Anamika Singh

Jain University

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Jitendra K. Thakur

National Institute of Plant Genome Research

Mohd Waseem

National Institute of Plant Genome Research

Jan S. Fassler

University of Iowa

Manish Kumar Sharma

National Institute of Plant Genome Research

Naidu Subbarao

Jawaharlal Nehru University

Pallabi Thakur

National Institute of Plant Genome Research

Nidhi Dwivedi

Hindu Rao Hospital

Sourobh Maji

University of Delhi

Naveen C. Bisht

National Institute of Plant Genome Research

Jitendra P. Khurana

University of Delhi

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National Institute of Plant Genome Research

International Centre for Genetic Engineering and Biotechnology

University of Delhi

Harvard University

Al-Nisour University College

Al Noor University College

Jawaharlal Nehru University

All India Institute of Medical Sciences

Integral University

University of Iowa

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Author response for "Mediator<scp>W</scp>eb: a protein–protein interaction network database for the <scp>RNA</scp> polymerase <scp>II</scp> Mediator complex"

Sourobh Maji Mohd Waseem Manish Kumar Sharma Maninder Singh Anamika Singh

Mediator

10.1111/febs.17225/v2/response1

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MicroRNAs Modulating Neuroinflammation in Parkinson's disease

Inflammation (2024)

Mohamed J. Saadh Faris Anad Muhammad Anamika Singh Mohammed Ahmed Mustafa Rafil Adnan Hussein Al Zuhairi

Pars compacta

10.1007/s10753-024-02125-z

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Survey and Compilation of Protein-Protein Interaction Network for the Rna Polymerase Ii Mediator Complex into Mediatorweb Database

Jitendra K. Thakur Sourobh Maji Mohd Waseem Manish Kumar Sharma Maninder Singh

The protein-protein interaction network of the Mediator Complex is tightly regulated and can be exploited to delineate its diverse functions. Here we present ‘MediatorWeb’, a user-friendly web-interface-based database that facilitates comparative analysis and visualization of PPI network of Mediator subunits in humans, yeast and Arabidopsis. MediatorWeb enables downloading the untargeted and unweighted network of Mediator Complex, its modules and subunits and annotates the interacting proteins based on their functions. In addition to several useful features, it also provides quick access to amino acid-level information of Mediator interactions in three model organisms. MediatorWeb includes interologs study giving clues for functional study of Mediator in less-explored kingdoms. We have demonstrated the utility of MediatorWeb in prospective design of experimental research with two case studies, providing evidence to support the role of MED25 in DNA damage response and MED31 in mRNA exports. Thus, MediatorWeb serves as a powerful resource to expedite Mediator research.

Mediator

10.2139/ssrn.4443455

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MediatorWeb: a protein–protein interaction network database for the RNA polymerase II Mediator complex

FEBS Journal (2024)

Sourobh Maji Mohd Waseem Manish Kumar Sharma Maninder Singh Anamika Singh

The protein–protein interaction (PPI) network of the Mediator complex is very tightly regulated and depends on different developmental and environmental cues. Here, we present an interactive platform for comparative analysis of the Mediator subunits from humans, baker's yeast Saccharomyces cerevisiae , and model plant Arabidopsis thaliana in a user‐friendly web‐interface database called MediatorWeb. MediatorWeb provides an interface to visualize and analyze the PPI network of Mediator subunits. The database facilitates downloading the untargeted and unweighted network of Mediator complex, its submodules, and individual Mediator subunits to better visualize the importance of individual Mediator subunits or their submodules. Further, MediatorWeb offers network visualization of the Mediator complex and interacting proteins that are functionally annotated. This feature provides clues to understand functions of Mediator subunits in different processes. In an additional tab, MediatorWeb provides quick access to secondary and tertiary structures, as well as residue–level contact information for Mediator subunits in each of the three model organisms. Another useful feature of MediatorWeb is detection of interologs based on orthologous analyses, which can provide clues to understand the functions of Mediator complex in less explored kingdoms. Thus, MediatorWeb and its features can help the user to understand the role of Mediator complex and its subunits in the transcription regulation of gene expression.

Mediator

RNA polymerase II

10.1111/febs.17225

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Small molecule and big function: microRNA-mediated apoptosis in rheumatoid arthritis

Pathology - Research and Practice (2024)

Mohamed J. Saadh Hanan Hassan Ahmed Anamika Singh Mohammed Ahmed Mustafa Rafil Adnan Hussein Al Zuhairi

Pathogenesis

10.1016/j.prp.2024.155508

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Author response for "Mediator<scp>W</scp>eb: a protein–protein interaction network database for the <scp>RNA</scp> polymerase <scp>II</scp> Mediator complex"

Sourobh Maji Mohd Waseem Manish Kumar Sharma Maninder Singh Anamika Singh

10.1111/febs.17225/v3/response1

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