Browsing Cancer Biology by author "Choudhary, Jyoti"
Now showing items 1-20 of 49
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A commercial antibody to the human condensin II subunit NCAPH2 cross-reacts with a SWI/SNF complex component.
Cutts, EE; Taylor, GC; Pardo, M; Yu, L; Wills, JC; et al. (F1000 Research Ltd, 2021-01-13)Condensin complexes compact and disentangle chromosomes in preparation for cell division. Commercially available antibodies raised against condensin subunits have been widely used to characterise their cellular interactome. ... -
Activation of the Aryl Hydrocarbon Receptor Interferes with Early Embryonic Development.
Gialitakis, M; Tolaini, M; Li, Y; Pardo, M; Yu, L; et al. (CELL PRESS, 2017-10-01)The transcriptional program of early embryonic development is tightly regulated by a set of well-defined transcription factors that suppress premature expression of differentiation genes and sustain the pluripotent identity. ... -
An E2-ubiquitin thioester-driven approach to identify substrates modified with ubiquitin and ubiquitin-like molecules.
Bakos, G; Yu, L; Gak, IA; Roumeliotis, TI; Liakopoulos, D; et al. (NATURE PUBLISHING GROUP, 2018-11-14)Covalent modifications of proteins with ubiquitin and ubiquitin-like molecules are instrumental to many biological processes. However, identifying the E3 ligase responsible for these modifications remains a major bottleneck ... -
Aneuploidy tolerance caused by BRG1 loss allows chromosome gains and recovery of fitness.
Schiavoni, F; Zuazua-Villar, P; Roumeliotis, TI; Benstead-Hume, G; Pardo, M; et al. (NATURE PORTFOLIO, 2022-04-01)Aneuploidy results in decreased cellular fitness in many species and model systems. However, aneuploidy is commonly found in cancer cells and often correlates with aggressive growth, suggesting that the impact of aneuploidy ... -
Autoinhibition Mechanism of the Ubiquitin-Conjugating Enzyme UBE2S by Autoubiquitination.
Liess, AKL; Kucerova, A; Schweimer, K; Yu, L; Roumeliotis, TI; et al. (CELL PRESS, 2019-08-06)Ubiquitin-conjugating enzymes (E2s) govern key aspects of ubiquitin signaling. Emerging evidence suggests that the activities of E2s are modulated by posttranslational modifications; the structural underpinnings, however, ... -
C9orf72 arginine-rich dipeptide proteins interact with ribosomal proteins in vivo to induce a toxic translational arrest that is rescued by eIF1A.
Moens, TG; Niccoli, T; Wilson, KM; Atilano, ML; Birsa, N; et al. (SPRINGER, 2019-03-01)A GGGGCC hexanucleotide repeat expansion within the C9orf72 gene is the most common genetic cause of both amyotrophic lateral sclerosis and frontotemporal dementia. Sense and antisense repeat-containing transcripts undergo ... -
Characterization of proteome-size scaling by integrative omics reveals mechanisms of proliferation control in cancer.
Jones, I; Dent, L; Higo, T; Roumeliotis, T; Arias Garcia, M; et al. (AMER ASSOC ADVANCEMENT SCIENCE, 2023-01-25)Almost all living cells maintain size uniformity through successive divisions. Proteins that over and underscale with size can act as rheostats, which regulate cell cycle progression. Using a multiomic strategy, we leveraged ... -
Characterization of Two Distinct Nucleosome Remodeling and Deacetylase (NuRD) Complex Assemblies in Embryonic Stem Cells.
Bode, D; Yu, L; Tate, P; Pardo, M; Choudhary, J (AMER SOC BIOCHEMISTRY MOLECULAR BIOLOGY INC, 2016-03-01)Pluripotency and self-renewal, the defining properties of embryonic stem cells, are brought about by transcriptional programs involving an intricate network of transcription factors and chromatin remodeling complexes. The ... -
Citrobacter rodentium Subverts ATP Flux and Cholesterol Homeostasis in Intestinal Epithelial Cells In Vivo.
Berger, CN; Crepin, VF; Roumeliotis, TI; Wright, JC; Carson, D; et al. (CELL PRESS, 2017-11-07)The intestinal epithelial cells (IECs) that line the gut form a robust line of defense against ingested pathogens. We investigated the impact of infection with the enteric pathogen Citrobacter rodentium on mouse IEC ... -
Clustering of Tir during enteropathogenic E. coli infection triggers calcium influx-dependent pyroptosis in intestinal epithelial cells.
Zhong, Q; Roumeliotis, TI; Kozik, Z; Cepeda-Molero, M; Fernández, LÁ; et al. (PUBLIC LIBRARY SCIENCE, 2020-12-30)Clustering of the enteropathogenic Escherichia coli (EPEC) type III secretion system (T3SS) effector translocated intimin receptor (Tir) by intimin leads to actin polymerisation and pyroptotic cell death in macrophages. ... -
CRISPR activation screen in mice identifies novel membrane proteins enhancing pulmonary metastatic colonisation.
van der Weyden, L; Harle, V; Turner, G; Offord, V; Iyer, V; et al. (NATURE PORTFOLIO, 2021-03-23)Melanoma represents ~5% of all cutaneous malignancies, yet accounts for the majority of skin cancer deaths due to its propensity to metastasise. To develop new therapies, novel target molecules must to be identified and ... -
Cyclin B1-Cdk1 facilitates MAD1 release from the nuclear pore to ensure a robust spindle checkpoint.
Jackman, M; Marcozzi, C; Barbiero, M; Pardo, M; Yu, L; et al. (ROCKEFELLER UNIV PRESS, 2020-06-01)How the cell rapidly and completely reorganizes its architecture when it divides is a problem that has fascinated researchers for almost 150 yr. We now know that the core regulatory machinery is highly conserved in eukaryotes, ... -
Delineating the HMGB1 and HMGB2 interactome in prostate and ovary epithelial cells and its relationship with cancer.
Barreiro-Alonso, A; Lamas-Maceiras, M; García-Díaz, R; Rodríguez-Belmonte, E; Yu, L; et al. (Impact Journals, LLC, 2018-04-10)High Mobility Group B (HMGB) proteins are involved in cancer progression and in cellular responses to platinum compounds used in the chemotherapy of prostate and ovary cancer. Here we use affinity purification coupled to ... -
Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci.
Mudge, JM; Jungreis, I; Hunt, T; Gonzalez, JM; Wright, JC; et al. (COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT, 2019-12-01)The most widely appreciated role of DNA is to encode protein, yet the exact portion of the human genome that is translated remains to be ascertained. We previously developed PhyloCSF, a widely used tool to identify ... -
Eros is a novel transmembrane protein that controls the phagocyte respiratory burst and is essential for innate immunity.
Thomas, DC; Clare, S; Sowerby, JM; Pardo, M; Juss, JK; et al. (ROCKEFELLER UNIV PRESS, 2017-04-03)The phagocyte respiratory burst is crucial for innate immunity. The transfer of electrons to oxygen is mediated by a membrane-bound heterodimer, comprising gp91phox and p22phox subunits. Deficiency of either subunit leads ... -
EROS is a selective chaperone regulating the phagocyte NADPH oxidase and purinergic signalling.
Randzavola, LO; Mortimer, PM; Garside, E; Dufficy, ER; Schejtman, A; et al. (eLIFE SCIENCES PUBL LTD, 2022-11-24)EROS (essential for reactive oxygen species) protein is indispensable for expression of gp91phox, the catalytic core of the phagocyte NADPH oxidase. EROS deficiency in humans is a novel cause of the severe immunodeficiency, ... -
Evidence for a novel overlapping coding sequence in POLG initiated at a CUG start codon.
Khan, YA; Jungreis, I; Wright, JC; Mudge, JM; Choudhary, JS; et al. (BMC, 2020-03-06)BACKGROUND: POLG, located on nuclear chromosome 15, encodes the DNA polymerase γ(Pol γ). Pol γ is responsible for the replication and repair of mitochondrial DNA (mtDNA). Pol γ is the only DNA polymerase found in mitochondria ... -
Flexible Data Analysis Pipeline for High-Confidence Proteogenomics.
Weisser, H; Wright, JC; Mudge, JM; Gutenbrunner, P; Choudhary, JS (AMER CHEMICAL SOC, 2016-12-02)Proteogenomics leverages information derived from proteomic data to improve genome annotations. Of particular interest are "novel" peptides that provide direct evidence of protein expression for genomic regions not previously ... -
GENCODE 2021.
Frankish, A; Diekhans, M; Jungreis, I; Lagarde, J; Loveland, JE; et al. (OXFORD UNIV PRESS, 2021-01-08)The GENCODE project annotates human and mouse genes and transcripts supported by experimental data with high accuracy, providing a foundational resource that supports genome biology and clinical genomics. GENCODE annotation ... -
GENCODE reference annotation for the human and mouse genomes.
Frankish, A; Diekhans, M; Ferreira, A-M; Johnson, R; Jungreis, I; et al. (OXFORD UNIV PRESS, 2019-01-08)The accurate identification and description of the genes in the human and mouse genomes is a fundamental requirement for high quality analysis of data informing both genome biology and clinical genomics. Over the last 15 ...