Format
Sort by

Send to

Choose Destination

Search results

Items: 1 to 20 of 97

1.

The state of play in higher eukaryote gene annotation.

Mudge JM, Harrow J.

Nat Rev Genet. 2016 Dec;17(12):758-772. doi: 10.1038/nrg.2016.119.

PMID:
27773922
2.

A flexible data analysis pipeline for high-confidence proteogenomics.

Weisser H, Wright JC, Mudge JM, Gutenbrunner P, Choudhary JS.

J Proteome Res. 2016 Oct 27. [Epub ahead of print]

PMID:
27786492
3.

Transcriptome Sequencing of Diverse Peanut (Arachis) Wild Species and the Cultivated Species Reveals a Wealth of Untapped Genetic Variability.

Chopra R, Burow G, Simpson CE, Chagoya J, Mudge J, Burow MD.

G3 (Bethesda). 2016 Oct 11. pii: g3.115.026898. doi: 10.1534/g3.115.026898. [Epub ahead of print]

4.

Gene Evolutionary Trajectories and GC Patterns Driven by Recombination in Zea mays.

Sundararajan A, Dukowic-Schulze S, Kwicklis M, Engstrom K, Garcia N, Oviedo OJ, Ramaraj T, Gonzales MD, He Y, Wang M, Sun Q, Pillardy J, Kianian SF, Pawlowski WP, Chen C, Mudge J.

Front Plant Sci. 2016 Sep 22;7:1433.

5.

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.

6.

Augmenting Chinese hamster genome assembly by identifying regions of high confidence.

Vishwanathan N, Bandyopadhyay AA, Fu HY, Sharma M, Johnson KC, Mudge J, Ramaraj T, Onsongo G, Silverstein KA, Jacob NM, Le H, Karypis G, Hu WS.

Biotechnol J. 2016 Sep;11(9):1151-7. doi: 10.1002/biot.201500455.

PMID:
27374913
7.

Characterization, correction and de novo assembly of an Oxford Nanopore genomic dataset from Agrobacterium tumefaciens.

Deschamps S, Mudge J, Cameron C, Ramaraj T, Anand A, Fengler K, Hayes K, Llaca V, Jones TJ, May G.

Sci Rep. 2016 Jun 28;6:28625. doi: 10.1038/srep28625.

8.

Novel Meiotic miRNAs and Indications for a Role of PhasiRNAs in Meiosis.

Dukowic-Schulze S, Sundararajan A, Ramaraj T, Kianian S, Pawlowski WP, Mudge J, Chen C.

Front Plant Sci. 2016 Jun 2;7:762. doi: 10.3389/fpls.2016.00762.

9.

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.

10.

The combined influence of two agricultural contaminants on natural communities of phytoplankton and zooplankton.

Baker LF, Mudge JF, Thompson DG, Houlahan JE, Kidd KA.

Ecotoxicology. 2016 Jul;25(5):1021-32. doi: 10.1007/s10646-016-1659-1.

PMID:
27112456
11.

Ancient horizontal transfers of retrotransposons between birds and ancestors of human pathogenic nematodes.

Suh A, Witt CC, Menger J, Sadanandan KR, Podsiadlowski L, Gerth M, Weigert A, McGuire JA, Mudge J, Edwards SV, Rheindt FE.

Nat Commun. 2016 Apr 21;7:11396. doi: 10.1038/ncomms11396.

12.

The plant-specific protein FEHLSTART controls male meiotic entry, initializing meiotic synchronization in Arabidopsis.

Li J, Dukowic-Schulze S, Lindquist IE, Farmer AD, Kelly B, Li T, Smith AG, Retzel EF, Mudge J, Chen C.

Plant J. 2015 Nov;84(4):659-71. doi: 10.1111/tpj.13026.

13.

Creating reference gene annotation for the mouse C57BL6/J genome assembly.

Mudge JM, Harrow J.

Mamm Genome. 2015 Oct;26(9-10):366-78. doi: 10.1007/s00335-015-9583-x.

14.

Monte Carlo-based distance analysis using unit mass resolution ICP-MS data for shellfish site of origin verification.

Mudge JF, Engel ME, Ryan CN, Klein DM.

Integr Environ Assess Manag. 2015 Jul;11(3):515-6. doi: 10.1002/ieam.1648. No abstract available.

PMID:
26119767
15.

Comparison of GENCODE and RefSeq gene annotation and the impact of reference geneset on variant effect prediction.

Frankish A, Uszczynska B, Ritchie GR, Gonzalez JM, Pervouchine D, Petryszak R, Mudge JM, Fonseca N, Brazma A, Guigo R, Harrow J.

BMC Genomics. 2015;16 Suppl 8:S2. doi: 10.1186/1471-2164-16-S8-S2.

16.

Polarimetric characterization of birefringent filter components.

Mudge J, Mitchell K, Tarbell T.

Appl Opt. 2015 Jan 10;54(2):259-65. doi: 10.1364/AO.54.000259.

PMID:
25967624
17.

Comparative genome analysis of non-toxigenic non-O1 versus toxigenic O1 Vibrio cholerae.

Mukherjee M, Kakarla P, Kumar S, Gonzalez E, Floyd JT, Inupakutika M, Devireddy AR, Tirrell SR, Bruns M, He G, Lindquist IE, Sundararajan A, Schilkey FD, Mudge J, Varela MF.

Genom Discov. 2014;2(1):1-15.

18.

Next-generation transcriptome sequencing, SNP discovery and validation in four market classes of peanut, Arachis hypogaea L.

Chopra R, Burow G, Farmer A, Mudge J, Simpson CE, Wilkins TA, Baring MR, Puppala N, Chamberlin KD, Burow MD.

Mol Genet Genomics. 2015 Jun;290(3):1169-80. doi: 10.1007/s00438-014-0976-4.

PMID:
25663138
19.

Comparisons of de novo transcriptome assemblers in diploid and polyploid species using peanut (Arachis spp.) RNA-Seq data.

Chopra R, Burow G, Farmer A, Mudge J, Simpson CE, Burow MD.

PLoS One. 2014 Dec 31;9(12):e115055. doi: 10.1371/journal.pone.0115055.

20.

Draft Genome Sequences of Vancomycin-Susceptible Staphylococcus aureus Related to Heterogeneous Vancomycin-Intermediate S. aureus.

Ramaraj T, Matyi SA, Sundararajan A, Lindquist IE, Devitt NP, Schilkey FD, Lamichhane-Khadka R, Hoyt PR, Mudge J, Gustafson JE.

Genome Announc. 2014 Oct 9;2(5). pii: e01033-14. doi: 10.1128/genomeA.01033-14.

Items per page

Supplemental Content

Loading ...
Support Center