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Items: 1 to 20 of 21

1.

Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq).

Lagarde J, Uszczynska-Ratajczak B, Santoyo-Lopez J, Gonzalez JM, Tapanari E, Mudge JM, Steward CA, Wilming L, Tanzer A, Howald C, Chrast J, Vela-Boza A, Rueda A, Lopez-Domingo FJ, Dopazo J, Reymond A, Guigó R, Harrow J.

Nat Commun. 2016 Aug 17;7:12339. doi: 10.1038/ncomms12339.

PMID:
27531712
2.

Putative extremely high rate of proteome innovation in lancelets might be explained by high rate of gene prediction errors.

Bányai L, Patthy L.

Sci Rep. 2016 Aug 1;6:30700. doi: 10.1038/srep30700.

PMID:
27476717
3.

LEON-BIS: multiple alignment evaluation of sequence neighbours using a Bayesian inference system.

Vanhoutreve R, Kress A, Legrand B, Gass H, Poch O, Thompson JD.

BMC Bioinformatics. 2016 Jul 7;17(1):271. doi: 10.1186/s12859-016-1146-y.

PMID:
27387560
4.

Improving GENCODE reference gene annotation using a high-stringency proteogenomics workflow.

Wright JC, Mudge J, Weisser H, Barzine MP, Gonzalez JM, Brazma A, Choudhary JS, Harrow J.

Nat Commun. 2016 Jun 2;7:11778. doi: 10.1038/ncomms11778.

PMID:
27250503
5.

Morphometric Analysis of Recognized Genes for Autism Spectrum Disorders and Obesity in Relationship to the Distribution of Protein-Coding Genes on Human Chromosomes.

McGuire AB, Rafi SK, Manzardo AM, Butler MG.

Int J Mol Sci. 2016 May 5;17(5). pii: E673. doi: 10.3390/ijms17050673.

PMID:
27164088
6.

Contrasting Patterns in the Evolution of Vertebrate MLX Interacting Protein (MLXIP) and MLX Interacting Protein-Like (MLXIPL) Genes.

Singh P, Irwin DM.

PLoS One. 2016 Feb 24;11(2):e0149682. doi: 10.1371/journal.pone.0149682. eCollection 2016.

PMID:
26910886
7.

WISCOD: a statistical web-enabled tool for the identification of significant protein coding regions.

Vilardell M, Parra G, Civit S.

Biomed Res Int. 2014;2014:282343. doi: 10.1155/2014/282343. Epub 2014 Sep 15.

PMID:
25313355
8.

Is an observed non-co-linear RNA product spliced in trans, in cis or just in vitro?

Yu CY, Liu HJ, Hung LY, Kuo HC, Chuang TJ.

Nucleic Acids Res. 2014 Aug;42(14):9410-23. doi: 10.1093/nar/gku643. Epub 2014 Jul 22.

PMID:
25053845
9.

Assessment and refinement of eukaryotic gene structure prediction with gene-structure-aware multiple protein sequence alignment.

Gotoh O, Morita M, Nelson DR.

BMC Bioinformatics. 2014 Jun 14;15:189. doi: 10.1186/1471-2105-15-189.

PMID:
24927652
10.

Reassessing domain architecture evolution of metazoan proteins: major impact of gene prediction errors.

Nagy A, Szláma G, Szarka E, Trexler M, Bányai L, Patthy L.

Genes (Basel). 2011 Jul 13;2(3):449-501. doi: 10.3390/genes2030449. Erratum in: Genes (Basel). 2011;2(3):599-607.

PMID:
24710207
11.

FixPred: a resource for correction of erroneous protein sequences.

Nagy A, Patthy L.

Database (Oxford). 2014 Apr 4;2014:bau032. doi: 10.1093/database/bau032. Print 2014.

PMID:
24705206
12.

MisPred: a resource for identification of erroneous protein sequences in public databases.

Nagy A, Patthy L.

Database (Oxford). 2013 Jul 17;2013:bat053. doi: 10.1093/database/bat053. Print 2013.

PMID:
23864220
13.

Generation and analysis of the expressed sequence tags from the mycelium of Ganoderma lucidum.

Huang YH, Wu HY, Wu KM, Liu TT, Liou RF, Tsai SF, Shiao MS, Ho LT, Tzean SS, Yang UC.

PLoS One. 2013 May 2;8(5):e61127. doi: 10.1371/journal.pone.0061127. Print 2013. Erratum in: PLoS One. 2013;8(9). doi:10.1371/annotation/d3ee6fb1-5239-4a09-b197-379d22f27163.

PMID:
23658685
14.

Evaluating high-throughput ab initio gene finders to discover proteins encoded in eukaryotic pathogen genomes missed by laboratory techniques.

Goodswen SJ, Kennedy PJ, Ellis JT.

PLoS One. 2012;7(11):e50609. doi: 10.1371/journal.pone.0050609. Epub 2012 Nov 30.

PMID:
23226328
15.

Controversies in modern evolutionary biology: the imperative for error detection and quality control.

Prosdocimi F, Linard B, Pontarotti P, Poch O, Thompson JD.

BMC Genomics. 2012 Jan 4;13:5. doi: 10.1186/1471-2164-13-5.

PMID:
22217008
16.

EuroPineDB: a high-coverage web database for maritime pine transcriptome.

Fernández-Pozo N, Canales J, Guerrero-Fernández D, Villalobos DP, Díaz-Moreno SM, Bautista R, Flores-Monterroso A, Guevara MÁ, Perdiguero P, Collada C, Cervera MT, Soto A, Ordás R, Cantón FR, Avila C, Cánovas FM, Claros MG.

BMC Genomics. 2011 Jul 15;12:366. doi: 10.1186/1471-2164-12-366.

PMID:
21762488
17.

Selenoprofiles: profile-based scanning of eukaryotic genome sequences for selenoprotein genes.

Mariotti M, Guigó R.

Bioinformatics. 2010 Nov 1;26(21):2656-63. doi: 10.1093/bioinformatics/btq516. Epub 2010 Sep 21.

PMID:
20861026
18.

Agrin binds BMP2, BMP4 and TGFbeta1.

Bányai L, Sonderegger P, Patthy L.

PLoS One. 2010 May 21;5(5):e10758. doi: 10.1371/journal.pone.0010758.

PMID:
20505824
19.

AphidBase: a centralized bioinformatic resource for annotation of the pea aphid genome.

Legeai F, Shigenobu S, Gauthier JP, Colbourne J, Rispe C, Collin O, Richards S, Wilson AC, Murphy T, Tagu D.

Insect Mol Biol. 2010 Mar;19 Suppl 2:5-12. doi: 10.1111/j.1365-2583.2009.00930.x.

PMID:
20482635
20.

Between a chicken and a grape: estimating the number of human genes.

Pertea M, Salzberg SL.

Genome Biol. 2010;11(5):206. doi: 10.1186/gb-2010-11-5-206. Epub 2010 May 5. Review.

PMID:
20441615

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