Manipulating cellular microRNAs and analyzing high-dimensional gene expression data using machine learning workflows.

MicroRNAs (miRNAs) are elements of the gene regulatory network and manipulating their abundance is essential toward elucidating their role in patho-physiological conditions. We present a detailed workflow that identifies important miRNAs using a machine learning algorithm. We then provide optimized techniques to validate the identified miRNAs through over-expression/loss-of-function studies. Overall, these protocols apply to any field in biology where high-dimensional data are produced. For complete details on the use and execution of this protocol, please refer to Wong et al. (2021a)

Synthesis, photophysics, electrochemistry, and excited-state redox properties of trinuclear copper(I) acetylides with Bis(diphenylphosphino)alkylamines and -arylamines as bridging ligands

A series of soluble trinuclear copper(I) complexes containing bicapped η 3-η 1 acetylides, [Cu 3(μ-PNP) 3(μ 3-η 1-C≡CR′) 2] + [PNP = [(C 6H 5) 2P] 2NR, R = nPr, C 6H 5, C 6H 4-CH 3-P, C 6H 4-F-p] have been synthesized and shown to exhibit rich photoluminescent behavior at room temperature. The electrochemistry and excited-state redox properties of [Cu 3(μ- nPrPNP) 3-(μ 3-η 1-C≡CPh) 2] + have been investigated.link_to_subscribed_fulltex

Synthesis, luminescence and electrochemistry of novel pentanuclear rhenium(I)-copper(I) mixed-metal acetylide complexes. X-Ray crystal structure of [Cu3(μ-dppm)3{μ3-η1-C≡CC6H4C≡C-p-Re(bpy)(CO)3} 2]+

A series of luminescent mixed-metal acetylide complexes [Cu 3(μ-LL) 3{μ 3-η 1-C≡C-C 6H 2R 2-2,5-C≡C-p-Re(NN)-(CO) 3} 2] +, (LL = dppm, Pr nPNP; NN = bpy, Bu t 2bpy; R = H, Me) have been synthesized and their electrochemical properties studied; the X-ray crystal structure of [Cu 3(μ-dppm) 3{μ 3-η 1-C≡C-C 6H 4C≡C-p-Re(bpy)(CO) 3} 2] + has also been determined.link_to_subscribed_fulltex

Transcription regulation by the Mediator complex

International audienceAlterations in the regulation of gene expression are frequently associated with developmental diseases or cancer. Transcription activation is a key phenomenon in the regulation of gene expression. In all eukaryotes, mediator of RNA polymerase II transcription (Mediator), a large complex with modular organization, is generally required for transcription by RNA polymerase II, and it regulates various steps of this process. The main function of Mediator is to transduce signals from the transcription activators bound to enhancer regions to the transcription machinery, which is assembled at promoters as the preinitiation complex (PIC) to control transcription initiation. Recent functional studies of Mediator with the use of structural biology approaches and functional genomics have revealed new insights into Mediator activity and its regulation during transcription initiation, including how Mediator is recruited to transcription regulatory regions and how it interacts and cooperates with PIC components to assist in PIC assembly. Novel roles of Mediator in the control of gene expression have also been revealed by showing its connection to the nuclear pore and linking Mediator to the regulation of gene positioning in the nuclear space. Clear links between Mediator subunits and disease have also encouraged studies to explore targeting of this complex as a potential therapeutic approach in cancer and fungal infections