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Correction: Evidence for plant-derived xenomiRs based on a large-scale analysis of public small RNA sequencing data from human samples.

Zhao Q, Liu Y, Zhang N, Hu M, Zhang H, Joshi T, Xu D.

PLoS One. 2020 Mar 11;15(3):e0230146. doi: 10.1371/journal.pone.0230146. eCollection 2020.


Enhanced CXCR4 Expression Associates with Increased Gene Body 5-Hydroxymethylcytosine Modification but not Decreased Promoter Methylation in Colorectal Cancer.

Stuckel AJ, Zhang W, Zhang X, Zeng S, Dougherty U, Mustafi R, Zhang Q, Perreand E, Khare T, Joshi T, West-Szymanski DC, Bissonnette M, Khare S.

Cancers (Basel). 2020 Feb 26;12(3). pii: E539. doi: 10.3390/cancers12030539.


Knowledge Base Commons (KBCommons) v1.1: a universal framework for multi-omics data integration and biological discoveries.

Zeng S, Lyu Z, Narisetti SRK, Xu D, Joshi T.

BMC Genomics. 2019 Dec 20;20(Suppl 11):947. doi: 10.1186/s12864-019-6287-8.


Mice lacking uterine enhancer of zeste homolog 2 have transcriptomic changes associated with uterine epithelial proliferation.

Mesa AM, Mao J, Nanjappa MK, Medrano TI, Tevosian S, Yu F, Kinkade J, Lyu Z, Liu Y, Joshi T, Wang D, Rosenfeld CS, Cooke PS.

Physiol Genomics. 2020 Feb 1;52(2):81-95. doi: 10.1152/physiolgenomics.00098.2019. Epub 2019 Dec 16.


Phenotype Prediction and Genome-Wide Association Study Using Deep Convolutional Neural Network of Soybean.

Liu Y, Wang D, He F, Wang J, Joshi T, Xu D.

Front Genet. 2019 Nov 22;10:1091. doi: 10.3389/fgene.2019.01091. eCollection 2019.


Genome Editing in Plants: Exploration of Technological Advancements and Challenges.

Vats S, Kumawat S, Kumar V, Patil GB, Joshi T, Sonah H, Sharma TR, Deshmukh R.

Cells. 2019 Nov 4;8(11). pii: E1386. doi: 10.3390/cells8111386. Review.


Correction: Evidence for plant-derived xenomiRs based on a large-scale analysis of public small RNA sequencing data from human samples.

Zhao Q, Liu Y, Zhang N, Hu M, Zhang H, Joshi T, Xu D.

PLoS One. 2019 Oct 24;14(10):e0224537. doi: 10.1371/journal.pone.0224537. eCollection 2019. Erratum in: PLoS One. 2020 Mar 11;15(3):e0230146.


Hypothalamic transcriptome of tame and aggressive silver foxes (Vulpes vulpes) identifies gene expression differences shared across brain regions.

Rosenfeld CS, Hekman JP, Johnson JL, Lyu Z, Ortega MT, Joshi T, Mao J, Vladimirova AV, Gulevich RG, Kharlamova AV, Acland GM, Hecht EE, Wang X, Clark AG, Trut LN, Behura SK, Kukekova AV.

Genes Brain Behav. 2020 Jan;19(1):e12614. doi: 10.1111/gbb.12614. Epub 2019 Dec 29.


Proteomic and Metabolomic Analysis of Azospirillum brasilense ntrC Mutant under High and Low Nitrogen Conditions.

Kukolj C, Pedrosa FO, de Souza GA, Sumner LW, Lei Z, Sumner B, do Amaral FP, Juexin W, Trupti J, Huergo LF, Monteiro RA, Valdameri G, Stacey G, de Souza EM.

J Proteome Res. 2020 Jan 3;19(1):92-105. doi: 10.1021/acs.jproteome.9b00397. Epub 2019 Oct 25.


Machine Learning Classifiers for Endometriosis Using Transcriptomics and Methylomics Data.

Akter S, Xu D, Nagel SC, Bromfield JJ, Pelch K, Wilshire GB, Joshi T.

Front Genet. 2019 Sep 4;10:766. doi: 10.3389/fgene.2019.00766. eCollection 2019.


SoyCSN: Soybean context-specific network analysis and prediction based on tissue-specific transcriptome data.

Wang J, Hossain MS, Lyu Z, Schmutz J, Stacey G, Xu D, Joshi T.

Plant Direct. 2019 Sep 17;3(9):e00167. doi: 10.1002/pld3.167. eCollection 2019 Sep.


Comparison of Therapeutic Efficacy of Ferrous Ascorbate and Iron Polymaltose Complex in Iron Deficiency Anemia in Children: A Randomized Controlled Trial.

Patil P, Geevarghese P, Khaire P, Joshi T, Suryawanshi A, Mundada S, Pawar S, Farookh A.

Indian J Pediatr. 2019 Dec;86(12):1112-1117. doi: 10.1007/s12098-019-03068-2. Epub 2019 Sep 13.


A seed germination transcriptomic study contrasting two soybean genotypes that differ in terms of their tolerance to the deleterious impacts of elevated temperatures during seed fill.

Gillman JD, Biever JJ, Ye S, Spollen WG, Givan SA, Lyu Z, Joshi T, Smith JR, Fritschi FB.

BMC Res Notes. 2019 Aug 19;12(1):522. doi: 10.1186/s13104-019-4559-7.


IMPRes-Pro: A high dimensional multiomics integration method for in silico hypothesis generation.

Jiang Y, Wang D, Xu D, Joshi T.

Methods. 2020 Feb 15;173:16-23. doi: 10.1016/j.ymeth.2019.06.013. Epub 2019 Jun 17.


Early genistein exposure of California mice and effects on the gut microbiota-brain axis.

Marshall BL, Liu Y, Farrington MJ, Mao J, Helferich WG, Schenk AK, Bivens NJ, Sarma SJ, Lei Z, Sumner LW, Joshi T, Rosenfeld CS.

J Endocrinol. 2019 Aug;242(2):139-157. doi: 10.1530/JOE-19-0214.


A dynamic programing approach to integrate gene expression data and network information for pathway model generation.

Jiang Y, Liang Y, Wang D, Xu D, Joshi T.

Bioinformatics. 2020 Jan 1;36(1):169-176. doi: 10.1093/bioinformatics/btz467.


12-Hydroxy-Jasmonoyl-l-Isoleucine Is an Active Jasmonate That Signals through CORONATINE INSENSITIVE 1 and Contributes to the Wound Response in Arabidopsis.

Poudel AN, Holtsclaw RE, Kimberlin A, Sen S, Zeng S, Joshi T, Lei Z, Sumner LW, Singh K, Matsuura H, Koo AJ.

Plant Cell Physiol. 2019 Oct 1;60(10):2152-2166. doi: 10.1093/pcp/pcz109.


Transcriptomics Analysis Reveals New Insights into the Roles of Notch1 Signaling on Macrophage Polarization.

Hans CP, Sharma N, Sen S, Zeng S, Dev R, Jiang Y, Mahajan A, Joshi T.

Sci Rep. 2019 May 29;9(1):7999. doi: 10.1038/s41598-019-44266-4.


Silencing AXL by covalent siRNA-gelatin-antibody nanoconjugate inactivates mTOR/EMT pathway and stimulates p53 for TKI sensitization in NSCLC.

Suresh D, Zambre A, Mukherjee S, Ghoshdastidar S, Jiang Y, Joshi T, Upendran A, Kannan R.

Nanomedicine. 2019 Aug;20:102007. doi: 10.1016/j.nano.2019.04.010. Epub 2019 May 12.


The DNA binding landscape of the maize AUXIN RESPONSE FACTOR family.

Galli M, Khakhar A, Lu Z, Chen Z, Sen S, Joshi T, Nemhauser JL, Schmitz RJ, Gallavotti A.

Nat Commun. 2018 Oct 30;9(1):4526. doi: 10.1038/s41467-018-06977-6.

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