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Items: 48


Author Correction: Bioprospecting desert plant Bacillus endophytic strains for their potential to enhance plant stress tolerance.

Bokhari A, Essack M, Lafi FF, Andres-Barrao C, Jalal R, Alamoudi S, Razali R, Alzubaidy H, Shah KH, Siddique S, Bajic VB, Hirt H, Saad MM.

Sci Rep. 2020 Feb 14;10(1):3001. doi: 10.1038/s41598-020-58957-w.


The X Files: "The Mystery of X Chromosome Instability in Alzheimer's Disease".

Bajic VP, Essack M, Zivkovic L, Stewart A, Zafirovic S, Bajic VB, Gojobori T, Isenovic E, Spremo-Potparevic B.

Front Genet. 2020 Jan 28;10:1368. doi: 10.3389/fgene.2019.01368. eCollection 2019. Review.


Regulation of nitric oxide production in hypothyroidism.

Gluvic ZM, Obradovic MM, Sudar-Milovanovic EM, Zafirovic SS, Radak DJ, Essack MM, Bajic VB, Takashi G, Isenovic ER.

Biomed Pharmacother. 2020 Apr;124:109881. doi: 10.1016/j.biopha.2020.109881. Epub 2020 Jan 24. Review.


Comparative genomics study reveals Red Sea Bacillus with characteristics associated with potential microbial cell factories (MCFs).

Othoum G, Prigent S, Derouiche A, Shi L, Bokhari A, Alamoudi S, Bougouffa S, Gao X, Hoehndorf R, Arold ST, Gojobori T, Hirt H, Lafi FF, Nielsen J, Bajic VB, Mijakovic I, Essack M.

Sci Rep. 2019 Dec 17;9(1):19254. doi: 10.1038/s41598-019-55726-2.


Comparison Study of Computational Prediction Tools for Drug-Target Binding Affinities.

Thafar M, Raies AB, Albaradei S, Essack M, Bajic VB.

Front Chem. 2019 Nov 20;7:782. doi: 10.3389/fchem.2019.00782. eCollection 2019. Review.


Bioprospecting desert plant Bacillus endophytic strains for their potential to enhance plant stress tolerance.

Bokhari A, Essack M, Lafi FF, Andres-Barrao C, Jalal R, Alamoudi S, Razali R, Alzubaidy H, Shah KH, Siddique S, Bajic VB, Hirt H, Saad MM.

Sci Rep. 2019 Dec 3;9(1):18154. doi: 10.1038/s41598-019-54685-y. Erratum in: Sci Rep. 2020 Feb 14;10(1):3001.


HbA1C as a marker of retrograde glycaemic control in diabetes patient with co-existed beta-thalassaemia: A case report and a literature review.

Gluvic Z, Obradovic M, Lackovic M, Samardzic V, Tica Jevtic J, Essack M, Bajic VB, Isenovic ER.

J Clin Pharm Ther. 2019 Nov 17. doi: 10.1111/jcpt.13073. [Epub ahead of print]


Antioxidant enzymes expression in lymphocytes of patients undergoing carotid endarterectomy.

Obradovic M, Zafirovic S, Essack M, Dimitrov J, Zivkovic L, Spremo-Potparevic B, Radak D, Bajic VB, Isenovic ER.

Med Hypotheses. 2020 Jan;134:109419. doi: 10.1016/j.mehy.2019.109419. Epub 2019 Oct 3.


Redox control of vascular biology.

Obradovic M, Essack M, Zafirovic S, Sudar-Milovanovic E, Bajic VP, Van Neste C, Trpkovic A, Stanimirovic J, Bajic VB, Isenovic ER.

Biofactors. 2019 Sep 4. doi: 10.1002/biof.1559. [Epub ahead of print] Review.


Mining biosynthetic gene clusters in Virgibacillus genomes.

Othoum G, Bougouffa S, Bokhari A, Lafi FF, Gojobori T, Hirt H, Mijakovic I, Bajic VB, Essack M.

BMC Genomics. 2019 Sep 3;20(1):696. doi: 10.1186/s12864-019-6065-7.


Literature-Based Enrichment Insights into Redox Control of Vascular Biology.

Essack M, Salhi A, Stanimirovic J, Tifratene F, Bin Raies A, Hungler A, Uludag M, Van Neste C, Trpkovic A, Bajic VP, Bajic VB, Isenovic ER.

Oxid Med Cell Longev. 2019 May 16;2019:1769437. doi: 10.1155/2019/1769437. eCollection 2019. Review.


Glutathione "Redox Homeostasis" and Its Relation to Cardiovascular Disease.

Bajic VP, Van Neste C, Obradovic M, Zafirovic S, Radak D, Bajic VB, Essack M, Isenovic ER.

Oxid Med Cell Longev. 2019 May 9;2019:5028181. doi: 10.1155/2019/5028181. eCollection 2019. Review.


Hybrid model for efficient prediction of poly(A) signals in human genomic DNA.

Albalawi F, Chahid A, Guo X, Albaradei S, Magana-Mora A, Jankovic BR, Uludag M, Van Neste C, Essack M, Laleg-Kirati TM, Bajic VB.

Methods. 2019 Aug 15;166:31-39. doi: 10.1016/j.ymeth.2019.04.001. Epub 2019 Apr 13.


The Genome Sequence of the Wild Tomato Solanum pimpinellifolium Provides Insights Into Salinity Tolerance.

Razali R, Bougouffa S, Morton MJL, Lightfoot DJ, Alam I, Essack M, Arold ST, Kamau AA, Schmöckel SM, Pailles Y, Shahid M, Michell CT, Al-Babili S, Ho YS, Tester M, Bajic VB, Negrão S.

Front Plant Sci. 2018 Oct 4;9:1402. doi: 10.3389/fpls.2018.01402. eCollection 2018.


DES-Mutation: System for Exploring Links of Mutations and Diseases.

Kordopati V, Salhi A, Razali R, Radovanovic A, Tifratene F, Uludag M, Li Y, Bokhari A, AlSaieedi A, Bin Raies A, Van Neste C, Essack M, Bajic VB.

Sci Rep. 2018 Sep 6;8(1):13359. doi: 10.1038/s41598-018-31439-w.


BioPS: System for screening and assessment of biofuel-production potential of cyanobacteria.

Motwalli O, Essack M, Salhi A, Hanks J, Mijakovic I, Bajic VB.

PLoS One. 2018 Aug 10;13(8):e0202002. doi: 10.1371/journal.pone.0202002. eCollection 2018.


DPubChem: a web tool for QSAR modeling and high-throughput virtual screening.

Soufan O, Ba-Alawi W, Magana-Mora A, Essack M, Bajic VB.

Sci Rep. 2018 Jun 14;8(1):9110. doi: 10.1038/s41598-018-27495-x.


In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters.

Othoum G, Bougouffa S, Razali R, Bokhari A, Alamoudi S, Antunes A, Gao X, Hoehndorf R, Arold ST, Gojobori T, Hirt H, Mijakovic I, Bajic VB, Lafi FF, Essack M.

BMC Genomics. 2018 May 22;19(1):382. doi: 10.1186/s12864-018-4796-5.


A novel method for improved accuracy of transcription factor binding site prediction.

Khamis AM, Motwalli O, Oliva R, Jankovic BR, Medvedeva YA, Ashoor H, Essack M, Gao X, Bajic VB.

Nucleic Acids Res. 2018 Jul 6;46(12):e72. doi: 10.1093/nar/gky237.


Draft Genome Sequences of Four Salmonella enterica subsp. enterica Serovar Enteritidis Strains Implicated in Infections of Avian and Human Hosts.

An R, Lin P, Bougouffa S, Essack M, Boxrud D, Bajic VB, Vidovic S.

Genome Announc. 2018 Jan 25;6(4). pii: e01550-17. doi: 10.1128/genomeA.01550-17.


DES-TOMATO: A Knowledge Exploration System Focused On Tomato Species.

Salhi A, Negrão S, Essack M, Morton MJL, Bougouffa S, Razali R, Radovanovic A, Marchand B, Kulmanov M, Hoehndorf R, Tester M, Bajic VB.

Sci Rep. 2017 Jul 20;7(1):5968. doi: 10.1038/s41598-017-05448-0.


Building a bio-based industry in the Middle East through harnessing the potential of the Red Sea biodiversity.

Nielsen J, Archer J, Essack M, Bajic VB, Gojobori T, Mijakovic I.

Appl Microbiol Biotechnol. 2017 Jun;101(12):4837-4851. doi: 10.1007/s00253-017-8310-9. Epub 2017 May 20. Review.


DES-ncRNA: A knowledgebase for exploring information about human micro and long noncoding RNAs based on literature-mining.

Salhi A, Essack M, Alam T, Bajic VP, Ma L, Radovanovic A, Marchand B, Schmeier S, Zhang Z, Bajic VB.

RNA Biol. 2017 Jul 3;14(7):963-971. doi: 10.1080/15476286.2017.1312243. Epub 2017 Apr 7.


In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteria.

Motwalli O, Essack M, Jankovic BR, Ji B, Liu X, Ansari HR, Hoehndorf R, Gao X, Arold ST, Mineta K, Archer JA, Gojobori T, Mijakovic I, Bajic VB.

BMC Genomics. 2017 Jan 5;18(1):33. doi: 10.1186/s12864-016-3389-4.


FARNA: knowledgebase of inferred functions of non-coding RNA transcripts.

Alam T, Uludag M, Essack M, Salhi A, Ashoor H, Hanks JB, Kapfer C, Mineta K, Gojobori T, Bajic VB.

Nucleic Acids Res. 2017 Mar 17;45(5):2838-2848. doi: 10.1093/nar/gkw973.


DRABAL: novel method to mine large high-throughput screening assays using Bayesian active learning.

Soufan O, Ba-Alawi W, Afeef M, Essack M, Kalnis P, Bajic VB.

J Cheminform. 2016 Nov 10;8:64. eCollection 2016.


TcoF-DB v2: update of the database of human and mouse transcription co-factors and transcription factor interactions.

Schmeier S, Alam T, Essack M, Bajic VB.

Nucleic Acids Res. 2017 Jan 4;45(D1):D145-D150. doi: 10.1093/nar/gkw1007. Epub 2016 Oct 26.


Metagenomics as a preliminary screen for antimicrobial bioprospecting.

Al-Amoudi S, Razali R, Essack M, Amini MS, Bougouffa S, Archer JA, Lafi FF, Bajic VB.

Gene. 2016 Dec 15;594(2):248-258. doi: 10.1016/j.gene.2016.09.021. Epub 2016 Sep 15.


Bioprospecting Red Sea Coastal Ecosystems for Culturable Microorganisms and Their Antimicrobial Potential.

Al-Amoudi S, Essack M, Simões MF, Bougouffa S, Soloviev I, Archer JA, Lafi FF, Bajic VB.

Mar Drugs. 2016 Sep 10;14(9). pii: E165. doi: 10.3390/md14090165.


DASPfind: new efficient method to predict drug-target interactions.

Ba-Alawi W, Soufan O, Essack M, Kalnis P, Bajic VB.

J Cheminform. 2016 Mar 16;8:15. doi: 10.1186/s13321-016-0128-4. eCollection 2016.


Mining Chemical Activity Status from High-Throughput Screening Assays.

Soufan O, Ba-alawi W, Afeef M, Essack M, Rodionov V, Kalnis P, Bajic VB.

PLoS One. 2015 Dec 14;10(12):e0144426. doi: 10.1371/journal.pone.0144426. eCollection 2015.


DESM: portal for microbial knowledge exploration systems.

Salhi A, Essack M, Radovanovic A, Marchand B, Bougouffa S, Antunes A, Simoes MF, Lafi FF, Motwalli OA, Bokhari A, Malas T, Amoudi SA, Othum G, Allam I, Mineta K, Gao X, Hoehndorf R, C Archer JA, Gojobori T, Bajic VB.

Nucleic Acids Res. 2016 Jan 4;44(D1):D624-33. doi: 10.1093/nar/gkv1147. Epub 2015 Nov 5.


Rhizosphere microbiome metagenomics of gray mangroves (Avicennia marina) in the Red Sea.

Alzubaidy H, Essack M, Malas TB, Bokhari A, Motwalli O, Kamanu FK, Jamhor SA, Mokhtar NA, Antunes A, Simões MF, Alam I, Bougouffa S, Lafi FF, Bajic VB, Archer JA.

Gene. 2016 Feb 1;576(2 Pt 1):626-36. doi: 10.1016/j.gene.2015.10.032. Epub 2015 Nov 10.


Insights into the Transcriptional Architecture of Behavioral Plasticity in the Honey Bee Apis mellifera.

Khamis AM, Hamilton AR, Medvedeva YA, Alam T, Alam I, Essack M, Umylny B, Jankovic BR, Naeger NL, Suzuki M, Harbers M, Robinson GE, Bajic VB.

Sci Rep. 2015 Jun 15;5:11136. doi: 10.1038/srep11136.


Distinct profiling of antimicrobial peptide families.

Khamis AM, Essack M, Gao X, Bajic VB.

Bioinformatics. 2015 Mar 15;31(6):849-56. doi: 10.1093/bioinformatics/btu738. Epub 2014 Nov 10.


Chemical compounds toxic to invertebrates isolated from marine cyanobacteria of potential relevance to the agricultural industry.

Essack M, Alzubaidy HS, Bajic VB, Archer JA.

Toxins (Basel). 2014 Oct 29;6(11):3058-76. doi: 10.3390/toxins6113058. Review.


DEOP: a database on osmoprotectants and associated pathways.

Bougouffa S, Radovanovic A, Essack M, Bajic VB.

Database (Oxford). 2014 Oct 17;2014. pii: bau100. doi: 10.1093/database/bau100. Print 2014.


Aerobic methanotrophic communities at the Red Sea brine-seawater interface.

Abdallah RZ, Adel M, Ouf A, Sayed A, Ghazy MA, Alam I, Essack M, Lafi FF, Bajic VB, El-Dorry H, Siam R.

Front Microbiol. 2014 Sep 23;5:487. doi: 10.3389/fmicb.2014.00487. eCollection 2014.


Information exploration system for sickle cell disease and repurposing of hydroxyfasudil.

Essack M, Radovanovic A, Bajic VB.

PLoS One. 2013 Jun 10;8(6):e65190. doi: 10.1371/journal.pone.0065190. Print 2013.


Identification of estrogen responsive genes using esophageal squamous cell carcinoma (ESCC) as a model.

Essack M, MacPherson CR, Schmeier S, Bajic VB.

BMC Syst Biol. 2012 Oct 26;6:135. doi: 10.1186/1752-0509-6-135.


Conotoxins that confer therapeutic possibilities.

Essack M, Bajic VB, Archer JA.

Mar Drugs. 2012 Jun;10(6):1244-65. doi: 10.3390/md10061244. Epub 2012 Jun 4. Review.


Recently confirmed apoptosis-inducing lead compounds isolated from marine sponge of potential relevance in cancer treatment.

Essack M, Bajic VB, Archer JA.

Mar Drugs. 2011;9(9):1580-606. doi: 10.3390/md9091580. Epub 2011 Sep 20. Review.


Network analysis of microRNAs and their regulation in human ovarian cancer.

Schmeier S, Schaefer U, Essack M, Bajic VB.

BMC Syst Biol. 2011 Nov 3;5:183. doi: 10.1186/1752-0509-5-183.


Deciphering the transcriptional circuitry of microRNA genes expressed during human monocytic differentiation.

Schmeier S, MacPherson CR, Essack M, Kaur M, Schaefer U, Suzuki H, Hayashizaki Y, Bajic VB.

BMC Genomics. 2009 Dec 10;10:595. doi: 10.1186/1471-2164-10-595.


DDEC: Dragon database of genes implicated in esophageal cancer.

Essack M, Radovanovic A, Schaefer U, Schmeier S, Seshadri SV, Christoffels A, Kaur M, Bajic VB.

BMC Cancer. 2009 Jul 6;9:219. doi: 10.1186/1471-2407-9-219.


The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

FANTOM Consortium, Suzuki H, Forrest AR, van Nimwegen E, Daub CO, Balwierz PJ, Irvine KM, Lassmann T, Ravasi T, Hasegawa Y, de Hoon MJ, Katayama S, Schroder K, Carninci P, Tomaru Y, Kanamori-Katayama M, Kubosaki A, Akalin A, Ando Y, Arner E, Asada M, Asahara H, Bailey T, Bajic VB, Bauer D, Beckhouse AG, Bertin N, Björkegren J, Brombacher F, Bulger E, Chalk AM, Chiba J, Cloonan N, Dawe A, Dostie J, Engström PG, Essack M, Faulkner GJ, Fink JL, Fredman D, Fujimori K, Furuno M, Gojobori T, Gough J, Grimmond SM, Gustafsson M, Hashimoto M, Hashimoto T, Hatakeyama M, Heinzel S, Hide W, Hofmann O, Hörnquist M, Huminiecki L, Ikeo K, Imamoto N, Inoue S, Inoue Y, Ishihara R, Iwayanagi T, Jacobsen A, Kaur M, Kawaji H, Kerr MC, Kimura R, Kimura S, Kimura Y, Kitano H, Koga H, Kojima T, Kondo S, Konno T, Krogh A, Kruger A, Kumar A, Lenhard B, Lennartsson A, Lindow M, Lizio M, Macpherson C, Maeda N, Maher CA, Maqungo M, Mar J, Matigian NA, Matsuda H, Mattick JS, Meier S, Miyamoto S, Miyamoto-Sato E, Nakabayashi K, Nakachi Y, Nakano M, Nygaard S, Okayama T, Okazaki Y, Okuda-Yabukami H, Orlando V, Otomo J, Pachkov M, Petrovsky N, Plessy C, Quackenbush J, Radovanovic A, Rehli M, Saito R, Sandelin A, Schmeier S, Schönbach C, Schwartz AS, Semple CA, Sera M, Severin J, Shirahige K, Simons C, St Laurent G, Suzuki M, Suzuki T, Sweet MJ, Taft RJ, Takeda S, Takenaka Y, Tan K, Taylor MS, Teasdale RD, Tegnér J, Teichmann S, Valen E, Wahlestedt C, Waki K, Waterhouse A, Wells CA, Winther O, Wu L, Yamaguchi K, Yanagawa H, Yasuda J, Zavolan M, Hume DA; Riken Omics Science Center, Arakawa T, Fukuda S, Imamura K, Kai C, Kaiho A, Kawashima T, Kawazu C, Kitazume Y, Kojima M, Miura H, Murakami K, Murata M, Ninomiya N, Nishiyori H, Noma S, Ogawa C, Sano T, Simon C, Tagami M, Takahashi Y, Kawai J, Hayashizaki Y.

Nat Genet. 2009 May;41(5):553-62. doi: 10.1038/ng.375. Epub 2009 Apr 19.


Database for exploration of functional context of genes implicated in ovarian cancer.

Kaur M, Radovanovic A, Essack M, Schaefer U, Maqungo M, Kibler T, Schmeier S, Christoffels A, Narasimhan K, Choolani M, Bajic VB.

Nucleic Acids Res. 2009 Jan;37(Database issue):D820-3. doi: 10.1093/nar/gkn593. Epub 2008 Sep 12.


A low-cost flow cytometric assay for the detection and quantification of apoptosis using an anionic halogenated fluorescein dye.

Meyer M, Essack M, Kanyanda S, Rees J.

Biotechniques. 2008 Sep;45(3):317-20. doi: 10.2144/000112908.

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