Literature DB >> 23138303

Uniting ENCODE with genome-wide proteomics.

Young-Ki Paik, William S Hancock.   

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Year:  2012        PMID： 23138303     DOI： 10.1038/nbt.2416

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN： 1087-0156            Impact factor:   54.908


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  9 in total

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Authors:  Simone Sidoli; Lei Cheng; Ole N Jensen
Journal:  J Proteomics       Date:  2012-01-03       Impact factor: 4.044

2.  The Chromosome-Centric Human Proteome Project for cataloging proteins encoded in the genome.

Authors:  Young-Ki Paik; Seul-Ki Jeong; Gilbert S Omenn; Mathias Uhlen; Samir Hanash; Sang Yun Cho; Hyoung-Joo Lee; Keun Na; Eun-Young Choi; Fangfei Yan; Fan Zhang; Yue Zhang; Michael Snyder; Yong Cheng; Rui Chen; György Marko-Varga; Eric W Deutsch; Hoguen Kim; Ja-Young Kwon; Ruedi Aebersold; Amos Bairoch; Allen D Taylor; Kwang Youl Kim; Eun-Young Lee; Denis Hochstrasser; Pierre Legrain; William S Hancock
Journal:  Nat Biotechnol       Date:  2012-03-07       Impact factor: 54.908

3.  New amplified and highly expressed genes discovered in the ERBB2 amplicon in breast cancer by cDNA microarrays.

Authors:  P Kauraniemi; M Bärlund; O Monni; A Kallioniemi
Journal:  Cancer Res       Date:  2001-11-15       Impact factor: 12.701

4.  Leveraging models of cell regulation and GWAS data in integrative network-based association studies.

Authors:  Andrea Califano; Atul J Butte; Stephen Friend; Trey Ideker; Eric Schadt
Journal:  Nat Genet       Date:  2012-07-27       Impact factor: 38.330

5.  GENCODE: the reference human genome annotation for The ENCODE Project.

Authors:  Jennifer Harrow; Adam Frankish; Jose M Gonzalez; Electra Tapanari; Mark Diekhans; Felix Kokocinski; Bronwen L Aken; Daniel Barrell; Amonida Zadissa; Stephen Searle; If Barnes; Alexandra Bignell; Veronika Boychenko; Toby Hunt; Mike Kay; Gaurab Mukherjee; Jeena Rajan; Gloria Despacio-Reyes; Gary Saunders; Charles Steward; Rachel Harte; Michael Lin; Cédric Howald; Andrea Tanzer; Thomas Derrien; Jacqueline Chrast; Nathalie Walters; Suganthi Balasubramanian; Baikang Pei; Michael Tress; Jose Manuel Rodriguez; Iakes Ezkurdia; Jeltje van Baren; Michael Brent; David Haussler; Manolis Kellis; Alfonso Valencia; Alexandre Reymond; Mark Gerstein; Roderic Guigó; Tim J Hubbard
Journal:  Genome Res       Date:  2012-09       Impact factor: 9.043

6.  Defining the transcriptome and proteome in three functionally different human cell lines.

Authors:  Emma Lundberg; Linn Fagerberg; Daniel Klevebring; Ivan Matic; Tamar Geiger; Juergen Cox; Cajsa Algenäs; Joakim Lundeberg; Matthias Mann; Mathias Uhlen
Journal:  Mol Syst Biol       Date:  2010-12-21       Impact factor: 11.429

7.  Mapping intact protein isoforms in discovery mode using top-down proteomics.

Authors:  John C Tran; Leonid Zamdborg; Dorothy R Ahlf; Ji Eun Lee; Adam D Catherman; Kenneth R Durbin; Jeremiah D Tipton; Adaikkalam Vellaichamy; John F Kellie; Mingxi Li; Cong Wu; Steve M M Sweet; Bryan P Early; Nertila Siuti; Richard D LeDuc; Philip D Compton; Paul M Thomas; Neil L Kelleher
Journal:  Nature       Date:  2011-10-30       Impact factor: 49.962

8.  Splicing programs and cancer.

Authors:  Sophie Germann; Lise Gratadou; Martin Dutertre; Didier Auboeuf
Journal:  J Nucleic Acids       Date:  2011-10-24

9.  An integrated encyclopedia of DNA elements in the human genome.

Authors: 
Journal:  Nature       Date:  2012-09-06       Impact factor: 49.962
  9 in total
  15 in total

Review 1.  Integrative biological analysis for neuropsychopharmacology.

Authors:  Mark R Emmett; Roger A Kroes; Joseph R Moskal; Charles A Conrad; Waldemar Priebe; Fernanda Laezza; Anke Meyer-Baese; Carol L Nilsson
Journal:  Neuropsychopharmacology       Date:  2013-06-26       Impact factor: 7.853

2.  Long noncoding RNA CCHE1 promotes cervical cancer cell proliferation via upregulating PCNA.

Authors:  Meng Yang; Xu Zhai; Bairong Xia; Yanying Wang; Ge Lou
Journal:  Tumour Biol       Date:  2015-04-29

Review 3.  Advances in the Chromosome-Centric Human Proteome Project: looking to the future.

Authors:  Young-Ki Paik; Gilbert S Omenn; William S Hancock; Lydie Lane; Christopher M Overall
Journal:  Expert Rev Proteomics       Date:  2017-11-10       Impact factor: 3.940

Review 4.  Proteome sequencing goes deep.

Authors:  Alicia L Richards; Anna E Merrill; Joshua J Coon
Journal:  Curr Opin Chem Biol       Date:  2014-11-08       Impact factor: 8.822

5.  Multiplexed Targeted Mass Spectrometry-Based Assays for the Quantification of N-Linked Glycosite-Containing Peptides in Serum.

Authors:  Stefani N Thomas; Robert Harlan; Jing Chen; Paul Aiyetan; Yansheng Liu; Lori J Sokoll; Ruedi Aebersold; Daniel W Chan; Hui Zhang
Journal:  Anal Chem       Date:  2015-10-21       Impact factor: 6.986

6.  Genome wide proteomics of ERBB2 and EGFR and other oncogenic pathways in inflammatory breast cancer.

Authors:  Emma Yue Zhang; Massimo Cristofanilli; Fredika Robertson; James M Reuben; Zhaomei Mu; Ronald C Beavis; Hogune Im; Michael Snyder; Matan Hofree; Trey Ideker; Gilbert S Omenn; Susan Fanayan; Seul-Ki Jeong; Young-Ki Paik; Anna Fan Zhang; Shiaw-Lin Wu; William S Hancock
Journal:  J Proteome Res       Date:  2013-05-22       Impact factor: 4.466

7.  Semi-automated biobank sample processing with a 384 high density sample tube robot used in cancer and cardiovascular studies.

Authors:  Johan Malm; Henrik Lindberg; David Erlinge; Roger Appelqvist; Maria Yakovleva; Charlotte Welinder; Erik Steinfelder; Thomas E Fehniger; György Marko-Varga
Journal:  Clin Transl Med       Date:  2015-08-14

8.  Establishing a Southern Swedish Malignant Melanoma OMICS and biobank clinical capability.

Authors:  Charlotte Welinder; Göran Jönsson; Christian Ingvar; Lotta Lundgren; Håkan Olsson; Thomas Breslin; Akos Végvári; Thomas Laurell; Melinda Rezeli; Bo Jansson; Bo Baldetorp; György Marko-Varga
Journal:  Clin Transl Med       Date:  2013-02-27

Review 9.  The role of quantitative mass spectrometry in the discovery of pancreatic cancer biomarkers for translational science.

Authors:  Daniel Ansari; Linus Aronsson; Agata Sasor; Charlotte Welinder; Melinda Rezeli; György Marko-Varga; Roland Andersson
Journal:  J Transl Med       Date:  2014-04-05       Impact factor: 5.531

Review 10.  Proteogenomic convergence for understanding cancer pathways and networks.

Authors:  Emily S Boja; Henry Rodriguez
Journal:  Clin Proteomics       Date:  2014-06-01       Impact factor: 3.988
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