Research Paper
Cancer Research: M6A RNA Methylation Regulates Histone Ubiquitination to Support Cancer Growth and Progression (Gupta, Zheng, Houghton, Chen, and Rao Labs)
March 21, 2022
Pooja Yadav; Panneerdoss Subbarayalu; Daisy Medina, Saif Nirzhor; Santosh Timilsina; Subapriya Rajamanickam; Vijay K. Eedunuri; Yogesh Gupta Siyuan Zheng Nourhan Abdelfattah Yufei Huang Ratna Vadlamudi Robert Hromas; Paul Meltzer Peter Houghton; Yidong Chen Manjeet K. Rao Abstract Osteosarcoma is the most common malignancy of the bone, yet the survival for osteosarcoma patients is virtually unchanged [...]Cell Death & Disease: Global profiling reveals common and distinct N6-methyladenosine (m6A) regulation of innate immune responses during bacterial and viral infections (Lai & Chen Labs)
March 15, 2022
Jian Feng, Teng Zhang, Océane Sorel, Wen Meng, Xinquan Zhang, Zhao Lai, Weiming Yuan, Yidong Chen, Yufei Huang & Shou-Jiang Gao Abstract N6-methyladenosine (m6A) is a dynamic post-transcriptional RNA modification influencing all aspects of mRNA biology. While m6A modifications during numerous viral infections have been described, the role of m6A in innate immune response remains unclear. [...]eLife: Signature-scoring methods developed for bulk samples are not adequate for cancer single-cell RNA sequencing data (Zheng, Chen, & Wang Labs)
March 7, 2022
Nighat Noureen, Zhenqing Ye, Yidong Chen, Xiaojing Wang, Siyuan Zheng Abstract Quantifying the activity of gene expression signatures is common in analyses of single-cell RNA sequencing data. Methods originally developed for bulk samples are often used for this purpose without accounting for contextual differences between bulk and single-cell data. More broadly, these methods have not [...]Non-Coding RNA, FibroDB: Expression Analysis of Protein-Coding and Long Non-Coding RNA Genes in Fibrosis (Bishop Lab)
February 25, 2022
by Mirolyuba Ilieva 1ORCID,Henry E. Miller 2,3,4ORCID,Arav Agarwal 4,5,Gabriela K. Paulus 4,6,Jens Hedelund Madsen 1,Alexander J. R. Bishop 2,3,7ORCID,Sakari Kauppinen 1 and Shizuka Uchida 1,*ORCID Abstract Most long non-coding RNAs (lncRNAs) are expressed at lower levels than protein-coding genes and their expression is often restricted to specific cell types, certain time points during development, and [...]Cancers: Global Genomic and Proteomic Analysis Identified Critical Pathways Modulated by Proto-Oncogene PELP1 in TNBC (Chen & Lai)
February 25, 2022
by Zexuan Liu 1,2,†,Kristin A. Altwegg 1,3,†ORCID,Junhao Liu 1,2,Susan T. Weintraub 4,Yidong Chen 5,6,Zhao Lai 5,7,Gangadhara R. Sareddy 1,3,Suryavathi Viswanadhapalli 1,3,*ORCID and Ratna K. Vadlamudi 1,3,8,* Simple Summary The proto-oncogene PELP1 is commonly overexpressed in many cancers including triple-negative breast cancer (TNBC). In this study, we utilized global proteomic and RNA-seq approaches to elucidate the [...]Journal of Pediatric Hematology/Oncology: Extrarenal Anaplastic Wilms Tumor A Case Report With Genomic Analysis And Tumor Models (Kurmasheva & Houghton)
February 8, 2022
Willis, Kelsi R. MS*; Sathe, Adwait A. PhD†; Xing, Chao PhD†,‡,§; Koduru, Prasad PhD*; Artunduaga, Maddy MD∥,¶; Butler, Erin B. MD#; Park, Jason Y. MD, PhD*,¶; Kurmasheva, Raushan T. PhD**,††; Houghton, Peter J. PhD**,††; Chen, Kenneth S. MD¶,#; Rakheja, Dinesh MD*,¶ Abstract Primary extrarenal Wilms tumors are rare neoplasms that are presumed to arise from [...]Brain, Behavior, & Immunity: Sex-dependent pain trajectories induced by prolactin require an inflammatory response for pain resolution (Lai Lab)
January 24, 2022
Author links open overlay panelJenniferMecklenburga AndiWangzhouf Anahit H.Hovhannisyana PriscillaBarba-Escobedoa Sergey A.Sheinb YiZoud KorriWeldond ZhaoLaideVincentGoffing GregoryDussorf Alexei V.Tumanovb Theodore J.Pricef Armen N.Akopianac Highlights: • Prolactin treatment generates sex differences in pain trajectories in mice. • Low-dose prolactin treatment causes a non-resolving pain phenotype in females. • Pain resolution is preceded by pro-inflammatory CD11b+/CD64+ cell responses. • [...]eLife: RNA binding to human METTL3-METTL14 restricts N6-deoxyadenosine methylation of DNA in vitro (Gupta Lab)
January 21, 2022
Shan Qi, Javier Mota, Siu-Hong Chan, Johanna Villarreal, Nan Dai, Shailee Arya, Robert A Hromas, Manjeet K Rao, Ivan R Corrêa Jr Yogesh K Gupta Abstract Methyltransferase like-3 (METTL3) and METTL14 complex transfer a methyl group from S-adenosyl-L-methionine to N6 amino group of adenosine bases in RNA (m6A) and DNA (m6dA). Emerging evidence highlights the role of [...]Frontiers in Microbiology: Robust Heat Shock Response in Chlamydia Lacking a Typical Heat Shock Sigma Factor (Lai Lab)
January 20, 2022
Yehong Huang1,2†, Wurihan Wurihan2†, Bin Lu1,2†, Yi Zou3, Yuxuan Wang2†, Korri Weldon3, Joseph D. Fondell2†, Zhao Lai3,4, Xiang Wu1*†, and Huizhou Fan2*† Cells reprogram their transcriptome in response to stress, such as heat shock. In free-living bacteria, the transcriptomic reprogramming is mediated by increased DNA-binding activity of heat shock sigma factors and activation of genes normally repressed [...]