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Items: 1 to 50 of 69

1.

Comparative Survival Analysis of Invasive Breast Cancer Patients Treated by a U.S. Military Medical Center and Matched Patients From the U.S. General Population.

Ru Y, Liu J, Fantacone-Campbell JL, Zhu K, Kovatich AJ, Hooke JA, Kvecher L, Deyarmin B, Kovatich AW, Cammarata F, Hueman MT, Rui H, Mural RJ, Shriver CD, Hu H.

Mil Med. 2017 Nov;182(11):e1851-e1858. doi: 10.7205/MILMED-D-17-00097.

PMID:
29087852
2.

A Subset of Ubiquitin-Conjugating Enzymes Is Essential for Plant Immunity.

Zhou B, Mural RV, Chen X, Oates ME, Connor RA, Martin GB, Gough J, Zeng L.

Plant Physiol. 2017 Feb;173(2):1371-1390. doi: 10.1104/pp.16.01190. Epub 2016 Dec 1.

3.

Positive Association of Fibroadenomatoid Change with HER2-Negative Invasive Breast Cancer: A Co-Occurrence Study.

Chen Y, Bekhash A, Kovatich AJ, Hooke JA, Liu J, Kvecher L, Fantacone-Campbell JL, Mitchell EP, Rui H, Mural RJ, Shriver CD, Hu H.

PLoS One. 2015 Jun 22;10(6):e0129500. doi: 10.1371/journal.pone.0129500. eCollection 2015.

4.

The tomato ubiquitin-conjugating enzyme variant Suv, but not SlUev1C and SlUev1D regulates Fen-mediated programmed cell death in Nicotiana benthamiana.

Hamera S, Mural RM, Liu Y, Zeng L.

Plant Signal Behav. 2014;9(10):e973814. doi: 10.4161/15592324.2014.973814.

5.

Role for chondroitin sulfate glycosaminoglycan in NEDD9-mediated breast cancer cell growth.

Iida J, Dorchak J, Clancy R, Slavik J, Ellsworth R, Katagiri Y, Pugacheva EN, van Kuppevelt TH, Mural RJ, Cutler ML, Shriver CD.

Exp Cell Res. 2015 Jan 15;330(2):358-70. doi: 10.1016/j.yexcr.2014.11.002. Epub 2014 Nov 13.

PMID:
25445787
6.

Tissue imprints: assessing their potential for routine biobanking collection.

Greenspan R, O'Donnell A, Meyer J, Kane J, Mamula K, Lubert S, Deyarmin B, Larson C, Rigby S, Greenawalt A, Vatanian N, Mural R, Shriver C, Somiari S.

Biopreserv Biobank. 2013 Dec;11(6):359-65. doi: 10.1089/bio.2013.0030. Epub 2013 Nov 22.

PMID:
24835366
7.

DNA aptamers against exon v10 of CD44 inhibit breast cancer cell migration.

Iida J, Clancy R, Dorchak J, Somiari RI, Somiari S, Cutler ML, Mural RJ, Shriver CD.

PLoS One. 2014 Feb 19;9(2):e88712. doi: 10.1371/journal.pone.0088712. eCollection 2014.

8.

The tomato Fni3 lysine-63-specific ubiquitin-conjugating enzyme and suv ubiquitin E2 variant positively regulate plant immunity.

Mural RV, Liu Y, Rosebrock TR, Brady JJ, Hamera S, Connor RA, Martin GB, Zeng L.

Plant Cell. 2013 Sep;25(9):3615-31. doi: 10.1105/tpc.113.117093. Epub 2013 Sep 27.

9.

QAIT: a quality assurance issue tracking tool to facilitate the improvement of clinical data quality.

Zhang Y, Sun W, Gutchell EM, Kvecher L, Kohr J, Bekhash A, Shriver CD, Liebman MN, Mural RJ, Hu H.

Comput Methods Programs Biomed. 2013 Jan;109(1):86-91. doi: 10.1016/j.cmpb.2012.08.010. Epub 2012 Sep 15.

PMID:
22985872
10.

FH535 inhibited migration and growth of breast cancer cells.

Iida J, Dorchak J, Lehman JR, Clancy R, Luo C, Chen Y, Somiari S, Ellsworth RE, Hu H, Mural RJ, Shriver CD.

PLoS One. 2012;7(9):e44418. doi: 10.1371/journal.pone.0044418. Epub 2012 Sep 11.

11.

Analysis of matrix metalloproteinase-1 gene polymorphisms and expression in benign and malignant breast tumors.

Zhou J, Brinckerhoff C, Lubert S, Yang K, Saini J, Hooke J, Mural R, Shriver C, Somiari S.

Cancer Invest. 2011 Nov;29(9):599-607. doi: 10.3109/07357907.2011.621915.

12.

DW4TR: A Data Warehouse for Translational Research.

Hu H, Correll M, Kvecher L, Osmond M, Clark J, Bekhash A, Schwab G, Gao D, Gao J, Kubatin V, Shriver CD, Hooke JA, Maxwell LG, Kovatich AJ, Sheldon JG, Liebman MN, Mural RJ.

J Biomed Inform. 2011 Dec;44(6):1004-19. doi: 10.1016/j.jbi.2011.08.003. Epub 2011 Aug 22.

13.

An issue tracking system to facilitate the enhancement of clinical data quality in the clinical breast care project.

Zhang Y, Sun W, Gutchell EM, Hu H, Liebman MN, Shriver CD, Mural RJ.

AMIA Annu Symp Proc. 2007 Oct 11:1173.

PMID:
18694269
14.

Genome assembly comparison identifies structural variants in the human genome.

Khaja R, Zhang J, MacDonald JR, He Y, Joseph-George AM, Wei J, Rafiq MA, Qian C, Shago M, Pantano L, Aburatani H, Jones K, Redon R, Hurles M, Armengol L, Estivill X, Mural RJ, Lee C, Scherer SW, Feuk L.

Nat Genet. 2006 Dec;38(12):1413-8. Epub 2006 Nov 22.

15.

Use of a dense single nucleotide polymorphism map for in silico mapping in the mouse.

Pletcher MT, McClurg P, Batalov S, Su AI, Barnes SW, Lagler E, Korstanje R, Wang X, Nusskern D, Bogue MA, Mural RJ, Paigen B, Wiltshire T.

PLoS Biol. 2004 Dec;2(12):e393. Epub 2004 Nov 9.

16.

Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs.

Zheng XH, Lu F, Wang ZY, Zhong F, Hoover J, Mural R.

Bioinformatics. 2005 Mar;21(6):703-10. Epub 2004 Sep 30.

PMID:
15458983
17.

Human chromosome 7: DNA sequence and biology.

Scherer SW, Cheung J, MacDonald JR, Osborne LR, Nakabayashi K, Herbrick JA, Carson AR, Parker-Katiraee L, Skaug J, Khaja R, Zhang J, Hudek AK, Li M, Haddad M, Duggan GE, Fernandez BA, Kanematsu E, Gentles S, Christopoulos CC, Choufani S, Kwasnicka D, Zheng XH, Lai Z, Nusskern D, Zhang Q, Gu Z, Lu F, Zeesman S, Nowaczyk MJ, Teshima I, Chitayat D, Shuman C, Weksberg R, Zackai EH, Grebe TA, Cox SR, Kirkpatrick SJ, Rahman N, Friedman JM, Heng HH, Pelicci PG, Lo-Coco F, Belloni E, Shaffer LG, Pober B, Morton CC, Gusella JF, Bruns GA, Korf BR, Quade BJ, Ligon AH, Ferguson H, Higgins AW, Leach NT, Herrick SR, Lemyre E, Farra CG, Kim HG, Summers AM, Gripp KW, Roberts W, Szatmari P, Winsor EJ, Grzeschik KH, Teebi A, Minassian BA, Kere J, Armengol L, Pujana MA, Estivill X, Wilson MD, Koop BF, Tosi S, Moore GE, Boright AP, Zlotorynski E, Kerem B, Kroisel PM, Petek E, Oscier DG, Mould SJ, Döhner H, Döhner K, Rommens JM, Vincent JB, Venter JC, Li PW, Mural RJ, Adams MD, Tsui LC.

Science. 2003 May 2;300(5620):767-72. Epub 2003 Apr 10.

18.

Genome-wide single-nucleotide polymorphism analysis defines haplotype patterns in mouse.

Wiltshire T, Pletcher MT, Batalov S, Barnes SW, Tarantino LM, Cooke MP, Wu H, Smylie K, Santrosyan A, Copeland NG, Jenkins NA, Kalush F, Mural RJ, Glynne RJ, Kay SA, Adams MD, Fletcher CF.

Proc Natl Acad Sci U S A. 2003 Mar 18;100(6):3380-5. Epub 2003 Feb 28.

19.

The genome sequence of the malaria mosquito Anopheles gambiae.

Holt RA, Subramanian GM, Halpern A, Sutton GG, Charlab R, Nusskern DR, Wincker P, Clark AG, Ribeiro JM, Wides R, Salzberg SL, Loftus B, Yandell M, Majoros WH, Rusch DB, Lai Z, Kraft CL, Abril JF, Anthouard V, Arensburger P, Atkinson PW, Baden H, de Berardinis V, Baldwin D, Benes V, Biedler J, Blass C, Bolanos R, Boscus D, Barnstead M, Cai S, Center A, Chaturverdi K, Christophides GK, Chrystal MA, Clamp M, Cravchik A, Curwen V, Dana A, Delcher A, Dew I, Evans CA, Flanigan M, Grundschober-Freimoser A, Friedli L, Gu Z, Guan P, Guigo R, Hillenmeyer ME, Hladun SL, Hogan JR, Hong YS, Hoover J, Jaillon O, Ke Z, Kodira C, Kokoza E, Koutsos A, Letunic I, Levitsky A, Liang Y, Lin JJ, Lobo NF, Lopez JR, Malek JA, McIntosh TC, Meister S, Miller J, Mobarry C, Mongin E, Murphy SD, O'Brochta DA, Pfannkoch C, Qi R, Regier MA, Remington K, Shao H, Sharakhova MV, Sitter CD, Shetty J, Smith TJ, Strong R, Sun J, Thomasova D, Ton LQ, Topalis P, Tu Z, Unger MF, Walenz B, Wang A, Wang J, Wang M, Wang X, Woodford KJ, Wortman JR, Wu M, Yao A, Zdobnov EM, Zhang H, Zhao Q, Zhao S, Zhu SC, Zhimulev I, Coluzzi M, della Torre A, Roth CW, Louis C, Kalush F, Mural RJ, Myers EW, Adams MD, Smith HO, Broder S, Gardner MJ, Fraser CM, Birney E, Bork P, Brey PT, Venter JC, Weissenbach J, Kafatos FC, Collins FH, Hoffman SL.

Science. 2002 Oct 4;298(5591):129-49.

20.

A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome.

Mural RJ, Adams MD, Myers EW, Smith HO, Miklos GL, Wides R, Halpern A, Li PW, Sutton GG, Nadeau J, Salzberg SL, Holt RA, Kodira CD, Lu F, Chen L, Deng Z, Evangelista CC, Gan W, Heiman TJ, Li J, Li Z, Merkulov GV, Milshina NV, Naik AK, Qi R, Shue BC, Wang A, Wang J, Wang X, Yan X, Ye J, Yooseph S, Zhao Q, Zheng L, Zhu SC, Biddick K, Bolanos R, Delcher AL, Dew IM, Fasulo D, Flanigan MJ, Huson DH, Kravitz SA, Miller JR, Mobarry CM, Reinert K, Remington KA, Zhang Q, Zheng XH, Nusskern DR, Lai Z, Lei Y, Zhong W, Yao A, Guan P, Ji RR, Gu Z, Wang ZY, Zhong F, Xiao C, Chiang CC, Yandell M, Wortman JR, Amanatides PG, Hladun SL, Pratts EC, Johnson JE, Dodson KL, Woodford KJ, Evans CA, Gropman B, Rusch DB, Venter E, Wang M, Smith TJ, Houck JT, Tompkins DE, Haynes C, Jacob D, Chin SH, Allen DR, Dahlke CE, Sanders R, Li K, Liu X, Levitsky AA, Majoros WH, Chen Q, Xia AC, Lopez JR, Donnelly MT, Newman MH, Glodek A, Kraft CL, Nodell M, Ali F, An HJ, Baldwin-Pitts D, Beeson KY, Cai S, Carnes M, Carver A, Caulk PM, Center A, Chen YH, Cheng ML, Coyne MD, Crowder M, Danaher S, Davenport LB, Desilets R, Dietz SM, Doup L, Dullaghan P, Ferriera S, Fosler CR, Gire HC, Gluecksmann A, Gocayne JD, Gray J, Hart B, Haynes J, Hoover J, Howland T, Ibegwam C, Jalali M, Johns D, Kline L, Ma DS, MacCawley S, Magoon A, Mann F, May D, McIntosh TC, Mehta S, Moy L, Moy MC, Murphy BJ, Murphy SD, Nelson KA, Nuri Z, Parker KA, Prudhomme AC, Puri VN, Qureshi H, Raley JC, Reardon MS, Regier MA, Rogers YH, Romblad DL, Schutz J, Scott JL, Scott R, Sitter CD, Smallwood M, Sprague AC, Stewart E, Strong RV, Suh E, Sylvester K, Thomas R, Tint NN, Tsonis C, Wang G, Wang G, Williams MS, Williams SM, Windsor SM, Wolfe K, Wu MM, Zaveri J, Chaturvedi K, Gabrielian AE, Ke Z, Sun J, Subramanian G, Venter JC, Pfannkoch CM, Barnstead M, Stephenson LD.

Science. 2002 May 31;296(5573):1661-71. Erratum in: Science 2002 Aug 23;297(5585):1278. Science. 2004 Mar 12;303(5664):1612.

21.

Microbial disease in humans: A genomic perspective.

Subramanian G, Mural R, Hoffman SL, Venter JC, Broder S.

Mol Diagn. 2001 Dec;6(4):243-52. Review.

PMID:
11774190
22.

The Celera Discovery System.

Kerlavage A, Bonazzi V, di Tommaso M, Lawrence C, Li P, Mayberry F, Mural R, Nodell M, Yandell M, Zhang J, Thomas P.

Nucleic Acids Res. 2002 Jan 1;30(1):129-36.

23.

ARTEMIS: a tool for displaying and annotating DNA sequence.

Mural RJ.

Brief Bioinform. 2000 May;1(2):199-200. No abstract available.

PMID:
11465031
24.

The sequence of the human genome.

Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA, Gocayne JD, Amanatides P, Ballew RM, Huson DH, Wortman JR, Zhang Q, Kodira CD, Zheng XH, Chen L, Skupski M, Subramanian G, Thomas PD, Zhang J, Gabor Miklos GL, Nelson C, Broder S, Clark AG, Nadeau J, McKusick VA, Zinder N, Levine AJ, Roberts RJ, Simon M, Slayman C, Hunkapiller M, Bolanos R, Delcher A, Dew I, Fasulo D, Flanigan M, Florea L, Halpern A, Hannenhalli S, Kravitz S, Levy S, Mobarry C, Reinert K, Remington K, Abu-Threideh J, Beasley E, Biddick K, Bonazzi V, Brandon R, Cargill M, Chandramouliswaran I, Charlab R, Chaturvedi K, Deng Z, Di Francesco V, Dunn P, Eilbeck K, Evangelista C, Gabrielian AE, Gan W, Ge W, Gong F, Gu Z, Guan P, Heiman TJ, Higgins ME, Ji RR, Ke Z, Ketchum KA, Lai Z, Lei Y, Li Z, Li J, Liang Y, Lin X, Lu F, Merkulov GV, Milshina N, Moore HM, Naik AK, Narayan VA, Neelam B, Nusskern D, Rusch DB, Salzberg S, Shao W, Shue B, Sun J, Wang Z, Wang A, Wang X, Wang J, Wei M, Wides R, Xiao C, Yan C, Yao A, Ye J, Zhan M, Zhang W, Zhang H, Zhao Q, Zheng L, Zhong F, Zhong W, Zhu S, Zhao S, Gilbert D, Baumhueter S, Spier G, Carter C, Cravchik A, Woodage T, Ali F, An H, Awe A, Baldwin D, Baden H, Barnstead M, Barrow I, Beeson K, Busam D, Carver A, Center A, Cheng ML, Curry L, Danaher S, Davenport L, Desilets R, Dietz S, Dodson K, Doup L, Ferriera S, Garg N, Gluecksmann A, Hart B, Haynes J, Haynes C, Heiner C, Hladun S, Hostin D, Houck J, Howland T, Ibegwam C, Johnson J, Kalush F, Kline L, Koduru S, Love A, Mann F, May D, McCawley S, McIntosh T, McMullen I, Moy M, Moy L, Murphy B, Nelson K, Pfannkoch C, Pratts E, Puri V, Qureshi H, Reardon M, Rodriguez R, Rogers YH, Romblad D, Ruhfel B, Scott R, Sitter C, Smallwood M, Stewart E, Strong R, Suh E, Thomas R, Tint NN, Tse S, Vech C, Wang G, Wetter J, Williams S, Williams M, Windsor S, Winn-Deen E, Wolfe K, Zaveri J, Zaveri K, Abril JF, Guigó R, Campbell MJ, Sjolander KV, Karlak B, Kejariwal A, Mi H, Lazareva B, Hatton T, Narechania A, Diemer K, Muruganujan A, Guo N, Sato S, Bafna V, Istrail S, Lippert R, Schwartz R, Walenz B, Yooseph S, Allen D, Basu A, Baxendale J, Blick L, Caminha M, Carnes-Stine J, Caulk P, Chiang YH, Coyne M, Dahlke C, Mays A, Dombroski M, Donnelly M, Ely D, Esparham S, Fosler C, Gire H, Glanowski S, Glasser K, Glodek A, Gorokhov M, Graham K, Gropman B, Harris M, Heil J, Henderson S, Hoover J, Jennings D, Jordan C, Jordan J, Kasha J, Kagan L, Kraft C, Levitsky A, Lewis M, Liu X, Lopez J, Ma D, Majoros W, McDaniel J, Murphy S, Newman M, Nguyen T, Nguyen N, Nodell M, Pan S, Peck J, Peterson M, Rowe W, Sanders R, Scott J, Simpson M, Smith T, Sprague A, Stockwell T, Turner R, Venter E, Wang M, Wen M, Wu D, Wu M, Xia A, Zandieh A, Zhu X.

Science. 2001 Feb 16;291(5507):1304-51. Erratum in: Science 2001 Jun 5;292(5523):1838.

PMID:
11181995
25.

Report of the ninth international workshop on the identification of transcribed sequences.

Gardiner K, Mural R, Werner T.

Cytogenet Cell Genet. 2000;88(1-2):1-10. No abstract available.

PMID:
10773655
26.

Current status of computational gene finding: a perspective.

Mural RJ.

Methods Enzymol. 1999;303:77-83. No abstract available.

PMID:
10349639
27.

Report of the eighth international workshop on the identification of transcribed sequences.

Gardiner K, Mural R, Werner T.

Cytogenet Cell Genet. 1999;84(1-2):2-10. No abstract available.

PMID:
10343091
28.

The Genome Channel: a browser to a uniform first-pass annotation of genomic DNA.

Mural RJ, Parang M, Shah M, Snoddy J, Uberbacher EC.

Trends Genet. 1999 Jan;15(1):38-9. No abstract available.

PMID:
10087933
29.

An editing environment for DNA sequence analysis and annotation (extended abstract).

Uberbacher EC, Xu Y, Shah MB, Olman V, Parang M, Mural RJ.

Pac Symp Biocomput. 1998:217-27.

30.

Of messages and meaning.

Gardiner K, Brookes A, Mural R.

Trends Genet. 1997 Mar;13(3):92-3. No abstract available.

PMID:
9066266
31.

Inferring gene structures in genomic sequences using pattern recognition and expressed sequence tags.

Xu Y, Mural RJ, Uberbacher EC.

Proc Int Conf Intell Syst Mol Biol. 1997;5:344-53.

PMID:
9322060
32.

Detection of RNA polymerase II promoters and polyadenylation sites in human DNA sequence.

Matis S, Xu Y, Shah M, Guan X, Einstein JR, Mural R, Uberbacher E.

Comput Chem. 1996 Mar;20(1):135-40.

PMID:
8867844
33.

An iterative algorithm for correcting sequencing errors in DNA coding regions.

Xu Y, Mural RJ, Uberbacher EC.

J Comput Biol. 1996 Fall;3(3):333-44.

PMID:
8891953
34.

Discovering and understanding genes in human DNA sequence using GRAIL.

Uberbacher EC, Xu Y, Mural RJ.

Methods Enzymol. 1996;266:259-81. No abstract available.

PMID:
8743689
35.

Correcting sequencing errors in DNA coding regions using a dynamic programming approach.

Xu Y, Mural RJ, Uberbacher EC.

Comput Appl Biosci. 1995 Apr;11(2):117-24.

PMID:
7620982
36.

Getting the message: identifying transcribed sequences.

Gardiner K, Mural RJ.

Trends Genet. 1995 Mar;11(3):77-9. No abstract available.

PMID:
7732574
37.

Predicting protein folding classes without overly relying on homology.

Craven MW, Mural RJ, Hauser LJ, Uberbacher EC.

Proc Int Conf Intell Syst Mol Biol. 1995;3:98-106.

PMID:
7584472
38.

Constructing gene models from accurately predicted exons: an application of dynamic programming.

Xu Y, Mural RJ, Uberbacher EC.

Comput Appl Biosci. 1994 Dec;10(6):613-23.

PMID:
7704660
39.

Finding one's way through DNA.

Mural RJ.

Trends Biotechnol. 1994 Oct;12(10):393-4. No abstract available.

PMID:
7765383
40.

Recognizing exons in genomic sequence using GRAIL II.

Xu Y, Mural R, Shah M, Uberbacher E.

Genet Eng (N Y). 1994;16:241-53.

PMID:
7765200
41.

An improved system for exon recognition and gene modeling in human DNA sequences.

Xu Y, Einstein JR, Mural RJ, Shah M, Uberbacher EC.

Proc Int Conf Intell Syst Mol Biol. 1994;2:376-84.

PMID:
7584416
42.
43.
44.

Oxygen sensitivity of an Escherichia coli mutant.

Adler H, Mural R, Suttle B.

J Bacteriol. 1992 Apr;174(7):2072-7.

45.

An artificial intelligence approach to DNA sequence feature recognition.

Mural RJ, Einstein JR, Guan X, Mann RC, Uberbacher EC.

Trends Biotechnol. 1992 Jan-Feb;10(1-2):66-9. Review.

PMID:
1367939
46.

Locating protein-coding regions in human DNA sequences by a multiple sensor-neural network approach.

Uberbacher EC, Mural RJ.

Proc Natl Acad Sci U S A. 1991 Dec 15;88(24):11261-5.

47.

Roles of cysteinyl residues of phosphoribulokinase as examined by site-directed mutagenesis.

Milanez S, Mural RJ, Hartman FC.

J Biol Chem. 1991 Jun 5;266(16):10694-9.

48.

Fundamentals of light-regulated gene expression in plants.

Mural RJ.

Subcell Biochem. 1991;17:191-211. Review. No abstract available.

PMID:
1796484
50.

Versatile protein engineering vectors for mutagenesis, expression and hybrid enzyme formation.

Larimer FW, Mural RJ, Soper TS.

Protein Eng. 1990 Jan;3(3):227-31. No abstract available.

PMID:
2158660

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