Project description:RNA sequencing data for replicates of E347 driver control, E347 neuronal ablation per Shi dominant-negative expression and activation per NachBac expression to identify differences in RNA abundancy E347 driver control, E347 neuronal ablation per Shi dominant-negative expression and activation per NachBac expression
Project description:RNA sequencing data for replicates of E347 driver control, E347 neuronal ablation per Shi dominant-negative expression and activation per NachBac expression to identify differences in RNA abundancy
Project description:Disulfiram and niclosamide were identified as drugs that induced depletion of an MLL-AF9-luciferase fusion protein in THP-1 AML cells, in a bioluminescence sreen. MLL-fusion protein depletion was confirmed in AML and ALL cell lines expressing different MLL-fusion proteins. Combination of disulfiram with niclosamide was found to enhance depletion of MLL-fusion proteins. To investigate whether this enhanced depletion resulted in increased suppression of downstream target genes. MLL-AF6 expressing SHI-1 cells were exposed to disulfiram/copper, nciclosamide or combined drugs. SHI-1 cells were treated for 16 hours with 0.3uM disulfiram / 1uM copper, 5uM niclosamide or combined drugs and RNAseq performed on isolated RNA.
Project description:We generated human induced pluripotent cells from intellectual disability patients carrying the c.2T>C mutation in KDM5C (Called “Mutant”). We generated a paired, isogenic human iPS cell line (called “Corrected”) using CRISPR/Cas9 and PiggyBac gene-editing technologies and conducted neuronal differentiation based on “Yichen Shi et al. Nat. Protoc. 7, 1836–1846 (2012)” to define differences in binding of the KDM5C gene in Mutant and Corrected cells.
Project description:In the present study, we elucidate the molecular and hormonal role of the Six-rowed spike 2 (Vrs2) — a SHORT INTERNODES (SHI) transcriptional regulator during barley inflorescence and shoot development. Here we show that Vrs2 is specifically involved in floral organ patterning and phase duration by maintaining hormonal homeostasis and gradients during normal spike development; but similarly influenced plant stature traits. Furthermore, we establish a first link between the SHI-protein family and sucrose metabolism during organ growth and development, which may have implications for deeper molecular insights into crops' inflorescence and plant architecture. Differential gene expression study between BW-NIL(vrs2.e) vs. Bowman was done on the extracted RNA from immature shoot apices to infer the differences at level of expression at early spike developmental stages (triple mound (TM), glume primordia (GP), stamen primordia (SP), awn primordia (AP)).
Project description:We generated human induced pluripotent cells from intellectual disability patients carrying the c.2T>C mutation in KDM5C (Called “Mutant”). We generated a paired, isogenic human iPS cell line (called “Corrected”) using CRISPR/Cas9 and PiggyBac gene-editing technologies and conducted neuronal differentiation based on “Yichen Shi et al. Nat. Protoc. 7, 1836–1846 (2012)” to define differences in gene expression between the Mutant and Corrected and Mutant and Corrected treated with either a Wnt inhibitor (indicated as "+inh") or activator (indicated as "+W") during neuronal differentiation.
Project description:Investigation of whole genome gene expression level changes in two strains of the cyanobacteria Atelocyanobacterium thalasaa (UCYN-A) from environmental samples. The diel gene expression analyzed in this study is further described in Muñoz-Marin, M., I. N. Shilova, T. Shi, H. Farnelid & J. P. Zehr. 2017. Unicellular cyanobacterial symbiosis facilitates aerobic nitrogen fixation. Science (to be submitted).
