. doi: 10.1021/pr400902u. Epub 2013 Dec 11.


Appraisal of the Missing Proteins Based on the mRNAs Bound to Ribosomes.

Xu S, Zhou R, Ren Z, Zhou B, Lin Z, Hou G, Deng Y, Zi J, Lin L, Wang Q, Liu X, Xu X, Wen B, Liu S.

J Proteome Res. 2015 Dec 4;14(12):4976-84. doi: 10.1021/acs.jproteome.5b00476. Epub 2015 Nov 5.


Translating mRNAs strongly correlate to proteins in a multivariate manner and their translation ratios are phenotype specific.

Wang T, Cui Y, Jin J, Guo J, Wang G, Yin X, He QY, Zhang G.

Nucleic Acids Res. 2013 May;41(9):4743-54. doi: 10.1093/nar/gkt178. Epub 2013 Mar 21.


Metastatic susceptibility locus, an 8p hot-spot for tumour progression disrupted in colorectal liver metastases: 13 candidate genes examined at the DNA, mRNA and protein level.

Macartney-Coxson DP, Hood KA, Shi HJ, Ward T, Wiles A, O'Connor R, Hall DA, Lea RA, Royds JA, Stubbs RS, Rooker S.

BMC Cancer. 2008 Jul 1;8:187. doi: 10.1186/1471-2407-8-187.


Suppression of tumorigenicity of rat liver tumor cells by human chromosome 13: evidence against the involvement of pRb and BRCA2.

Rider MA, Butz GM, Ricketts SL, Newberry ST, Grisham JW, Coleman WB.

Int J Oncol. 2002 Feb;20(2):235-45.


The effect of heterogeneous Transcription Start Sites (TSS) on the translatome: implications for the mammalian cellular phenotype.

Dieudonné FX, O'Connor PB, Gubler-Jaquier P, Yasrebi H, Conne B, Nikolaev S, Antonarakis S, Baranov PV, Curran J.

BMC Genomics. 2015 Nov 21;16:986. doi: 10.1186/s12864-015-2179-8.


Deep proteome coverage based on ribosome profiling aids mass spectrometry-based protein and peptide discovery and provides evidence of alternative translation products and near-cognate translation initiation events.

Menschaert G, Van Criekinge W, Notelaers T, Koch A, Crappé J, Gevaert K, Van Damme P.

Mol Cell Proteomics. 2013 Jul;12(7):1780-90. doi: 10.1074/mcp.M113.027540. Epub 2013 Feb 21.


Systematic analyses of the transcriptome, translatome, and proteome provide a global view and potential strategy for the C-HPP.

Chang C, Li L, Zhang C, Wu S, Guo K, Zi J, Chen Z, Jiang J, Ma J, Yu Q, Fan F, Qin P, Han M, Su N, Chen T, Wang K, Zhai L, Zhang T, Ying W, Xu Z, Zhang Y, Liu Y, Liu X, Zhong F, Shen H, Wang Q, Hou G, Zhao H, Li G, Liu S, Gu W, Wang G, Wang T, Zhang G, Qian X, Li N, He QY, Lin L, Yang P, Zhu Y, He F, Xu P.

J Proteome Res. 2014 Jan 3;13(1):38-49. doi: 10.1021/pr4009018. Epub 2013 Dec 16.


Quantitative proteomics study of breast cancer cell lines isolated from a single patient: discovery of TIMM17A as a marker for breast cancer.

Xu X, Qiao M, Zhang Y, Jiang Y, Wei P, Yao J, Gu B, Wang Y, Lu J, Wang Z, Tang Z, Sun Y, Wu W, Shi Q.

Proteomics. 2010 Apr;10(7):1374-90. doi: 10.1002/pmic.200900380.


Overlapping high-resolution copy number alterations in cancer genomes identified putative cancer genes in hepatocellular carcinoma.

Chen CF, Hsu EC, Lin KT, Tu PH, Chang HW, Lin CH, Chen YJ, Gu DL, Lin CH, Wu JY, Chen YT, Hsu MT, Jou YS.

Hepatology. 2010 Nov;52(5):1690-701. doi: 10.1002/hep.23847.


Mitotic checkpoint protein hsMAD2 as a marker predicting liver metastasis of human gastric cancers.

Tanaka K, Nishioka J, Kato K, Nakamura A, Mouri T, Miki C, Kusunoki M, Nobori T.

Jpn J Cancer Res. 2001 Sep;92(9):952-8.


Metastasis-related plasma membrane proteins of human breast cancer cells identified by comparative quantitative mass spectrometry.

Leth-Larsen R, Lund R, Hansen HV, Laenkholm AV, Tarin D, Jensen ON, Ditzel HJ.

Mol Cell Proteomics. 2009 Jun;8(6):1436-49. doi: 10.1074/mcp.M800061-MCP200. Epub 2009 Mar 24.

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