Publications

The Glue Grant experience: characterizing the post injury genomic response.

Cuenca AG, Maier RV, Cuschieri J, Moore EE, Moldawer LL, Tompkins RG,
Eur J Trauma Emerg Surg. 2011;37(6):549-58 - PMID: 26815465

Systematics-guided bioprospecting for bioactive microbial natural products.

Liu X, Bolla K, Ashforth EJ, Zhuo Y, Gao H, Huang P, Stanley SA, Hung DT, Zhang L
Antonie Van Leeuwenhoek. 2011;101(1):55-66 - PMID: 22086462

C-aryl glucosides substituted at the 4'-position as potent and selective renal sodium-dependent glucose co-transporter 2 (SGLT2) inhibitors for the treatment of type 2 diabetes.

Xu B, Feng Y, Cheng H, Song Y, Lv B, Wu Y, Wang C, Li S, Xu M, Du J, Peng K, Dong J, Zhang W, Zhang T, Zhu L, Ding H, Sheng Z, Welihinda A, Roberge JY, Seed B, Chen Y
Bioorg Med Chem Lett. 2011;21(15):4465-70 - PMID: 21737266

EGT1442, a potent and selective SGLT2 inhibitor, attenuates blood glucose and HbA(1c) levels in db/db mice and prolongs the survival of stroke-prone rats.

Zhang W, Welihinda A, Mechanic J, Ding H, Zhu L, Lu Y, Deng Z, Sheng Z, Lv B, Chen Y, Roberge JY, Seed B, Wang YX
Pharmacol Res. 2011;63(4):284-93 - PMID: 21215314

A high-resolution map of human evolutionary constraint using 29 mammals.

Lindblad-Toh K, Garber M, Zuk O, Lin MF, Parker BJ, Washietl S, Kheradpour P, Ernst J, Jordan G, Mauceli E, Ward LD, Lowe CB, Holloway AK, Clamp M, Gnerre S, Alföldi J, Beal K, Chang J, Clawson H, Cuff J, Di Palma F, Fitzgerald S, Flicek P, Guttman M, Hubisz MJ, Jaffe DB, Jungreis I, Kent WJ, Kostka D, Lara M, Martins AL, Massingham T, Moltke I, Raney BJ, Rasmussen MD, Robinson J, Stark A, Vilella AJ, Wen J, Xie X, Zody MC; Broad Institute Sequencing Platform and Whole Genome Assembly Team, ...
Nature. 2011;478(7370):476-82 - PMID: 21993624 - PMCID: PMC3207357

Autophagy suppresses interleukin-1? (IL-1?) signaling by activation of p62 degradation via lysosomal and proteasomal pathways.

Lee J, Kim HR, Quinley C, Kim J, Gonzalez-Navajas J, Xavier R, Raz E
J Biol Chem. 2011;287(6):4033-40 - PMID: 22167182 - PMCID: PMC3281713

Caspase 8 inhibits programmed necrosis by processing CYLD.

O'Donnell MA, Perez-Jimenez E, Oberst A, Ng A, Massoumi R, Xavier R, Green DR, Ting AT
Nat Cell Biol. 2011;13(12):1437-42 - PMID: 22037414 - PMCID: PMC3229661

Control of NOD2 and Rip2-dependent innate immune activation by GEF-H1.

Zhao Y, Alonso C, Ballester I, Song JH, Chang SY, Guleng B, Arihiro S, Murray PJ, Xavier R, Kobayashi KS, Reinecker HC
Inflamm Bowel Dis. 2011;18(4):603-12 - PMID: 21887730 - PMCID: PMC3594873

Stem-cell-triggered immunity through CLV3p-FLS2 signalling.

Lee H, Chah OK, Sheen J
Nature. 2011;473(7347):376-9 - PMID: 21499263 - PMCID: PMC3098311

Protein kinase signaling networks in plant innate immunity.

Tena G, Boudsocq M, Sheen J
Curr Opin Plant Biol. 2011;14(5):519-29 - PMID: 21704551 - PMCID: PMC3191242

Stress-responsive mitogen-activated protein kinases interact with the EAR motif of a poplar zinc finger protein and mediate its degradation through the 26S proteasome.

Hamel LP, Benchabane M, Nicole MC, Major IT, Morency MJ, Pelletier G, Beaudoin N, Sheen J, Séguin A
Plant Physiol. 2011;157(3):1379-93 - PMID: 21873571 - PMCID: PMC3252155

Rapamycin and glucose-target of rapamycin (TOR) protein signaling in plants.

Xiong Y, Sheen J
J Biol Chem. 2011;287(4):2836-42 - PMID: 22134914 - PMCID: PMC3268441

Embryonal Stem (ES) Cell-Derived Macrophages : A Cellular System that Facilitates the Genetic Dissection of Macrophage Function.

Moore KJ, Freeman MW
Methods Mol Med. 2011;30:343-55 - PMID: 21341038

Isolation and long-term maintenance of adult rat hepatocytes in culture.

Berthiaume F, Tompkins RG, Yarmush ML
Methods Mol Med. 2011;18:447-56 - PMID: 21370195

Targeting Innate Immunity for CV Benefit.

Moore KJ, Freeman MW
Drug Discov Today Ther Strateg. 2011;5(1):15-23 - PMID: 19430537 - PMCID: PMC2678718

Crohn disease: a current perspective on genetics, autophagy and immunity.

Stappenbeck TS, Rioux JD, Mizoguchi A, Saitoh T, Huett A, Darfeuille-Michaud A, Wileman T, Mizushima N, Carding S, Akira S, Parkes M, Xavier RJ
Autophagy. 2011;7(4):355-74 - PMID: 20729636 - PMCID: PMC3842289

Early enteral nutrition in burns: compliance with guidelines and associated outcomes in a multicenter study.

Mosier MJ, Pham TN, Klein MB, Gibran NS, Arnoldo BD, Gamelli RL, Tompkins RG, Herndon DN
J Burn Care Res. 2011;32(1):104-9 - PMID: 21116188 - PMCID: PMC3850279

RNAi screening for fat regulatory genes with SRS microscopy.

Wang MC, Min W, Freudiger CW, Ruvkun G, Xie XS
Nat Methods. 2011;8(2):135-8 - PMID: 21240281 - PMCID: PMC3061290

mut-16 and other mutator class genes modulate 22G and 26G siRNA pathways in Caenorhabditis elegans.

Zhang C, Montgomery TA, Gabel HW, Fischer SE, Phillips CM, Fahlgren N, Sullivan CM, Carrington JC, Ruvkun G
Proc Natl Acad Sci U S A. 2011;108(4):1201-8 - PMID: 21245313 - PMCID: PMC3029761

Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology.

Rossin EJ, Lage K, Raychaudhuri S, Xavier RJ, Tatar D, Benita Y, , Cotsapas C, Daly MJ
PLoS Genet. 2011;7(1):e1001273 - PMID: 21249183 - PMCID: PMC3020935

Probing bacterial pathogenesis with genetics, genomics, and chemical biology: past, present, and future approaches.

Gomez JE, Clatworthy A, Hung DT
Crit Rev Biochem Mol Biol. 2011;46(1):41-66 - PMID: 21250782

ZFNGenome: a comprehensive resource for locating zinc finger nuclease target sites in model organisms.

Reyon D, Kirkpatrick JR, Sander JD, Zhang F, Voytas DF, Joung JK, Dobbs D, Coffman CR
BMC Genomics. 2011;12:83 - PMID: 21276248 - PMCID: PMC3042413

A high throughput amenable Arabidopsis-P. aeruginosa system reveals a rewired regulatory module and the utility to identify potent anti-infectives.

Gopalan S, Ausubel FM
PLoS One. 2011;6(1):e16381 - PMID: 21283656 - PMCID: PMC3025032

Effects of glucagon-like peptide 1 on glycemia control and its metabolic consequence after severe thermal injury--studies in an animal model.

Shen CA, Fagan S, Fischman AJ, Carter EE, Chai JK, Lu XM, Yu YM, Tompkins RG
Surgery. 2011;149(5):635-44 - PMID: 21295809 - PMCID: PMC3079016

Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.

Anderson CA, Boucher G, Lees CW, Franke A, D'Amato M, Taylor KD, Lee JC, Goyette P, Imielinski M, Latiano A, Lagacé C, Scott R, Amininejad L, Bumpstead S, Baidoo L, Baldassano RN, Barclay M, Bayless TM, Brand S, Büning C, Colombel JF, Denson LA, De Vos M, Dubinsky M, Edwards C, Ellinghaus D, Fehrmann RS, Floyd JA, Florin T, Franchimont D, Franke L, Georges M, Glas J, Glazer NL, Guthery SL, Haritunians T, Hayward NK, Hugot JP, Jobin G, Laukens D, Lawrance I, Lémann M, Levine A, Libioulle C, L ...
Nat Genet. 2011;43(3):246-52 - PMID: 21297633 - PMCID: PMC3084597

Human transcriptome array for high-throughput clinical studies.

Xu W, Seok J, Mindrinos MN, Schweitzer AC, Jiang H, Wilhelmy J, Clark TA, Kapur K, Xing Y, Faham M, Storey JD, Moldawer LL, Maier RV, Tompkins RG, Wong WH, Davis RW, Xiao W,
Proc Natl Acad Sci U S A. 2011;108(9):3707-12 - PMID: 21317363 - PMCID: PMC3048146

Microfluidics for T- lymphocyte cell separation and inflammation monitoring in burn patients.

Rosenbach AE, Koria P, Goverman J, Kotz KT, Gupta A, Yu M, Fagan SP, Irimia D, Tompkins RG
Clin Transl Sci. 2011;4(1):63-8 - PMID: 21348958 - PMCID: PMC3057059

Optimal codon choice can improve the efficiency and fidelity of N-methyl amino acid incorporation into peptides by in-vitro translation.

Subtelny AO, Hartman MC, Szostak JW
Angew Chem Int Ed Engl. 2011;50(14):3164-7 - PMID: 21381166 - PMCID: PMC4006073

Spatially Invariant Vector Quantization: A pattern matching algorithm for multiple classes of image subject matter including pathology.

Hipp JD, Cheng JY, Toner M, Tompkins RG, Balis UJ
J Pathol Inform. 2011;2:13 - PMID: 21383936 - PMCID: PMC3049270

Physical effects underlying the transition from primitive to modern cell membranes.

Budin I, Szostak JW
Proc Natl Acad Sci U S A. 2011;108(13):5249-54 - PMID: 21402937 - PMCID: PMC3069173

The path from bench to bedside: considerations before starting the journey.

Freeman MW, Dervan AP
J Investig Med. 2011;59(5):746-51 - PMID: 21441830 - PMCID: PMC4255460

Decreased parvalbumin immunoreactivity in the cortex and striatum of mice lacking the CB1 receptor.

Fitzgerald ML, Lupica CR, Pickel VM
Synapse. 2011;65(8):827-31 - PMID: 21445945 - PMCID: PMC3107909

Targeted mutagenesis of duplicated genes in soybean with zinc-finger nucleases.

Curtin SJ, Zhang F, Sander JD, Haun WJ, Starker C, Baltes NJ, Reyon D, Dahlborg EJ, Goodwin MJ, Coffman AP, Dobbs D, Joung JK, Voytas DF, Stupar RM
Plant Physiol. 2011;156(2):466-73 - PMID: 21464476 - PMCID: PMC3177250

Bacterial and host determinants of MAL activation upon EPEC infection: the roles of Tir, ABRA, and FLRT3.

Heath RJ, Leong JM, Visegrády B, Machesky LM, Xavier RJ
PLoS Pathog. 2011;7(4):e1001332 - PMID: 21490959 - PMCID: PMC3072376

The sensor kinase KinB regulates virulence in acute Pseudomonas aeruginosa infection.

Chand NS, Lee JS, Clatworthy AE, Golas AJ, Smith RS, Hung DT
J Bacteriol. 2011;193(12):2989-99 - PMID: 21515773 - PMCID: PMC3133189

Artificial lantipeptides from in vitro translations.

Seebeck FP, Ricardo A, Szostak JW
Chem Commun (Camb). 2011;47(21):6141-3 - PMID: 21528125

Effects of burn injury, cold stress and cutaneous wound injury on the morphology and energy metabolism of murine brown adipose tissue (BAT) in vivo.

Carter EA, Bonab AA, Hamrahi V, Pitman J, Winter D, Macintosh LJ, Cyr EM, Paul K, Yerxa J, Jung W, Tompkins RG, Fischman AJ
Life Sci. 2011;89(3-4):78-85 - PMID: 21565200 - PMCID: PMC4081480

The Arabidopsis flagellin receptor FLS2 mediates the perception of Xanthomonas Ax21 secreted peptides.

Danna CH, Millet YA, Koller T, Han SW, Bent AF, Ronald PC, Ausubel FM
Proc Natl Acad Sci U S A. 2011;108(22):9286-91 - PMID: 21576467 - PMCID: PMC3107323

Recurrent chromosomal copy number alterations in sporadic chordomas.

Le LP, Nielsen GP, Rosenberg AE, Thomas D, Batten JM, Deshpande V, Schwab J, Duan Z, Xavier RJ, Hornicek FJ, Iafrate AJ
PLoS One. 2011;6(5):e18846 - PMID: 21602918 - PMCID: PMC3094331

Leucine-rich repeat (LRR) proteins: integrators of pattern recognition and signaling in immunity.

Ng A, Xavier RJ
Autophagy. 2011;7(9):1082-4 - PMID: 21606681 - PMCID: PMC3901792

Zinc-finger nucleases for somatic gene therapy: the next frontier.

Rahman SH, Maeder ML, Joung JK, Cathomen T
Hum Gene Ther. 2011;22(8):925-33 - PMID: 21631241 - PMCID: PMC3159524

MyD88-dependent TLR1/2 signals educate dendritic cells with gut-specific imprinting properties.

Wang S, Villablanca EJ, De Calisto J, Gomes DC, Nguyen DD, Mizoguchi E, Kagan JC, Reinecker HC, Hacohen N, Nagler C, Xavier RJ, Rossi-Bergmann B, Chen YB, Blomhoff R, Snapper SB, Mora JR
J Immunol. 2011;187(1):141-50 - PMID: 21646294 - PMCID: PMC3119749

A Francisella tularensis locus required for spermine responsiveness is necessary for virulence.

Russo BC, Horzempa J, O'Dee DM, Schmitt DM, Brown MJ, Carlson PE, Xavier RJ, Nau GJ
Infect Immun. 2011;79(9):3665-76 - PMID: 21670171 - PMCID: PMC3165480

Genetics and pathogenesis of inflammatory bowel disease.

Khor B, Gardet A, Xavier RJ
Nature. 2011;474(7351):307-17 - PMID: 21677747 - PMCID: PMC3204665

Candida albicans infection of Caenorhabditis elegans induces antifungal immune defenses.

Pukkila-Worley R, Ausubel FM, Mylonakis E
PLoS Pathog. 2011;7(6):e1002074 - PMID: 21731485 - PMCID: PMC3121877

Preferential expression of integrin avb8 promotes generation of regulatory T cells by mouse CD103+ dendritic cells.

Païdassi H, Acharya M, Zhang A, Mukhopadhyay S, Kwon M, Chow C, Stuart LM, Savill J, Lacy-Hulbert A
Gastroenterology. 2011;141(5):1813-20 - PMID: 21745448 - PMCID: PMC3202651

HMG-CoA reductase inhibitors enhance phagocytosis by upregulating ATP-binding cassette transporter A7.

Tanaka N, Abe-Dohmae S, Iwamoto N, Fitzgerald ML, Yokoyama S
Atherosclerosis. 2011;217(2):407-14 - PMID: 21762915 - PMCID: PMC3150192

Considerations for preparedness for a pediatric burn disaster.

Ryan CM, Antoon A, Fagan SP, Goverman J, Lawlor D, Sheridan RL, Tompkins RG
J Burn Care Res. 2011;32(5):e165-6 - PMID: 21772149

Computer aided diagnostic tools aim to empower rather than replace pathologists: Lessons learned from computational chess.

Hipp J, Flotte T, Monaco J, Cheng J, Madabhushi A, Yagi Y, Rodriguez-Canales J, Emmert-Buck M, Dugan MC, Hewitt S, Toner M, Tompkins RG, Lucas D, Gilbertson JR, Balis UJ
J Pathol Inform. 2011;2:25 - PMID: 21773056 - PMCID: PMC3132993

Recruitment of prefrontal cortical endocannabinoid signaling by glucocorticoids contributes to termination of the stress response.

Hill MN, McLaughlin RJ, Pan B, Fitzgerald ML, Roberts CJ, Lee TT, Karatsoreos IN, Mackie K, Viau V, Pickel VM, McEwen BS, Liu QS, Gorzalka BB, Hillard CJ
J Neurosci. 2011;31(29):10506-15 - PMID: 21775596 - PMCID: PMC3179266

GRP78(BiP) facilitates the cytosolic delivery of anthrax lethal factor (LF) in vivo and functions as an unfoldase in vitro.

Tamayo AG, Slater L, Taylor-Parker J, Bharti A, Harrison R, Hung DT, Murphy JR
Mol Microbiol. 2011;81(5):1390-401 - PMID: 21797942 - PMCID: PMC4041151

Evaluation of the antioxidant peptide SS31 for treatment of burn-induced insulin resistance.

Carter EA, Bonab AA, Goverman J, Paul K, Yerxa J, Tompkins RG, Fischman AJ
Int J Mol Med. 2011;28(4):589-94 - PMID: 21805045 - PMCID: PMC4090514

Patterns of medication administration from 2001 to 2009 in the treatment of children with acute burn injuries: a multicenter study.

Stoddard FJ, White GW, Kazis LE, Murphy JM, Sorrentino EA, Hinson M, Kim Stubbs T, Chan G, Sheridan RL, Palmieri T, Kagan R, Herndon D, Tompkins RG
J Burn Care Res. 2011;32(5):519-28 - PMID: 21811176

Induction of stable drug resistance in human breast cancer cells using a combinatorial zinc finger transcription factor library.

Lee J, Hirsh AS, Wittner BS, Maeder ML, Singavarapu R, Lang M, Janarthanan S, McDermott U, Yajnik V, Ramaswamy S, Joung JK, Sgroi DC
PLoS One. 2011;6(7):e21112 - PMID: 21818254 - PMCID: PMC3139592

Targeted gene disruption in somatic zebrafish cells using engineered TALENs.

Sander JD, Cade L, Khayter C, Reyon D, Peterson RT, Joung JK, Yeh JR
Nat Biotechnol. 2011;29(8):697-8 - PMID: 21822241 - PMCID: PMC3154023

Revealing off-target cleavage specificities of zinc-finger nucleases by in vitro selection.

Pattanayak V, Ramirez CL, Joung JK, Liu DR
Nat Methods. 2011;8(9):765-70 - PMID: 21822273 - PMCID: PMC3164905

Evolution of functional nucleic acids in the presence of nonheritable backbone heterogeneity.

Trevino SG, Zhang N, Elenko MP, Lupták A, Szostak JW
Proc Natl Acad Sci U S A. 2011;108(33):13492-7 - PMID: 21825162 - PMCID: PMC3158193

Use of an optical trap for study of host-pathogen interactions for dynamic live cell imaging.

Tam JM, Castro CE, Heath RJ, Mansour MK, Cardenas ML, Xavier RJ, Lang MJ, Vyas JM
J Vis Exp. 2011;(53):ePub - PMID: 21841755 - PMCID: PMC3197446

Acetylcholine ?7 nicotinic and dopamine D(2) receptors are targeted to many of the same postsynaptic dendrites and astrocytes in the rodent prefrontal cortex.

Duffy AM, Fitzgerald ML, Chan J, Robinson DC, Milner TA, Mackie K, Pickel VM
Synapse. 2011;65(12):1350-67 - PMID: 21858872 - PMCID: PMC3356922

Wild type and Tangier disease ABCA1 mutants modulate cellular amyloid-? production independent of cholesterol efflux activity.

Kim WS, Hill AF, Fitzgerald ML, Freeman MW, Evin G, Garner B
J Alzheimers Dis. 2011;27(2):441-52 - PMID: 21860089

Farnesyltransferase inhibitor FTI-277 reduces mortality of septic mice along with improved bacterial clearance.

Yang W, Yamada M, Tamura Y, Chang K, Mao J, Zou L, Feng Y, Kida K, Scherrer-Crosbie M, Chao W, Ichinose F, Yu YM, Fischman AJ, Tompkins RG, Yao S, Kaneki M
J Pharmacol Exp Ther. 2011;339(3):832-41 - PMID: 21873557 - PMCID: PMC3226365

In situ genetic correction of the sickle cell anemia mutation in human induced pluripotent stem cells using engineered zinc finger nucleases.

Sebastiano V, Maeder ML, Angstman JF, Haddad B, Khayter C, Yeo DT, Goodwin MJ, Hawkins JS, Ramirez CL, Batista LF, Artandi SE, Wernig M, Joung JK
Stem Cells. 2011;29(11):1717-26 - PMID: 21898685 - PMCID: PMC3285772

Association of heat production with 18F-FDG accumulation in murine brown adipose tissue after stress.

Carter EA, Bonab AA, Paul K, Yerxa J, Tompkins RG, Fischman AJ
J Nucl Med. 2011;52(10):1616-20 - PMID: 21914754 - PMCID: PMC4082963

Phosphoprotein associated with glycosphingolipid-enriched microdomains differentially modulates SRC kinase activity in brain maturation.

Lindquist S, Karitkina D, Langnaese K, Posevitz-Fejfar A, Schraven B, Xavier R, Seed B, Lindquist JA
PLoS One. 2011;6(9):e23978 - PMID: 21915273 - PMCID: PMC3167820

Engineering zinc finger nucleases for targeted mutagenesis of zebrafish.

Sander JD, Yeh JR, Peterson RT, Joung JK
Methods Cell Biol. 2011;104:51-8 - PMID: 21924156

An optimal degree of physical and chemical heterogeneity for the origin of life?

Szostak JW
Philos Trans R Soc Lond B Biol Sci. 2011;366(1580):2894-901 - PMID: 21930580 - PMCID: PMC3158921

Microfluidics-based capture of human neutrophils for expression analysis in blood and bronchoalveolar lavage.

Warner EA, Kotz KT, Ungaro RF, Abouhamze AS, Lopez MC, Cuenca AG, Kelly-Scumpia KM, Moreno C, O'Malley KA, Lanz JD, Baker HV, Martin LC, Toner M, Tompkins RG, Efron PA, Moldawer LL
Lab Invest. 2011;91(12):1787-95 - PMID: 21931299 - PMCID: PMC3957199

Dissecting inflammatory complications in critically injured patients by within-patient gene expression changes: a longitudinal clinical genomics study.

Desai KH, Tan CS, Leek JT, Maier RV, Tompkins RG, Storey JD,
PLoS Med. 2011;8(9):e1001093 - PMID: 21931541 - PMCID: PMC3172280

Novel mitochondria-targeted antioxidant peptide ameliorates burn-induced apoptosis and endoplasmic reticulum stress in the skeletal muscle of mice.

Lee HY, Kaneki M, Andreas J, Tompkins RG, Martyn JA
Shock. 2011;36(6):580-5 - PMID: 21937949 - PMCID: PMC3230221

HCV causes chronic endoplasmic reticulum stress leading to adaptation and interference with the unfolded protein response.

Merquiol E, Uzi D, Mueller T, Goldenberg D, Nahmias Y, Xavier RJ, Tirosh B, Shibolet O
PLoS One. 2011;6(9):e24660 - PMID: 21949742 - PMCID: PMC3176279

The two-component sensor kinase KinB acts as a non-canonical switch between acute and chronic infection.

Chand NS, Hung DT
Virulence. 2011;2(6):553-8 - PMID: 21971182

The Caenorhabditis elegans SOMI-1 zinc finger protein and SWI/SNF promote regulation of development by the mir-84 microRNA.

Hayes GD, Riedel CG, Ruvkun G
Genes Dev. 2011;25(19):2079-92 - PMID: 21979920 - PMCID: PMC3197206

Deep resequencing of GWAS loci identifies independent rare variants associated with inflammatory bowel disease.

Rivas MA, Beaudoin M, Gardet A, Stevens C, Sharma Y, Zhang CK, Boucher G, Ripke S, Ellinghaus D, Burtt N, Fennell T, Kirby A, Latiano A, Goyette P, Green T, Halfvarson J, Haritunians T, Korn JM, Kuruvilla F, Lagacé C, Neale B, Lo KS, Schumm P, Törkvist L, , , , Dubinsky MC, Brant SR, Silverberg MS, Duerr RH, Altshuler D, Gabriel S, Lettre G, Franke A, D'Amato M, McGovern DP, Cho JH, Rioux JD, Xavier RJ, Daly MJ
Nat Genet. 2011;43(11):1066-73 - PMID: 21983784 - PMCID: PMC3378381

Engineering designer nucleases with customized cleavage specificities.

Sander JD, Maeder ML, Joung JK
Curr Protoc Mol Biol. 2011;Chapter 12:Unit12.13 - PMID: 21987054 - PMCID: PMC3379964

automated DNA sequencing technology.

Slatko BE, Kieleczawa J, Ju J, Gardner AF, Hendrickson CL, Ausubel FM
Curr Protoc Mol Biol. 2011;Chapter 7:Unit7.2 - PMID: 21987057

Pseudomonas aeruginosa RhlR is required to neutralize the cellular immune response in a Drosophila melanogaster oral infection model.

Limmer S, Haller S, Drenkard E, Lee J, Yu S, Kocks C, Ausubel FM, Ferrandon D
Proc Natl Acad Sci U S A. 2011;108(42):17378-83 - PMID: 21987808 - PMCID: PMC3198323

Regulation of the C. elegans molt by pqn-47.

Russel S, Frand AR, Ruvkun G
Dev Biol. 2011;360(2):297-309 - PMID: 21989027 - PMCID: PMC3618673

Genome-wide expression profiling implicates a MAST3-regulated gene set in colonic mucosal inflammation of ulcerative colitis patients.

Labbé C, Boucher G, Foisy S, Alikashani A, Nkwimi H, David G, Beaudoin M, Goyette P, Charron G, Xavier RJ, Rioux JD
Inflamm Bowel Dis. 2011;18(6):1072-80 - PMID: 21994190 - PMCID: PMC3269563

Pathogen-derived effectors trigger protective immunity via activation of the Rac2 enzyme and the IMD or Rip kinase signaling pathway.

Boyer L, Magoc L, Dejardin S, Cappillino M, Paquette N, Hinault C, Charriere GM, Ip WK, Fracchia S, Hennessy E, Erturk-Hasdemir D, Reichhart JM, Silverman N, Lacy-Hulbert A, Stuart LM
Immunity. 2011;35(4):536-49 - PMID: 22018470 - PMCID: PMC3258503

Image-based genome-wide siRNA screen identifies selective autophagy factors.

Orvedahl A, Sumpter R, Xiao G, Ng A, Zou Z, Tang Y, Narimatsu M, Gilpin C, Sun Q, Roth M, Forst CV, Wrana JL, Zhang YE, Luby-Phelps K, Xavier RJ, Xie Y, Levine B
Nature. 2011;480(7375):113-7 - PMID: 22020285 - PMCID: PMC3229641

UV-C-irradiated Arabidopsis and tobacco emit volatiles that trigger genomic instability in neighboring plants.

Yao Y, Danna CH, Zemp FJ, Titov V, Ciftci ON, Przybylski R, Ausubel FM, Kovalchuk I
Plant Cell. 2011;23(10):3842-52 - PMID: 22028460 - PMCID: PMC3229153

Down-regulation of glutatione S-transferase ? 4 (hGSTA4) in the muscle of thermally injured patients is indicative of susceptibility to bacterial infection.

Apidianakis Y, Que YA, Xu W, Tegos GP, Zimniak P, Hamblin MR, Tompkins RG, Xiao W, Rahme LG
FASEB J. 2011;26(2):730-7 - PMID: 22038048 - PMCID: PMC3290433

CARMA1 is necessary for optimal T cell responses in a murine model of allergic asthma.

Ramadas RA, Roche MI, Moon JJ, Ludwig T, Xavier RJ, Medoff BD
J Immunol. 2011;187(12):6197-207 - PMID: 22075698 - PMCID: PMC3237896

PrimerBank: a PCR primer database for quantitative gene expression analysis, 2012 update.

Wang X, Spandidos A, Wang H, Seed B
Nucleic Acids Res. 2011;40(Database issue):D1144-9 - PMID: 22086960 - PMCID: PMC3245149

Local injection of bevacizumab (Avastin) and angiolytic KTP laser treatment of recurrent respiratory papillomatosis of the vocal folds: a prospective study.

Zeitels SM, Barbu AM, Landau-Zemer T, Lopez-Guerra G, Burns JA, Friedman AD, Freeman MW, Halvorsen YD, Hillman RE
Ann Otol Rhinol Laryngol. 2011;120(10):627-34 - PMID: 22097147

The ERI-6/7 helicase acts at the first stage of an siRNA amplification pathway that targets recent gene duplications.

Fischer SE, Montgomery TA, Zhang C, Fahlgren N, Breen PC, Hwang A, Sullivan CM, Carrington JC, Ruvkun G
PLoS Genet. 2011;7(11):e1002369 - PMID: 22102828 - PMCID: PMC3213143

A genomic storm in critically injured humans.

Xiao W, Mindrinos MN, Seok J, Cuschieri J, Cuenca AG, Gao H, Hayden DL, Hennessy L, Moore EE, Minei JP, Bankey PE, Johnson JL, Sperry J, Nathens AB, Billiar TR, West MA, Brownstein BH, Mason PH, Baker HV, Finnerty CC, Jeschke MG, López MC, Klein MB, Gamelli RL, Gibran NS, Arnoldo B, Xu W, Zhang Y, Calvano SE, McDonald-Smith GP, Schoenfeld DA, Storey JD, Cobb JP, Warren HS, Moldawer LL, Herndon DN, Lowry SF, Maier RV, Davis RW, Tompkins RG,
J Exp Med. 2011;208(13):2581-90 - PMID: 22110166 - PMCID: PMC3244029

The Creating an Optimal Warfarin Nomogram (CROWN) Study.

Perlstein TS, Goldhaber SZ, Nelson K, Joshi V, Morgan TV, Lesko LJ, Lee JY, Gobburu J, Schoenfeld D, Kucherlapati R, Freeman MW, Creager MA
Thromb Haemost. 2011;107(1):59-68 - PMID: 22116191 - PMCID: PMC4133142

The C. elegans DAF-2 Insulin-Like Receptor is Abundantly Expressed in the Nervous System and Regulated by Nutritional Status.

Kimura KD, Riddle DL, Ruvkun G
Cold Spring Harb Symp Quant Biol. 2011;76:113-20 - PMID: 22123849

Bacterial effectors: learning on the fly.

Boyer L, Paquette N, Silverman N, Stuart LM
Adv Exp Med Biol. 2011;710:29-36 - PMID: 22127883 - PMCID: PMC3427734

Resuscitation-promoting factors are required for ?-lactam tolerance and the permeability barrier in Mycobacterium tuberculosis.

Wivagg CN, Hung DT
Antimicrob Agents Chemother. 2011;56(3):1591-4 - PMID: 22155826 - PMCID: PMC3294900

SILAM for quantitative proteomics of liver Akt1/PKB? after burn injury.

Lu XM, Tompkins RG, Fischman AJ
Int J Mol Med. 2011;29(3):461-71 - PMID: 22179310 - PMCID: PMC3981641

STAT6 phosphorylation inhibitors block eotaxin-3 secretion in bronchial epithelial cells.

Zhou L, Kawate T, Liu X, Kim YB, Zhao Y, Feng G, Banerji J, Nash H, Whitehurst C, Jindal S, Siddiqui A, Seed B, Wolfe JL
Bioorg Med Chem. 2011;20(2):750-8 - PMID: 22217933