236 related articles for article (PubMed ID: 16646984)
1. Novel gene and gene model detection using a whole genome open reading frame analysis in proteomics.
Fermin D; Allen BB; Blackwell TW; Menon R; Adamski M; Xu Y; Ulintz P; Omenn GS; States DJ
Genome Biol; 2006; 7(4):R35. PubMed ID: 16646984
[TBL] [Abstract][Full Text] [Related]
2. Identification of new protein coding sequences and signal peptidase cleavage sites of Helicobacter pylori strain 26695 by proteogenomics.
Müller SA; Findeiß S; Pernitzsch SR; Wissenbach DK; Stadler PF; Hofacker IL; von Bergen M; Kalkhof S
J Proteomics; 2013 Jun; 86():27-42. PubMed ID: 23665149
[TBL] [Abstract][Full Text] [Related]
3. Deep coverage of the Escherichia coli proteome enables the assessment of false discovery rates in simple proteogenomic experiments.
Krug K; Carpy A; Behrends G; Matic K; Soares NC; Macek B
Mol Cell Proteomics; 2013 Nov; 12(11):3420-30. PubMed ID: 23908556
[TBL] [Abstract][Full Text] [Related]
4. Proteomic Detection and Validation of Translated Small Open Reading Frames.
Khitun A; Slavoff SA
Curr Protoc Chem Biol; 2019 Dec; 11(4):e77. PubMed ID: 31750990
[TBL] [Abstract][Full Text] [Related]
5. OpenCustomDB: Integration of Unannotated Open Reading Frames and Genetic Variants to Generate More Comprehensive Customized Protein Databases.
Guilloy N; Brunet MA; Leblanc S; Jacques JF; Hardy MP; Ehx G; Lanoix J; Thibault P; Perreault C; Roucou X
J Proteome Res; 2023 May; 22(5):1492-1500. PubMed ID: 36961377
[TBL] [Abstract][Full Text] [Related]
6. Pinstripe: a suite of programs for integrating transcriptomic and proteomic datasets identifies novel proteins and improves differentiation of protein-coding and non-coding genes.
Gascoigne DK; Cheetham SW; Cattenoz PB; Clark MB; Amaral PP; Taft RJ; Wilhelm D; Dinger ME; Mattick JS
Bioinformatics; 2012 Dec; 28(23):3042-50. PubMed ID: 23044541
[TBL] [Abstract][Full Text] [Related]
7. Detection of alternative splice variants at the proteome level in Aspergillus flavus.
Chang KY; Georgianna DR; Heber S; Payne GA; Muddiman DC
J Proteome Res; 2010 Mar; 9(3):1209-17. PubMed ID: 20047314
[TBL] [Abstract][Full Text] [Related]
8. [Analysis, identification and correction of some errors of model refseqs appeared in NCBI Human Gene Database by in silico cloning and experimental verification of novel human genes].
Zhang DL; Ji L; Li YD
Yi Chuan Xue Bao; 2004 May; 31(5):431-43. PubMed ID: 15478601
[TBL] [Abstract][Full Text] [Related]
9. Identification and analysis of small proteins and short open reading frame encoded peptides in Hep3B cell.
Wang B; Hao J; Pan N; Wang Z; Chen Y; Wan C
J Proteomics; 2021 Jan; 230():103965. PubMed ID: 32891891
[TBL] [Abstract][Full Text] [Related]
10. A proteogenomic analysis of Anopheles gambiae using high-resolution Fourier transform mass spectrometry.
Chaerkady R; Kelkar DS; Muthusamy B; Kandasamy K; Dwivedi SB; Sahasrabuddhe NA; Kim MS; Renuse S; Pinto SM; Sharma R; Pawar H; Sekhar NR; Mohanty AK; Getnet D; Yang Y; Zhong J; Dash AP; MacCallum RM; Delanghe B; Mlambo G; Kumar A; Keshava Prasad TS; Okulate M; Kumar N; Pandey A
Genome Res; 2011 Nov; 21(11):1872-81. PubMed ID: 21795387
[TBL] [Abstract][Full Text] [Related]
11. Improving gene annotation using peptide mass spectrometry.
Tanner S; Shen Z; Ng J; Florea L; Guigó R; Briggs SP; Bafna V
Genome Res; 2007 Feb; 17(2):231-9. PubMed ID: 17189379
[TBL] [Abstract][Full Text] [Related]
12. High-throughput proteogenomics of Ruegeria pomeroyi: seeding a better genomic annotation for the whole marine Roseobacter clade.
Christie-Oleza JA; Miotello G; Armengaud J
BMC Genomics; 2012 Feb; 13():73. PubMed ID: 22336032
[TBL] [Abstract][Full Text] [Related]
13. Integrated Transcriptomic-Proteomic Analysis Using a Proteogenomic Workflow Refines Rat Genome Annotation.
Kumar D; Yadav AK; Jia X; Mulvenna J; Dash D
Mol Cell Proteomics; 2016 Jan; 15(1):329-39. PubMed ID: 26560066
[TBL] [Abstract][Full Text] [Related]
14. A workflow to identify novel proteins based on the direct mapping of peptide-spectrum-matches to genomic locations.
Anders J; Petruschke H; Jehmlich N; Haange SB; von Bergen M; Stadler PF
BMC Bioinformatics; 2021 May; 22(1):277. PubMed ID: 34039272
[TBL] [Abstract][Full Text] [Related]
15. Characterization of 954 bovine full-CDS cDNA sequences.
Harhay GP; Sonstegard TS; Keele JW; Heaton MP; Clawson ML; Snelling WM; Wiedmann RT; Van Tassell CP; Smith TP
BMC Genomics; 2005 Nov; 6():166. PubMed ID: 16305752
[TBL] [Abstract][Full Text] [Related]
16. Integrating alternative splicing detection into gene prediction.
Foissac S; Schiex T
BMC Bioinformatics; 2005 Feb; 6():25. PubMed ID: 15705189
[TBL] [Abstract][Full Text] [Related]
17. Direct detection of alternative open reading frames translation products in human significantly expands the proteome.
Vanderperre B; Lucier JF; Bissonnette C; Motard J; Tremblay G; Vanderperre S; Wisztorski M; Salzet M; Boisvert FM; Roucou X
PLoS One; 2013; 8(8):e70698. PubMed ID: 23950983
[TBL] [Abstract][Full Text] [Related]
18. Overview of the HUPO Plasma Proteome Project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database.
Omenn GS; States DJ; Adamski M; Blackwell TW; Menon R; Hermjakob H; Apweiler R; Haab BB; Simpson RJ; Eddes JS; Kapp EA; Moritz RL; Chan DW; Rai AJ; Admon A; Aebersold R; Eng J; Hancock WS; Hefta SA; Meyer H; Paik YK; Yoo JS; Ping P; Pounds J; Adkins J; Qian X; Wang R; Wasinger V; Wu CY; Zhao X; Zeng R; Archakov A; Tsugita A; Beer I; Pandey A; Pisano M; Andrews P; Tammen H; Speicher DW; Hanash SM
Proteomics; 2005 Aug; 5(13):3226-45. PubMed ID: 16104056
[TBL] [Abstract][Full Text] [Related]
19. An integrative proteogenomics approach reveals peptides encoded by annotated lincRNA in the mouse kidney inner medulla.
Flower CT; Chen L; Jung HJ; Raghuram V; Knepper MA; Yang CR
Physiol Genomics; 2020 Oct; 52(10):485-491. PubMed ID: 32866085
[TBL] [Abstract][Full Text] [Related]
20. Plasma proteomics, the Human Proteome Project, and cancer-associated alternative splice variant proteins.
Omenn GS
Biochim Biophys Acta; 2014 May; 1844(5):866-73. PubMed ID: 24211518
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
