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Citrobacter rodentium induces rapid and unique metabolic and inflammatory responses in mice suffering from severe disease.

Carson D, Barry R, Hopkins EGD, Roumeliotis TI, García-Weber D, Mullineaux-Sanders C, Elinav E, Arrieumerlou C, Choudhary JS, Frankel G.

Cell Microbiol. 2019 Oct 14:e13126. doi: 10.1111/cmi.13126. [Epub ahead of print]


The midbody interactome reveals unexpected roles for PP1 phosphatases in cytokinesis.

Capalbo L, Bassi ZI, Geymonat M, Todesca S, Copoiu L, Enright AJ, Callaini G, Riparbelli MG, Yu L, Choudhary JS, Ferrero E, Wheatley S, Douglas ME, Mishima M, D'Avino PP.

Nat Commun. 2019 Oct 4;10(1):4513. doi: 10.1038/s41467-019-12507-9.


The flagellotropic bacteriophage YSD1 targets Salmonella Typhi with a Chi-like protein tail fibre.

Dunstan RA, Pickard D, Dougan S, Goulding D, Cormie C, Hardy J, Li F, Grinter R, Harcourt K, Yu L, Song J, Schreiber F, Choudhary J, Clare S, Coulibaly F, Strugnell RA, Dougan G, Lithgow T.

Mol Microbiol. 2019 Sep 25. doi: 10.1111/mmi.14396. [Epub ahead of print]


Dexmedetomidine with propofol versus fentanyl with propofol for insertion of Proseal laryngeal mask airway: A randomized, double-blinded clinical trial.

Choudhary J, Prabhudesai A, Datta C.

J Anaesthesiol Clin Pharmacol. 2019 Jul-Sep;35(3):368-372. doi: 10.4103/joacp.JOACP_104_18.


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, Kay M, Davidson C, Fitzgerald S, Seal R, Tweedie S, He L, Waterhouse RM, Li Y, Bruford E, Choudhary JS, Frankish A, Kellis M.

Genome Res. 2019 Sep 19. pii: gr.246462.118. doi: 10.1101/gr.246462.118. [Epub ahead of print]


Indian Antimicrobial Prescription Guidelines in Critically Ill Immunocompromised Patients.

Kulkarni AP, Sengar M, Chinnaswamy G, Hegde A, Rodrigues C, Soman R, Khilnani GC, Ramasubban S, Desai M, Pandit R, Khasne R, Shetty A, Gilada T, Bhosale S, Kothekar A, Dixit S, Zirpe K, Mehta Y, Pulinilkunnathil JG, Bhagat V, Khan MS, Narkhede AM, Baliga N, Ammapalli S, Bamne S, Turkar S, K VB, Choudhary J, Kumar R, Divatia JV.

Indian J Crit Care Med. 2019 Jan;23(Suppl 1):S64-S96. doi: 10.5005/jp-journals-10071-23102.


Blood Pressure Target in Acute Brain Injury.

Jain V, Choudhary J, Pandit R.

Indian J Crit Care Med. 2019 Jun;23(Suppl 2):S136-S139. doi: 10.5005/jp-journals-10071-23191. Review.


Landscape of the Plasmodium Interactome Reveals Both Conserved and Species-Specific Functionality.

Hillier C, Pardo M, Yu L, Bushell E, Sanderson T, Metcalf T, Herd C, Anar B, Rayner JC, Billker O, Choudhary JS.

Cell Rep. 2019 Aug 6;28(6):1635-1647.e5. doi: 10.1016/j.celrep.2019.07.019.


Comparison of IV granisetron and IV palonosetron on hemodynamics and sensory and motor block after spinal anesthesia with hyperbaric bupivacaine in patients undergoing abdominal hysterectomy.

Choudhary J, Mahajan R, Mahajan A, Gulati S, Mehta A, Nazir R.

J Anaesthesiol Clin Pharmacol. 2019 Apr-Jun;35(2):176-181. doi: 10.4103/joacp.JOACP_334_17.


Spatio-temporal temperature variations in MarkSim multimodel data and their impact on voltinism of fruit fly, Bactrocera species on mango.

Choudhary JS, Mali SS, Mukherjee D, Kumari A, Moanaro L, Rao MS, Das B, Singh AK, Bhatt BP.

Sci Rep. 2019 Jul 4;9(1):9708. doi: 10.1038/s41598-019-45801-z.


Autoinhibition Mechanism of the Ubiquitin-Conjugating Enzyme UBE2S by Autoubiquitination.

Liess AKL, Kucerova A, Schweimer K, Yu L, Roumeliotis TI, Diebold M, Dybkov O, Sotriffer C, Urlaub H, Choudhary JS, Mansfeld J, Lorenz S.

Structure. 2019 Aug 6;27(8):1195-1210.e7. doi: 10.1016/j.str.2019.05.008. Epub 2019 Jun 20.


Proteomic navigation using proximity-labeling.

Gentzel M, Pardo M, Subramaniam S, Stewart AF, Choudhary JS.

Methods. 2019 Jul 15;164-165:67-72. doi: 10.1016/j.ymeth.2019.03.028. Epub 2019 Apr 4.


Intestinal Epithelial Cells and the Microbiome Undergo Swift Reprogramming at the Inception of Colonic Citrobacter rodentium Infection.

Hopkins EGD, Roumeliotis TI, Mullineaux-Sanders C, Choudhary JS, Frankel G.

MBio. 2019 Apr 2;10(2). pii: e00062-19. doi: 10.1128/mBio.00062-19.


Uricase grafted nanoconducting matrix based electrochemical biosensor for ultrafast uric acid detection in human serum samples.

Verma S, Choudhary J, Singh KP, Chandra P, Singh SP.

Int J Biol Macromol. 2019 Jun 1;130:333-341. doi: 10.1016/j.ijbiomac.2019.02.121. Epub 2019 Feb 21.


Overexpression of Claspin and Timeless protects cancer cells from replication stress in a checkpoint-independent manner.

Bianco JN, Bergoglio V, Lin YL, Pillaire MJ, Schmitz AL, Gilhodes J, Lusque A, Mazières J, Lacroix-Triki M, Roumeliotis TI, Choudhary J, Moreaux J, Hoffmann JS, Tourrière H, Pasero P.

Nat Commun. 2019 Feb 22;10(1):910. doi: 10.1038/s41467-019-08886-8.


Heavy Metals Scavenging Potential of Trichoderma asperellum and Hypocrea nigricans Isolated from Acid Soil of Jharkhand.

Maurya S, Rashk-E-Eram, Naik SK, Choudhary JS, Kumar S.

Indian J Microbiol. 2019 Mar;59(1):27-38. doi: 10.1007/s12088-018-0756-7. Epub 2018 Aug 9.


The BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation.

Zhang W, Chronis C, Chen X, Zhang H, Spalinskas R, Pardo M, Chen L, Wu G, Zhu Z, Yu Y, Yu L, Choudhary J, Nichols J, Parast MM, Greber B, Sahlén P, Plath K.

Cell Stem Cell. 2019 Jan 3;24(1):138-152.e8. doi: 10.1016/j.stem.2018.12.001.


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, Gittings LM, Holbling BV, Dyson MC, Thoeng A, Neeves J, Glaria I, Yu L, Bussmann J, Storkebaum E, Pardo M, Choudhary JS, Fratta P, Partridge L, Isaacs AM.

Acta Neuropathol. 2019 Mar;137(3):487-500. doi: 10.1007/s00401-018-1946-4. Epub 2019 Jan 2.


Evaluation of a Dual Isolation Width Acquisition Method for Isobaric Labeling Ratio Decompression.

Roumeliotis TI, Weisser H, Choudhary JS.

J Proteome Res. 2019 Mar 1;18(3):1433-1440. doi: 10.1021/acs.jproteome.8b00870. Epub 2019 Jan 3.


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, Choudhary JS, Mansfeld J.

Nat Commun. 2018 Nov 14;9(1):4776. doi: 10.1038/s41467-018-07251-5.


The Citrobacter rodentium type III secretion system effector EspO affects mucosal damage repair and antimicrobial responses.

Berger CN, Crepin VF, Roumeliotis TI, Wright JC, Serafini N, Pevsner-Fischer M, Yu L, Elinav E, Di Santo JP, Choudhary JS, Frankel G.

PLoS Pathog. 2018 Oct 26;14(10):e1007406. doi: 10.1371/journal.ppat.1007406. eCollection 2018 Oct.


GENCODE reference annotation for the human and mouse genomes.

Frankish A, Diekhans M, Ferreira AM, Johnson R, Jungreis I, Loveland J, Mudge JM, Sisu C, Wright J, Armstrong J, Barnes I, Berry A, Bignell A, Carbonell Sala S, Chrast J, Cunningham F, Di Domenico T, Donaldson S, Fiddes IT, García Girón C, Gonzalez JM, Grego T, Hardy M, Hourlier T, Hunt T, Izuogu OG, Lagarde J, Martin FJ, Martínez L, Mohanan S, Muir P, Navarro FCP, Parker A, Pei B, Pozo F, Ruffier M, Schmitt BM, Stapleton E, Suner MM, Sycheva I, Uszczynska-Ratajczak B, Xu J, Yates A, Zerbino D, Zhang Y, Aken B, Choudhary JS, Gerstein M, Guigó R, Hubbard TJP, Kellis M, Paten B, Reymond A, Tress ML, Flicek P.

Nucleic Acids Res. 2019 Jan 8;47(D1):D766-D773. doi: 10.1093/nar/gky955.


Inhibition of somatosensory mechanotransduction by annexin A6.

Raouf R, Lolignier S, Sexton JE, Millet Q, Santana-Varela S, Biller A, Fuller AM, Pereira V, Choudhary JS, Collins MO, Moss SE, Lewis R, Tordo J, Henckaerts E, Linden M, Wood JN.

Sci Signal. 2018 Jun 19;11(535). pii: eaao2060. doi: 10.1126/scisignal.aao2060.


A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes.

Schlaffner CN, Pirklbauer GJ, Bender A, Steen JAJ, Choudhary JS.

J Vis Exp. 2018 May 22;(135). doi: 10.3791/57633.


Evaluation of Probiotic Potential and Safety Assessment of Lactobacillus pentosus MMP4 Isolated From Mare's Lactation.

Choudhary J, Dubey RC, Sengar G, Dheeman S.

Probiotics Antimicrob Proteins. 2019 Jun;11(2):403-412. doi: 10.1007/s12602-018-9431-x.


Using PCR-PIRA based genotyping for identifying complex vertebral malformation allele in Frieswal young bulls in India.

Alyethodi RR, Kumar S, Deb R, Alex R, Singh U, Sharma S, Ashish, Choudhary J, Sengar G, Singh R, Tyagi S, Birham P.

Iran J Vet Res. 2018 Winter;19(1):44-47.


Widespread epigenomic, transcriptomic and proteomic differences between hip osteophytic and articular chondrocytes in osteoarthritis.

Steinberg J, Brooks RA, Southam L, Bhatnagar S, Roumeliotis TI, Hatzikotoulas K, Zengini E, Wilkinson JM, Choudhary JS, McCaskie AW, Zeggini E.

Rheumatology (Oxford). 2018 Aug 1;57(8):1481-1489. doi: 10.1093/rheumatology/key101.


UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs.

Gozdecka M, Meduri E, Mazan M, Tzelepis K, Dudek M, Knights AJ, Pardo M, Yu L, Choudhary JS, Metzakopian E, Iyer V, Yun H, Park N, Varela I, Bautista R, Collord G, Dovey O, Garyfallos DA, De Braekeleer E, Kondo S, Cooper J, Göttgens B, Bullinger L, Northcott PA, Adams D, Vassiliou GS, Huntly BJP.

Nat Genet. 2018 Jun;50(6):883-894. doi: 10.1038/s41588-018-0114-z. Epub 2018 May 7.


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, Pardo M, Choudhary JS, Cerdán ME.

Oncotarget. 2018 Apr 10;9(27):19050-19064. doi: 10.18632/oncotarget.24887. eCollection 2018 Apr 10.


Broad-Spectrum Regulation of Nonreceptor Tyrosine Kinases by the Bacterial ADP-Ribosyltransferase EspJ.

Pollard DJ, Berger CN, So EC, Yu L, Hadavizadeh K, Jennings P, Tate EW, Choudhary JS, Frankel G.

MBio. 2018 Apr 10;9(2). pii: e00170-18. doi: 10.1128/mBio.00170-18.


Transversalis Fascia Plane Block for the Treatment of Chronic Postherniorrhaphy Inguinal Pain: A Case Report.

Choudhary J, Mishra AK, Jadhav R.

A A Pract. 2018 Aug 1;11(3):57-59. doi: 10.1213/XAA.0000000000000730.


Nbeal2 interacts with Dock7, Sec16a, and Vac14.

Mayer L, Jasztal M, Pardo M, Aguera de Haro S, Collins J, Bariana TK, Smethurst PA, Grassi L, Petersen R, Nurden P, Favier R, Yu L, Meacham S, Astle WJ, Choudhary J, Yue WW, Ouwehand WH, Guerrero JA.

Blood. 2018 Mar 1;131(9):1000-1011. doi: 10.1182/blood-2017-08-800359. Epub 2017 Nov 29.


Sub-minute Phosphoregulation of Cell Cycle Systems during Plasmodium Gamete Formation.

Invergo BM, Brochet M, Yu L, Choudhary J, Beltrao P, Billker O.

Cell Rep. 2017 Nov 14;21(7):2017-2029. doi: 10.1016/j.celrep.2017.10.071.


Activation of the Aryl Hydrocarbon Receptor Interferes with Early Embryonic Development.

Gialitakis M, Tolaini M, Li Y, Pardo M, Yu L, Toribio A, Choudhary JS, Niakan K, Papayannopoulos V, Stockinger B.

Stem Cell Reports. 2017 Nov 14;9(5):1377-1386. doi: 10.1016/j.stemcr.2017.09.025. Epub 2017 Oct 26.


Arc Requires PSD95 for Assembly into Postsynaptic Complexes Involved with Neural Dysfunction and Intelligence.

Fernández E, Collins MO, Frank RAW, Zhu F, Kopanitsa MV, Nithianantharajah J, Lemprière SA, Fricker D, Elsegood KA, McLaughlin CL, Croning MDR, Mclean C, Armstrong JD, Hill WD, Deary IJ, Cencelli G, Bagni C, Fromer M, Purcell SM, Pocklington AJ, Choudhary JS, Komiyama NH, Grant SGN.

Cell Rep. 2017 Oct 17;21(3):679-691. doi: 10.1016/j.celrep.2017.09.045.


Crosstalk between PKA and PKG controls pH-dependent host cell egress of Toxoplasma gondii.

Jia Y, Marq JB, Bisio H, Jacot D, Mueller C, Yu L, Choudhary J, Brochet M, Soldati-Favre D.

EMBO J. 2017 Nov 2;36(21):3250-3267. doi: 10.15252/embj.201796794. Epub 2017 Oct 13.


Citrobacter rodentium Subverts ATP Flux and Cholesterol Homeostasis in Intestinal Epithelial Cells In Vivo.

Berger CN, Crepin VF, Roumeliotis TI, Wright JC, Carson D, Pevsner-Fischer M, Furniss RCD, Dougan G, Dori-Bachash M, Yu L, Clements A, Collins JW, Elinav E, Larrouy-Maumus GJ, Choudhary JS, Frankel G.

Cell Metab. 2017 Nov 7;26(5):738-752.e6. doi: 10.1016/j.cmet.2017.09.003. Epub 2017 Oct 5.


Proteomic analysis of extracellular vesicles from a Plasmodium falciparum Kenyan clinical isolate defines a core parasite secretome.

Abdi A, Yu L, Goulding D, Rono MK, Bejon P, Choudhary J, Rayner J.

Wellcome Open Res. 2017 Nov 22;2:50. doi: 10.12688/wellcomeopenres.11910.2. eCollection 2017.


Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells.

Roumeliotis TI, Williams SP, Gonçalves E, Alsinet C, Del Castillo Velasco-Herrera M, Aben N, Ghavidel FZ, Michaut M, Schubert M, Price S, Wright JC, Yu L, Yang M, Dienstmann R, Guinney J, Beltrao P, Brazma A, Pardo M, Stegle O, Adams DJ, Wessels L, Saez-Rodriguez J, McDermott U, Choudhary JS.

Cell Rep. 2017 Aug 29;20(9):2201-2214. doi: 10.1016/j.celrep.2017.08.010.


Fast, Quantitative and Variant Enabled Mapping of Peptides to Genomes.

Schlaffner CN, Pirklbauer GJ, Bender A, Choudhary JS.

Cell Syst. 2017 Aug 23;5(2):152-156.e4. doi: 10.1016/j.cels.2017.07.007.


Integrative epigenomics, transcriptomics and proteomics of patient chondrocytes reveal genes and pathways involved in osteoarthritis.

Steinberg J, Ritchie GRS, Roumeliotis TI, Jayasuriya RL, Clark MJ, Brooks RA, Binch ALA, Shah KM, Coyle R, Pardo M, Le Maitre CL, Ramos YFM, Nelissen RGHH, Meulenbelt I, McCaskie AW, Choudhary JS, Wilkinson JM, Zeggini E.

Sci Rep. 2017 Aug 21;7(1):8935. doi: 10.1038/s41598-017-09335-6.


Myst2/Kat7 histone acetyltransferase interaction proteomics reveals tumour-suppressor Niam as a novel binding partner in embryonic stem cells.

Pardo M, Yu L, Shen S, Tate P, Bode D, Letney BL, Quelle DE, Skarnes W, Choudhary JS.

Sci Rep. 2017 Aug 15;7(1):8157. doi: 10.1038/s41598-017-08456-2.


Transcriptome and proteome analysis of Salmonella enterica serovar Typhimurium systemic infection of wild type and immune-deficient mice.

Oshota O, Conway M, Fookes M, Schreiber F, Chaudhuri RR, Yu L, Morgan FJE, Clare S, Choudhary J, Thomson NR, Lio P, Maskell DJ, Mastroeni P, Grant AJ.

PLoS One. 2017 Aug 10;12(8):e0181365. doi: 10.1371/journal.pone.0181365. eCollection 2017.


Genetic analysis of Bactrocera zonata (Diptera: Tephritidae) populations from India based on cox1 and nad1 gene sequences.

Choudhary JS, Naaz N, Lemtur M, Das B, Singh AK, Bhatt BP, Prabhakar CS.

Mitochondrial DNA A DNA Mapp Seq Anal. 2018 Jul;29(5):727-736. doi: 10.1080/24701394.2017.1350952. Epub 2017 Jul 15.


Global, site-specific analysis of neuronal protein S-acylation.

Collins MO, Woodley KT, Choudhary JS.

Sci Rep. 2017 Jul 5;7(1):4683. doi: 10.1038/s41598-017-04580-1.


Targeted Feature Detection for Data-Dependent Shotgun Proteomics.

Weisser H, Choudhary JS.

J Proteome Res. 2017 Aug 4;16(8):2964-2974. doi: 10.1021/acs.jproteome.7b00248. Epub 2017 Jul 19.


Multiple short windows of calcium-dependent protein kinase 4 activity coordinate distinct cell cycle events during Plasmodium gametogenesis.

Fang H, Klages N, Baechler B, Hillner E, Yu L, Pardo M, Choudhary J, Brochet M.

Elife. 2017 May 8;6. pii: e26524. doi: 10.7554/eLife.26524.


Resolving Affinity Purified Protein Complexes by Blue Native PAGE and Protein Correlation Profiling.

Pardo M, Bode D, Yu L, Choudhary JS.

J Vis Exp. 2017 Apr 1;(122). doi: 10.3791/55498.


Exploiting induced pluripotent stem cell-derived macrophages to unravel host factors influencing Chlamydia trachomatis pathogenesis.

Yeung ATY, Hale C, Lee AH, Gill EE, Bushell W, Parry-Smith D, Goulding D, Pickard D, Roumeliotis T, Choudhary J, Thomson N, Skarnes WC, Dougan G, Hancock REW.

Nat Commun. 2017 Apr 25;8:15013. doi: 10.1038/ncomms15013.


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, Goulding DA, van der Weyden L, Storisteanu D, Prakash A, Espéli M, Flint S, Lee JC, Hoenderdos K, Kane L, Harcourt K, Mukhopadhyay S, Umrania Y, Antrobus R, Nathan JA, Adams DJ, Bateman A, Choudhary JS, Lyons PA, Condliffe AM, Chilvers ER, Dougan G, Smith KG.

J Exp Med. 2017 Apr 3;214(4):1111-1128. doi: 10.1084/jem.20161382. Epub 2017 Mar 28.

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