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Results: 1 to 20 of 117

1.

Core microbial functional activities in ocean environments revealed by global metagenomic profiling analyses.

Ferreira AJ, Siam R, Setubal JC, Moustafa A, Sayed A, Chambergo FS, Dawe AS, Ghazy MA, Sharaf H, Ouf A, Alam I, Abdel-Haleem AM, Lehvaslaiho H, Ramadan E, Antunes A, Stingl U, Archer JA, Jankovic BR, Sogin M, Bajic VB, El-Dorry H.

PLoS One. 2014 Jun 12;9(6):e97338. doi: 10.1371/journal.pone.0097338. eCollection 2014.

PMID:
24921648
[PubMed - in process]
Free PMC Article
2.

Genomic differentiation among two strains of the PS1 clade isolated from geographically separated marine habitats.

Jimenez-Infante F, Ngugi DK, Alam I, Rashid M, Baalawi W, Kamau AA, Bajic VB, Stingl U.

FEMS Microbiol Ecol. 2014 Jul;89(1):181-97. doi: 10.1111/1574-6941.12348. Epub 2014 May 22.

PMID:
24785133
[PubMed - in process]
3.

Mining a database of single amplified genomes from Red Sea brine pool extremophiles-improving reliability of gene function prediction using a profile and pattern matching algorithm (PPMA).

Grötzinger SW, Alam I, Ba Alawi W, Bajic VB, Stingl U, Eppinger J.

Front Microbiol. 2014 Apr 7;5:134. doi: 10.3389/fmicb.2014.00134. eCollection 2014.

PMID:
24778629
[PubMed]
Free PMC Article
4.

Pyrosequencing Reveals the Microbial Communities in the Red Sea Sponge Carteriospongia foliascens and Their Impressive Shifts in Abnormal Tissues.

Gao ZM, Wang Y, Lee OO, Tian RM, Wong YH, Bougouffa S, Batang Z, Al-Suwailem A, Lafi FF, Bajic VB, Qian PY.

Microb Ecol. 2014 Oct;68(3):621-32. doi: 10.1007/s00248-014-0419-0. Epub 2014 Apr 24.

PMID:
24760170
[PubMed - in process]
5.

Symbiotic adaptation drives genome streamlining of the cyanobacterial sponge symbiont "Candidatus Synechococcus spongiarum".

Gao ZM, Wang Y, Tian RM, Wong YH, Batang ZB, Al-Suwailem AM, Bajic VB, Qian PY.

MBio. 2014 Apr 1;5(2):e00079-14. doi: 10.1128/mBio.00079-14.

PMID:
24692632
[PubMed - in process]
Free PMC Article
6.

A promoter-level mammalian expression atlas.

FANTOM Consortium and the RIKEN PMI and CLST (DGT), Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Lassmann T, Itoh M, Summers KM, Suzuki H, Daub CO, Kawai J, Heutink P, Hide W, Freeman TC, Lenhard B, Bajic VB, Taylor MS, Makeev VJ, Sandelin A, Hume DA, Carninci P, Hayashizaki Y.

Nature. 2014 Mar 27;507(7493):462-70. doi: 10.1038/nature13182.

PMID:
24670764
[PubMed - indexed for MEDLINE]
7.

Effects of cytosine methylation on transcription factor binding sites.

Medvedeva YA, Khamis AM, Kulakovskiy IV, Ba-Alawi W, Bhuyan MS, Kawaji H, Lassmann T, Harbers M, Forrest AR, Bajic VB; FANTOM consortium.

BMC Genomics. 2014 Mar 26;15:119. doi: 10.1186/1471-2164-15-119.

PMID:
24669864
[PubMed - in process]
Free PMC Article
8.

In situ environment rather than substrate type dictates microbial community structure of biofilms in a cold seep system.

Lee OO, Wang Y, Tian R, Zhang W, Shek CS, Bougouffa S, Al-Suwailem A, Batang ZB, Xu W, Wang GC, Zhang X, Lafi FF, Bajic VB, Qian PY.

Sci Rep. 2014 Jan 8;4:3587. doi: 10.1038/srep03587.

PMID:
24399144
[PubMed - indexed for MEDLINE]
9.

INDIGO - INtegrated data warehouse of microbial genomes with examples from the red sea extremophiles.

Alam I, Antunes A, Kamau AA, Ba Alawi W, Kalkatawi M, Stingl U, Bajic VB.

PLoS One. 2013 Dec 6;8(12):e82210. doi: 10.1371/journal.pone.0082210. eCollection 2013.

PMID:
24324765
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Induction of apoptosis in cancer cell lines by the Red Sea brine pool bacterial extracts.

Sagar S, Esau L, Holtermann K, Hikmawan T, Zhang G, Stingl U, Bajic VB, Kaur M.

BMC Complement Altern Med. 2013 Dec 5;13:344. doi: 10.1186/1472-6882-13-344.

PMID:
24305113
[PubMed - indexed for MEDLINE]
Free Article
11.

A novel mercuric reductase from the unique deep brine environment of Atlantis II in the Red Sea.

Sayed A, Ghazy MA, Ferreira AJ, Setubal JC, Chambergo FS, Ouf A, Adel M, Dawe AS, Archer JA, Bajic VB, Siam R, El-Dorry H.

J Biol Chem. 2014 Jan 17;289(3):1675-87. doi: 10.1074/jbc.M113.493429. Epub 2013 Nov 26.

PMID:
24280218
[PubMed - indexed for MEDLINE]
12.

Cytotoxicity and apoptosis induced by a plumbagin derivative in estrogen positive MCF-7 breast cancer cells.

Sagar S, Esau L, Moosa B, Khashab NM, Bajic VB, Kaur M.

Anticancer Agents Med Chem. 2014 Jan;14(1):170-80.

PMID:
24164046
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Combining position weight matrices and document-term matrix for efficient extraction of associations of methylated genes and diseases from free text.

Bin Raies A, Mansour H, Incitti R, Bajic VB.

PLoS One. 2013 Oct 16;8(10):e77848. doi: 10.1371/journal.pone.0077848. eCollection 2013.

PMID:
24147091
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Exploration of miRNA families for hypotheses generation.

Kamanu TK, Radovanovic A, Archer JA, Bajic VB.

Sci Rep. 2013 Oct 15;3:2940. doi: 10.1038/srep02940.

PMID:
24126940
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Comparing memory-efficient genome assemblers on stand-alone and cloud infrastructures.

Kleftogiannis D, Kalnis P, Bajic VB.

PLoS One. 2013 Sep 27;8(9):e75505. doi: 10.1371/journal.pone.0075505. eCollection 2013.

PMID:
24086547
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data.

Ashoor H, HĂ©rault A, Kamoun A, Radvanyi F, Bajic VB, Barillot E, Boeva V.

Bioinformatics. 2013 Dec 1;29(23):2979-86. doi: 10.1093/bioinformatics/btt524. Epub 2013 Sep 9.

PMID:
24021381
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Simplified method for predicting a functional class of proteins in transcription factor complexes.

Piatek MJ, Schramm MC, Burra DD, Binshbreen A, Jankovic BR, Chowdhary R, Archer JA, Bajic VB.

PLoS One. 2013 Jul 12;8(7):e68857. doi: 10.1371/journal.pone.0068857. Print 2013.

PMID:
23874789
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Poly(A) motif prediction using spectral latent features from human DNA sequences.

Xie B, Jankovic BR, Bajic VB, Song L, Gao X.

Bioinformatics. 2013 Jul 1;29(13):i316-25. doi: 10.1093/bioinformatics/btt218.

PMID:
23813000
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

PIMiner: a web tool for extraction of protein interactions from biomedical literature.

Chowdhary R, Zhang J, Tan SL, Osborne DE, Bajic VB, Liu JS.

Int J Data Min Bioinform. 2013;7(4):450-62.

PMID:
23798227
[PubMed - indexed for MEDLINE]
20.

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.

PMID:
23762313
[PubMed - indexed for MEDLINE]
Free PMC Article

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