Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 84

1.

Cell-type specific visualization and biochemical isolation of endogenous synaptic proteins in mice.

Zhu F, Collins MO, Harmse J, Choudhary JS, Grant SGN, Komiyama NH.

Eur J Neurosci. 2019 Oct 16. doi: 10.1111/ejn.14597. [Epub ahead of print]

PMID:
31621109
2.

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]

PMID:
31610608
3.

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.

4.

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]

5.

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.

6.

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.

7.

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.

PMID:
31230944
8.

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.

PMID:
30953756
9.

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.

10.

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.

PMID:
30728628
11.

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.

12.

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.

13.

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.

14.

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.

15.

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.

16.

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.

17.

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.

18.

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.

19.

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.

20.

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.

21.

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.

22.

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.

23.

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.

24.

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.

25.

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.

26.

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.

27.

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.

28.

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.

29.

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.

PMID:
28712341
30.

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.

31.

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.

32.

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.

33.

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.

34.

Evolution of complexity in the zebrafish synapse proteome.

Bayés À, Collins MO, Reig-Viader R, Gou G, Goulding D, Izquierdo A, Choudhary JS, Emes RD, Grant SG.

Nat Commun. 2017 Mar 2;8:14613. doi: 10.1038/ncomms14613.

35.

Flexible Data Analysis Pipeline for High-Confidence Proteogenomics.

Weisser H, Wright JC, Mudge JM, Gutenbrunner P, Choudhary JS.

J Proteome Res. 2016 Dec 2;15(12):4686-4695. Epub 2016 Nov 10.

36.

Study of Plasmodium falciparum DHHC palmitoyl transferases identifies a role for PfDHHC9 in gametocytogenesis.

Tay CL, Jones ML, Hodson N, Theron M, Choudhary JS, Rayner JC.

Cell Microbiol. 2016 Nov;18(11):1596-1610. doi: 10.1111/cmi.12599. Epub 2016 May 3.

37.
38.

Population genetic structure of cotton pink bollworm, Pectinophora gossypiella (Saunders) (Lepidoptera: Gelechiidae) using mitochondrial cytochrome oxidase I (COI) gene sequences from India.

Sridhar J, Chinna Babu Naik V, Ghodke A, Kranthi S, Kranthi KR, Singh BP, Choudhary JS, Krishna MSR.

Mitochondrial DNA A DNA Mapp Seq Anal. 2017 Nov;28(6):941-948. doi: 10.1080/24701394.2016.1214727. Epub 2016 Sep 8.

PMID:
27607604
39.

OpenMS: a flexible open-source software platform for mass spectrometry data analysis.

Röst HL, Sachsenberg T, Aiche S, Bielow C, Weisser H, Aicheler F, Andreotti S, Ehrlich HC, Gutenbrunner P, Kenar E, Liang X, Nahnsen S, Nilse L, Pfeuffer J, Rosenberger G, Rurik M, Schmitt U, Veit J, Walzer M, Wojnar D, Wolski WE, Schilling O, Choudhary JS, Malmström L, Aebersold R, Reinert K, Kohlbacher O.

Nat Methods. 2016 Aug 30;13(9):741-8. doi: 10.1038/nmeth.3959.

PMID:
27575624
40.

DecoyPyrat: Fast Non-redundant Hybrid Decoy Sequence Generation for Large Scale Proteomics.

Wright JC, Choudhary JS.

J Proteomics Bioinform. 2016 Jun 27;9(6):176-180.

41.

Improving GENCODE reference gene annotation using a high-stringency proteogenomics workflow.

Wright JC, Mudge J, Weisser H, Barzine MP, Gonzalez JM, Brazma A, Choudhary JS, Harrow J.

Nat Commun. 2016 Jun 2;7:11778. doi: 10.1038/ncomms11778.

42.

Interferon-driven alterations of the host's amino acid metabolism in the pathogenesis of typhoid fever.

Blohmke CJ, Darton TC, Jones C, Suarez NM, Waddington CS, Angus B, Zhou L, Hill J, Clare S, Kane L, Mukhopadhyay S, Schreiber F, Duque-Correa MA, Wright JC, Roumeliotis TI, Yu L, Choudhary JS, Mejias A, Ramilo O, Shanyinde M, Sztein MB, Kingsley RA, Lockhart S, Levine MM, Lynn DJ, Dougan G, Pollard AJ.

J Exp Med. 2016 May 30;213(6):1061-77. doi: 10.1084/jem.20151025. Epub 2016 May 23.

43.

Quantitative proteomic analysis of Shigella flexneri and Shigella sonnei Generalized Modules for Membrane Antigens (GMMA) reveals highly pure preparations.

Maggiore L, Yu L, Omasits U, Rossi O, Dougan G, Thomson NR, Saul A, Choudhary JS, Gerke C.

Int J Med Microbiol. 2016 Feb;306(2):99-108. doi: 10.1016/j.ijmm.2015.12.003. Epub 2015 Dec 23.

44.

Cyclic diGMP regulates production of sortase substrates of Clostridium difficile and their surface exposure through ZmpI protease-mediated cleavage.

Peltier J, Shaw HA, Couchman EC, Dawson LF, Yu L, Choudhary JS, Kaever V, Wren BW, Fairweather NF.

J Biol Chem. 2015 Oct 2;290(40):24453-69. doi: 10.1074/jbc.M115.665091. Epub 2015 Aug 17.

45.
46.

Biology, morphology and DNA barcodes of Tessaratoma javanica (Thunberg) (Hemiptera: Tessaratomidae).

Parveen S, Choudhary JS, Thomas A, Ramamurthy VV.

Zootaxa. 2015 Mar 19;3936(2):261-71. doi: 10.11646/zootaxa.3936.2.6.

PMID:
25947434
47.

Palmitoylation and palmitoyl-transferases in Plasmodium parasites.

Hodson N, Invergo B, Rayner JC, Choudhary JS.

Biochem Soc Trans. 2015 Apr;43(2):240-5. doi: 10.1042/BST20140289. Review.

PMID:
25849924
48.

To study the effect of Kangaroo Mother Care on pain response in preterm neonates and to determine the behavioral and physiological responses to painful stimuli in preterm neonates: a study from western Rajasthan.

Choudhary M, Dogiyal H, Sharma D, Datt Gupta B, Madabhavi I, Choudhary JS, Choudhary SK.

J Matern Fetal Neonatal Med. 2016 Mar;29(5):826-31. doi: 10.3109/14767058.2015.1020419. Epub 2015 Mar 18.

PMID:
25758623
49.

To study prevalence of persistent pulmonary hypertension in newborn with meconium aspiration syndrome in western Rajasthan, India: a prospective observational study.

Choudhary M, Meena MK, Chhangani N, Sharma D, Choudhary JS, Choudhary SK.

J Matern Fetal Neonatal Med. 2016;29(2):324-7. doi: 10.3109/14767058.2014.1000296. Epub 2015 Jan 14.

PMID:
25586320
50.

Human post-mortem synapse proteome integrity screening for proteomic studies of postsynaptic complexes.

Bayés À, Collins MO, Galtrey CM, Simonnet C, Roy M, Croning MD, Gou G, van de Lagemaat LN, Milward D, Whittle IR, Smith C, Choudhary JS, Grant SG.

Mol Brain. 2014 Nov 28;7:88. doi: 10.1186/s13041-014-0088-4.

Supplemental Content

Loading ...
Support Center