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Nadim W. Alkharouf, Ph.D. - Publications

Affiliations: 
2004 George Mason University, Washington, DC 
Area:
Molecular Biology, Biostatistics Biology, Computer Science
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60 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Acharya S, Troell HA, Billingsley RL, Lawrence KS, McKirgan DS, Alkharouf NW, Klink VP. Data analysis of polygalacturonase inhibiting proteins (PGIPs) from agriculturally important proteomes. Data in Brief. 52: 109831. PMID 38076472 DOI: 10.1016/j.dib.2023.109831  0.322
2022 Niraula PM, McNeece BT, Sharma K, Alkharouf NW, Lawrence KS, Klink VP. The central circadian regulator CCA1 functions in Glycine max during defense to a root pathogen, regulating the expression of genes acting in effector triggered immunity (ETI) and cell wall metabolism. Plant Physiology and Biochemistry : Ppb. 185: 198-220. PMID 35704989 DOI: 10.1016/j.plaphy.2022.05.028  0.371
2022 Khatri R, Pant SR, Sharma K, Niraula PM, Lawaju BR, Lawrence KS, Alkharouf NW, Klink VP. Homologs of , and Function to Impair Parasitism While Also Regulating Mitogen Activated Protein Kinase Expression. Frontiers in Plant Science. 13: 842597. PMID 35599880 DOI: 10.3389/fpls.2022.842597  0.406
2021 Klink VP, Darwish O, Alkharouf NW, Lawaju BR, Khatri R, Lawrence KS. Conserved oligomeric Golgi (COG) complex genes functioning in defense are expressed in root cells undergoing a defense response to a pathogenic infection and exhibit regulation my MAPKs. Plos One. 16: e0256472. PMID 34437620 DOI: 10.1371/journal.pone.0256472  0.431
2020 Niraula PM, Sharma K, McNeece BT, Troell HA, Darwish O, Alkharouf NW, Lawrence KS, Klink VP. Mitogen activated protein kinase (MAPK)-regulated genes with predicted signal peptides function in the Glycine max defense response to the root pathogenic nematode Heterodera glycines. Plos One. 15: e0241678. PMID 33147292 DOI: 10.1371/journal.pone.0241678  0.388
2020 Sharma K, Niraula PM, Troell HA, Adhikari M, Alshehri HA, Alkharouf NW, Lawrence KS, Klink VP. Exocyst components promote an incompatible interaction between Glycine max (soybean) and Heterodera glycines (the soybean cyst nematode). Scientific Reports. 10: 15003. PMID 32929168 DOI: 10.1038/S41598-020-72126-Z  0.433
2019 Alshehri HA, Alkharouf NW, Darwish O, McNeece BT, Klink VP. MAPKDB: A MAP kinase database for signal transduction element identification. Bioinformation. 15: 338-341. PMID 31249436 DOI: 10.6026/97320630015338  0.415
2019 Zhang C, Gao M, Seitz NC, Angel W, Hallworth A, Wiratan L, Darwish O, Alkharouf N, Dawit T, Lin D, Egoshi R, Wang X, McClung CR, Lu H. LUX ARRHYTHMO mediates crosstalk between the circadian clock and defense in Arabidopsis. Nature Communications. 10: 2543. PMID 31186426 DOI: 10.1038/S41467-019-10485-6  0.398
2017 Li S, Darwish O, Alkharouf NW, Musungu B, Matthews BF. Analysis of the genome sequence of Phomopsis longicolla: a fungal pathogen causing Phomopsis seed decay in soybean. Bmc Genomics. 18: 688. PMID 28870170 DOI: 10.1186/S12864-017-4075-X  0.608
2017 Hawkins C, Caruana J, Li J, Zawora C, Darwish O, Wu J, Alkharouf N, Liu Z. An eFP browser for visualizing strawberry fruit and flower transcriptomes. Horticulture Research. 4: 17029. PMID 28674614 DOI: 10.1038/Hortres.2017.29  0.408
2016 Darwish O, Li S, May Z, Matthews B, Alkharouf NW. A searchable database for the genome of Phomopsis longicolla (isolate MSPL 10-6). Bioinformation. 12: 233-236. PMID 28197060 DOI: 10.6026/97320630012233  0.647
2016 Darwish O, Li S, Matthews B, Alkharouf N. Genome-wide functional annotation of Phomopsis longicolla isolate MSPL 10-6. Genomics Data. 8: 67-9. PMID 27222801 DOI: 10.1016/J.Gdata.2016.03.006  0.629
2016 Lakshman D, Roberts DP, Garrett WM, Natarajan SS, Darwish O, Alkharouf N, Pain A, Khan F, Jambhulkar PP, Mitra A. Proteomic Investigation of Rhizoctonia solani AG 4 Identifies Secretome and Mycelial Proteins with roles in Plant Cell Wall Degradation and Virulence. Journal of Agricultural and Food Chemistry. PMID 27019116 DOI: 10.1021/Acs.Jafc.5B05735  0.344
2016 Tavakolan M, Alkharouf NW. Data mining of genomic data generated from soybean treated with different phytohormones 2016 Ieee/Acis 14th International Conference On Software Engineering Research, Management and Applications, Sera 2016. 53-60. DOI: 10.1109/SERA.2016.7516128  0.376
2016 Darwish O, Li S, Matthews B, Alkharouf N. Genome-wide functional annotation of Phomopsis longicolla isolate MSPL 10-6 Genomics Data. 8: 67-69. DOI: 10.1016/j.gdata.2016.03.006  0.594
2015 Li S, Darwish O, Alkharouf N, Matthews B, Ji P, Domier LL, Zhang N, Bluhm BH. Draft genome sequence of Phomopsis longicolla isolate MSPL 10-6. Genomics Data. 3: 55-6. PMID 26484148 DOI: 10.1016/J.Gdata.2014.11.007  0.638
2015 Darwish O, Shahan R, Liu Z, Slovin JP, Alkharouf NW. Re-annotation of the woodland strawberry (Fragaria vesca) genome. Bmc Genomics. 16: 29. PMID 25623424 DOI: 10.1186/S12864-015-1221-1  0.416
2015 Li S, Darwish O, Alkharouf N, Matthews B, Ji P, Domier LL, Zhang N, Bluhm BH. Draft genome sequence of Phomopsis longicolla isolate MSPL 10-6 Genomics Data. 3: 55-56. DOI: 10.1016/j.gdata.2014.11.007  0.531
2014 Tavakolan M, Alkharouf NW, Matthews BF, Natarajan SS. SoyProLow: A protein database enriched in low abundant soybean proteins. Bioinformation. 10: 599-601. PMID 25352730 DOI: 10.6026/97320630010599  0.57
2014 Natarajan S, Tavakolan M, Alkharouf NW, Matthews BF. SCNProDB: A database for the identification of soybean cyst nematode proteins. Bioinformation. 10: 387-9. PMID 25097385 DOI: 10.6026/97320630010387  0.584
2014 Hollender CA, Kang C, Darwish O, Geretz A, Matthews BF, Slovin J, Alkharouf N, Liu Z. Floral Transcriptomes in Woodland Strawberry Uncover Developing Receptacle and Anther Gene Networks. Plant Physiology. 165: 1062-1075. PMID 24828307 DOI: 10.1104/Pp.114.237529  0.66
2013 Darwish O, Slovin JP, Kang C, Hollender CA, Geretz A, Houston S, Liu Z, Alkharouf NW. SGR: an online genomic resource for the woodland strawberry. Bmc Plant Biology. 13: 223. PMID 24364888 DOI: 10.1186/1471-2229-13-223  0.377
2013 Darwish O, Rowland LJ, Alkharouf NW. BBGD454: A database for transcriptome analysis of blueberry using 454 sequences. Bioinformation. 9: 883-6. PMID 24250117 DOI: 10.6026/97320630009883  0.524
2013 Tremblay A, Hosseini P, Li S, Alkharouf NW, Matthews BF. Analysis of Phakopsora pachyrhizi transcript abundance in critical pathways at four time-points during infection of a susceptible soybean cultivar using deep sequencing. Bmc Genomics. 14: 614. PMID 24025037 DOI: 10.1186/1471-2164-14-614  0.639
2013 Kang C, Darwish O, Geretz A, Shahan R, Alkharouf N, Liu Z. Genome-scale transcriptomic insights into early-stage fruit development in woodland strawberry Fragaria vesca. The Plant Cell. 25: 1960-78. PMID 23898027 DOI: 10.1105/Tpc.113.111732  0.368
2013 Tavakolan M, Alkharouf NW, Khan FH, Natarajan S. SoyProDB: A database for the identification of soybean seed proteins. Bioinformation. 9: 165-7. PMID 23423175 DOI: 10.6026/97320630009165  0.306
2012 Ismail A, Matthews BF, Alkharouf NW. RKN Lethal DB: A database for the identification of Root Knot Nematode (Meloidogyne spp.) candidate lethal genes. Bioinformation. 8: 950-2. PMID 23144556 DOI: 10.6026/97320630008950  0.69
2012 Lakshman DK, Alkharouf N, Roberts DP, Natarajan SS, Mitra A. Gene expression profiling of the plant pathogenic basidiomycetous fungus Rhizoctonia solani AG 4 reveals putative virulence factors. Mycologia. 104: 1020-35. PMID 22778167 DOI: 10.3852/11-226  0.538
2012 Hosseini P, Tremblay A, Matthews BF, Alkharouf NW. MAPT and PAICE: Tools for time series and single time point transcriptionist visualization and knowledge discovery. Bioinformation. 8: 287-9. PMID 22493539 DOI: 10.6026/97320630008287  0.588
2012 Rowland LJ, Alkharouf N, Darwish O, Ogden EL, Polashock JJ, Bassil NV, Main D. Generation and analysis of blueberry transcriptome sequences from leaves, developing fruit, and flower buds from cold acclimation through deacclimation. Bmc Plant Biology. 12: 46. PMID 22471859 DOI: 10.1186/1471-2229-12-46  0.365
2012 Tremblay A, Hosseini P, Li S, Alkharouf NW, Matthews BF. Identification of genes expressed by Phakopsora pachyrhizi, the pathogen causing soybean rust, at a late stage of infection of susceptible soybean leaves Plant Pathology. 61: 773-786. DOI: 10.1111/J.1365-3059.2011.02550.X  0.671
2012 Rowland LJ, Bell DJ, Alkharouf N, Bassil NV, Drummond FA, Beers L, Buck EJ, Finn CE, Graham J, McCallum S, Hancock JF, Polashock JJ, Olmstead JW, Main D. Generating Genomic Tools for Blueberry Improvement International Journal of Fruit Science. 12: 276-287. DOI: 10.1080/15538362.2011.619452  0.399
2011 Matsye PD, Kumar R, Hosseini P, Jones CM, Tremblay A, Alkharouf NW, Matthews BF, Klink VP. Mapping cell fate decisions that occur during soybean defense responses. Plant Molecular Biology. 77: 513-28. PMID 21986905 DOI: 10.1007/S11103-011-9828-3  0.656
2011 Ibrahim HM, Hosseini P, Alkharouf NW, Hussein EH, Gamal El-Din Ael K, Aly MA, Matthews BF. Analysis of gene expression in soybean (Glycine max) roots in response to the root knot nematode Meloidogyne incognita using microarrays and KEGG pathways. Bmc Genomics. 12: 220. PMID 21569240 DOI: 10.1186/1471-2164-12-220  0.637
2011 Klink VP, Hosseini P, Matsye PD, Alkharouf NW, Matthews BF. Differences in gene expression amplitude overlie a conserved transcriptomic program occurring between the rapid and potent localized resistant reaction at the syncytium of the Glycine max genotype Peking (PI 548402) as compared to the prolonged and potent resistant reaction of PI 88788. Plant Molecular Biology. 75: 141-65. PMID 21153862 DOI: 10.1007/S11103-010-9715-3  0.63
2011 Ibrahim HM, Alkharouf NW, Meyer SL, Aly MA, Gamal El-Din Ael K, Hussein EH, Matthews BF. Post-transcriptional gene silencing of root-knot nematode in transformed soybean roots. Experimental Parasitology. 127: 90-9. PMID 20599433 DOI: 10.1016/J.Exppara.2010.06.037  0.629
2011 Tremblay A, Hosseini P, Alkharouf NW, Li S, Matthews BF. Gene Expression in Leaves of SusceptibleGlycine maxduring Infection withPhakopsora pachyrhiziUsing Next Generation Sequencing Sequencing. 2011: 1-14. DOI: 10.1155/2011/827250  0.699
2010 Hosseini P, Tremblay A, Matthews BF, Alkharouf NW. An efficient annotation and gene-expression derivation tool for Illumina Solexa datasets. Bmc Research Notes. 3: 183. PMID 20598141 DOI: 10.1186/1756-0500-3-183  0.641
2010 Klink VP, Overall CC, Alkharouf NW, Macdonald MH, Matthews BF. Microarray Detection Call Methodology as a Means to Identify and Compare Transcripts Expressed within Syncytial Cells from Soybean (Glycine max) Roots Undergoing Resistant and Susceptible Reactions to the Soybean Cyst Nematode (Heterodera glycines). Journal of Biomedicine & Biotechnology. 2010: 491217. PMID 20508855 DOI: 10.1155/2010/491217  0.648
2010 Klink VP, Hosseini P, Matsye PD, Alkharouf NW, Matthews BF. Syncytium gene expression in Glycine max([PI 88788]) roots undergoing a resistant reaction to the parasitic nematode Heterodera glycines. Plant Physiology and Biochemistry : Ppb / Sociã©Tã© Franã§Aise De Physiologie Vã©Gã©Tale. 48: 176-93. PMID 20138530 DOI: 10.1016/J.Plaphy.2009.12.003  0.632
2010 Tremblay A, Hosseini P, Alkharouf NW, Li S, Matthews BF. Transcriptome analysis of a compatible response by Glycine max to Phakopsora pachyrhizi infection Plant Science. 179: 183-193. DOI: 10.1016/J.Plantsci.2010.04.011  0.7
2009 Klink VP, Hosseini P, Matsye P, Alkharouf NW, Matthews BF. A gene expression analysis of syncytia laser microdissected from the roots of the Glycine max (soybean) genotype PI 548402 (Peking) undergoing a resistant reaction after infection by Heterodera glycines (soybean cyst nematode). Plant Molecular Biology. 71: 525-67. PMID 19787434 DOI: 10.1007/S11103-009-9539-1  0.645
2009 Brennan SE, Kuwano Y, Alkharouf N, Blackshear PJ, Gorospe M, Wilson GM. The mRNA-destabilizing protein tristetraprolin is suppressed in many cancers, altering tumorigenic phenotypes and patient prognosis. Cancer Research. 69: 5168-76. PMID 19491267 DOI: 10.1158/0008-5472.Can-08-4238  0.316
2009 Klink VP, Kim KH, Martins V, Macdonald MH, Beard HS, Alkharouf NW, Lee SK, Park SC, Matthews BF. A correlation between host-mediated expression of parasite genes as tandem inverted repeats and abrogation of development of female Heterodera glycines cyst formation during infection of Glycine max. Planta. 230: 53-71. PMID 19347355 DOI: 10.1007/S00425-009-0926-2  0.68
2009 Klink VP, Hosseini P, MacDonald MH, Alkharouf NW, Matthews BF. Population-specific gene expression in the plant pathogenic nematode Heterodera glycines exists prior to infection and during the onset of a resistant or susceptible reaction in the roots of the Glycine max genotype Peking. Bmc Genomics. 10: 111. PMID 19291306 DOI: 10.1186/1471-2164-10-111  0.627
2008 Choi JJ, Alkharouf NW, Schneider KT, Matthews BF, Frederick RD. Expression patterns in soybean resistant to Phakopsora pachyrhizi reveal the importance of peroxidases and lipoxygenases. Functional & Integrative Genomics. 8: 341-59. PMID 18414911 DOI: 10.1007/S10142-008-0080-0  0.65
2008 Rowland LJ, Dhanaraj AL, Naik D, Alkharouf N, Matthews B, Arora R. Study of Cold Tolerance in Blueberry Using EST Libraries, cDNA Microarrays, and Subtractive Hybridization Hortscience. 43: 1975-1981. DOI: 10.21273/Hortsci.43.7.1975  0.497
2007 Klink VP, Overall CC, Alkharouf NW, MacDonald MH, Matthews BF. Laser capture microdissection (LCM) and comparative microarray expression analysis of syncytial cells isolated from incompatible and compatible soybean (Glycine max) roots infected by the soybean cyst nematode (Heterodera glycines). Planta. 226: 1389-409. PMID 17668236 DOI: 10.1007/S00425-007-0578-Z  0.682
2007 Klink VP, Overall CC, Alkharouf NW, MacDonald MH, Matthews BF. A time-course comparative microarray analysis of an incompatible and compatible response by Glycine max (soybean) to Heterodera glycines (soybean cyst nematode) infection. Planta. 226: 1423-47. PMID 17653570 DOI: 10.1007/S00425-007-0581-4  0.627
2007 Klink VP, Martins VE, Alkharouf NW, Overall CC, MacDonald MH, Matthews BF. A decline in transcript abundance for Heterodera glycines homologs of Caenorhabditis elegans uncoordinated genes accompanies its sedentary parasitic phase. Bmc Developmental Biology. 7: 35. PMID 17445261 DOI: 10.1186/1471-213X-7-35  0.64
2007 Alkharouf NW, Dhanaraj AL, Naik D, Overall C, Matthews BF, Rowland LJ. BBGD: an online database for blueberry genomic data. Bmc Plant Biology. 7: 5. PMID 17263892 DOI: 10.1186/1471-2229-7-5  0.648
2007 Alkharouf NW, Klink VP, Matthews BF. Identification of Heterodera glycines (soybean cyst nematode [SCN]) cDNA sequences with high identity to those of Caenorhabditis elegans having lethal mutant or RNAi phenotypes. Experimental Parasitology. 115: 247-58. PMID 17052709 DOI: 10.1016/J.Exppara.2006.09.009  0.647
2007 Dhanaraj AL, Alkharouf NW, Beard HS, Chouikha IB, Matthews BF, Wei H, Arora R, Rowland LJ. Major differences observed in transcript profiles of blueberry during cold acclimation under field and cold room conditions. Planta. 225: 735-51. PMID 16953429 DOI: 10.1007/S00425-006-0382-1  0.627
2006 Alkharouf NW, Klink VP, Chouikha IB, Beard HS, MacDonald MH, Meyer S, Knap HT, Khan R, Matthews BF. Timecourse microarray analyses reveal global changes in gene expression of susceptible Glycine max (soybean) roots during infection by Heterodera glycines (soybean cyst nematode). Planta. 224: 838-52. PMID 16575592 DOI: 10.1007/S00425-006-0270-8  0.691
2005 Klink VP, Alkharouf N, MacDonald M, Matthews B. Laser capture microdissection (LCM) and expression analyses of Glycine max (soybean) syncytium containing root regions formed by the plant pathogen Heterodera glycines (soybean cyst nematode). Plant Molecular Biology. 59: 965-79. PMID 16307369 DOI: 10.1007/S11103-005-2416-7  0.633
2005 Alkharouf NW, Jamison DC, Matthews BF. Online analytical processing (OLAP): a fast and effective data mining tool for gene expression databases. Journal of Biomedicine & Biotechnology. 2005: 181-8. PMID 16046824 DOI: 10.1155/Jbb.2005.181  0.663
2005 Alkharouf N, Khan R, Matthews B. Analysis of expressed sequence tags from roots of resistant soybean infected by the soybean cyst nematode. Genome. 47: 380-8. PMID 15060591 DOI: 10.1139/G03-114  0.706
2004 Alkharouf NW, Matthews BF. SGMD: the Soybean Genomics and Microarray Database. Nucleic Acids Research. 32: D398-400. PMID 14681442 DOI: 10.1093/Nar/Gkh126  0.674
2003 Morimoto M, Zarlenga D, Beard H, Alkharouf N, Matthews BF, Urban JF. Ascaris suum: cDNA microarray analysis of 4th stage larvae (L4) during self-cure from the intestine. Experimental Parasitology. 104: 113-21. PMID 14552858 DOI: 10.1016/S0014-4894(03)00139-5  0.561
2003 Min W, Lillehoj HS, Kim S, Zhu JJ, Beard H, Alkharouf N, Matthews BF. Profiling local gene expression changes associated with Eimeria maxima and Eimeria acervulina using cDNA microarray Applied Microbiology and Biotechnology. 62: 392-399. PMID 12712262 DOI: 10.1007/S00253-003-1303-X  0.62
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