The p97-UBXN1 complex regulates aggresome formation. 
Sirisha Mukkavalli, Jacob Aaron Klickstein, Betty Ortiz, Peter Juo, Malavika Raman
bioRxiv 2020.09.03.281766; doi: https://doi.org/10.1101/2020.09.03.281766

AggreCount: An unbiased image analysis tool for identifying and quantifying cellular aggregates in a spatial manner
Jacob Aaron Klickstein, Sirisha Mukkavalli, Malavika Raman
bioRxiv 2020.07.25.221267; doi: https://doi.org/10.1101/2020.07.25.221267  Download AggreCount here.

The WD40-repeat protein WDR-48 promotes the stability of the deubiquitinating enzyme USP-46 by inhibiting its ubiquitination and degradation.
Molly Hodul*, Rakesh Ganji *, Caroline L. Dahlberg , Malavika Raman , Peter Juo, J. Biol Chem. 2020 Jun 25:jbc.RA120.014590. doi: 10.1074/jbc.RA120.014590. Online ahead of print. PMID: 32587090* Equal contribution
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The VCP-UBXN1 complex mediates triage of ubiquitylated cytosolic proteins bound to the BAG6 complex.
Rakesh Ganji, Sirisha Mukkavalli, Flavio Sonamji and Malavika Raman. Molecular and Celular Biology 2018. (38) 154-18. ( 2018)* Featured in MCB Spotlight.​

Systematic proteomics of the VCP–UBXD adaptor network identifies a role for UBXN10 in regulating ciliogenesis
Malavika Raman, Mikhail Sergeev, Maija Garnaas, John R. Lydeard, Edward L. Huttlin, Wolfram Goessling, Jagesh V. Shah and J.Wade Harper. Nature Cell Biology 10, 1356-69 (2015).​

Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
Shireen A. Sarraf, Malavika Raman, Virginia Pereira Guarani, Matthew E. Sowa, Edward L. Huttlin, Stephen P.Gygi, J. Wade Harper. Nature 496 (7445), 372-376 (2013). 

A genome-wide screen identifies the p97 AAA-ATPase as an essential regulator of DNA damage-dependent CDT1 destruction.
Malavika Raman, Courtney G. Havens, Johannes C. Walter and J.Wade Harper. Molecular Cell 44(1): 72-84 (2011).
Stairway to the Proteasome.

Malavika Raman and J. Wade Harper. Nature 462, 585-586 (2009). 
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Differential regulation and properties of MAPKs.
Malavika Raman, Wei Chen and Melanie H. Cobb. Oncogene 26(22): 3100-12. (2007).
 
TAO kinases mediate activation of p38 in response to DNA damage.
Malavika Raman, Svetlana Earnest, Kai Zhang, Yingming Zhao, and Melanie H. Cobb. EMBO Journal 26, 2005-2014. (2007).
 
TGF-b regulation by Emilin1: new links in the etiology of hypertension.
Malavika Raman and Melanie H. Cobb. Cell 124, 893-895 (2006).
 
Crystal structure of the TAO2 kinase domain: activation and specificity of a Ste20p MAP3K
Tianjin Zhou, Malavika Raman, Yan Gao, Svetlana Earnest, Zhu Chen, Mischa Machius, Melanie H. Cobb and Elizabeth J. Goldsmith, Structure 12, 1891-1900(2004).
 
MAP kinase modules: many roads home.
Malavika Raman and Melanie H. Cobb. Current Biology 13, R886-888 (2003).
 
TAO (thousand-and-one amino acid) protein kinases mediate signaling from carbachol to p38 mitogen-activated protein kinase and ternary complex factors.
Zhu Chen, Malavika Raman, Linda Chen, Shuifen Lee, Alfred G. Gilman and Melanie H. Cobb. Journal of Biological Chemistry 278, 22278-22283 (2003).
 
Identification of novel point mutations in ERK2 that selectively disrupt binding to MEK1.
Fred L. Robinson, Angelique W. Whitehurst, Malavika Raman and Melanie H. Cobb. Journal of Biological Chemistry 277, 14844-14852 (2002).