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Lee AF, Ryan CM, Schneider JC, Kazis LE, Li NC, Rose M, Liang MH, Wang C, Palmieri T, Meyer WJ, Pidcock FS, Reilly D, Sheridan RL, Tompkins RG,

Quantifying Risk Factors for Long-Term Sleep Problems After Burn Injury in Young Adults.
J Burn Care Res. 2015;38(2):e510-e520 - PMID: 27003738 - PMCID: PMC9968418 - DOI: 10.1097/BCR.0000000000000315

Joung JK, Voytas DF, Kamens J

Accelerating research through reagent repositories: the genome editing example.
Genome Biol. 2015;16(1):255 - PMID: 26585970 - PMCID: PMC4653914 - DOI: 10.1186/s13059-015-0830-y

Lelyveld VS, Bjorkbom A, Ransey E, Sliz P, Szostak JW

Pinpointing RNA-protein crosslinks with site-specific stable isotope labeled oligonucleotides.
J Am Chem Soc. 2015;137(49):15378-15381 - PMID: 26583201 - PMCID: PMC4697197 - DOI: 10.1021/jacs.5b10596

Kleinstiver BP, Prew MS, Tsai SQ, Nguyen NT, Topkar VV, Zheng Z, Joung JK

Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition.
Nat Biotechnol. 2015;33(12):1293-1298 - PMID: 26524662 - PMCID: PMC4689141 - DOI: 10.1038/nbt.3404

Tamehiro N, Park MH, Hawxhurst V, Nagpal K, Adams ME, Zannis VI, Golenbock DT, Fitzgerald ML

LXR agonism up-regulates the macrophage ABCA1/syntrophin protein complex which can bind apoA-I and stabilized ABCA1 protein, but complex loss does not inhibit lipid efflux.
Biochemistry. 2015;54(46):6931-41 - PMID: 26506427 - PMCID: PMC4874254 - DOI: 10.1021/acs.biochem.5b00894

Bjorkbom A, Lelyveld VS, Zhang S, Zhang W, Tam CP, Blain JC, Szostak JW

Bidirectional direct sequencing of non-canonical RNA by two-dimensional analysis of mass chromatograms.
J Am Chem Soc. 2015;137(45):14430-8 - PMID: 26495937 - PMCID: PMC7547889 - DOI: 10.1021/jacs.5b09438

Orr SK, Butler KL, Hayden D, Tompkins RG, Serhan CN, Irimia D

Gene Expression of Proresolving Lipid Mediator Pathways Is Associated With Clinical Outcomes in Trauma Patients.
Crit Care Med. 2015;43(12):2642-2650 - PMID: 26488221 - PMCID: PMC4651815 - DOI: 10.1097/CCM.0000000000001312

Xiong Y, Sheen J

Novel links in the plant TOR kinase signaling network.
Curr Opin Plant Biol. 2015;28:83-91 - PMID: 26476687 - PMCID: PMC4612364 - DOI: 10.1016/j.pbi.2015.09.006

Cao Z, Conway KL, Heath RJ, Rush JS, Leshchiner ES, Ramirez-Ortiz ZG, Nedelsky NB, Huang H, Ng A, Gardet A, Cheng SC, Shamji AF, Rioux JD, Wijmenga C, Netea MG, Means TK, Daly MJ, Xavier RJ

Ubiquitin Ligase TRIM62 Regulates CARD9-Mediated Anti-fungal Immunity and Intestinal Inflammation.
Immunity. 2015;43(4):715-26 - PMID: 26488816 - PMCID: PMC4672733 - DOI: 10.1016/j.immuni.2015.10.005

Cao Z, Conway KL, Heath RJ, Rush JS, Leshchiner ES, Ramirez-Ortiz ZG, Nedelsky NB, Huang H, Ng A, Gardet A, Cheng SC, Shamji AF, Rioux JD, Wijmenga C, Netea MG, Means TK, Daly MJ, Xavier RJ

Ubiquitin Ligase TRIM62 Regulates CARD9-Mediated Anti-fungal Immunity and Intestinal Inflammation.
Immunity. 2015;43(4):715-726 - PMID: 26488816 - PMCID: PMC4672733 - DOI: 10.1016/j.immuni.2015.10.005

Wyvekens N, Tsai SQ, Joung JK

Genome Editing in Human Cells Using CRISPR/Cas Nucleases.
Curr Protoc Mol Biol. 2015;112:31.3.1-31.3.18 - PMID: 26423589 - PMCID: PMC4852847 - DOI: 10.1002/0471142727.mb3103s112

Rajamuthiah R, Jayamani E, Majed H, Conery AL, Kim W, Kwon B, Fuchs BB, Kelso MJ, Ausubel FM, Mylonakis E

Antibacterial properties of 3-(phenylsulfonyl)-2-pyrazinecarbonitrile.
Bioorg Med Chem Lett. 2015;25(22):5203-7 - PMID: 26459212 - PMCID: PMC4718707 - DOI: 10.1016/j.bmcl.2015.09.066

Spisák S, Lawrenson K, Fu Y, Csabai I, Cottman RT, Seo JH, Haiman C, Han Y, Lenci R, Li Q, Tisza V, Szállási Z, Herbert ZT, Chabot M, Pomerantz M, Solymosi N, , Gayther SA, Joung JK, Freedman ML

CAUSEL: an epigenome- and genome-editing pipeline for establishing function of noncoding GWAS variants.
Nat Med. 2015;21(11):1357-1363 - PMID: 26398868 - PMCID: PMC4746056 - DOI: 10.1038/nm.3975

Govindan JA, Jayamani E, Zhang X, Mylonakis E, Ruvkun G

Dialogue between E. coli free radical pathways and the mitochondria of C. elegans.
Proc Natl Acad Sci U S A. 2015;112(40):12456-61 - PMID: 26392561 - PMCID: PMC4603447 - DOI: 10.1073/pnas.1517448112

Bushinsky DA, Williams GH, Pitt B, Weir MR, Freeman MW, Garza D, Stasiv Y, Li E, Berman L, Bakris GL

Patiromer induces rapid and sustained potassium lowering in patients with chronic kidney disease and hyperkalemia.
Kidney Int. 2015;88(6):1427-1433 - PMID: 26376130 - PMCID: PMC4678168 - DOI: 10.1038/ki.2015.270

Fu J, Bonder MJ, Cenit MC, Tigchelaar E, Maatman A, Dekens JA, Brandsma E, Marczynska J, Imhann F, Weersma RK, Franke L, Poon TW, Xavier RJ, Gevers D, Hofker MH, Wijmenga C, Zhernakova A

The Gut Microbiome Contributes to a Substantial Proportion of the Variation in Blood Lipids.
Circ Res. 2015;117(9):817-24 - PMID: 26358192 - PMCID: PMC4596485 - DOI: 10.1161/CIRCRESAHA.115.306807

Selleck EM, Orchard RC, Lassen KG, Beatty WL, Xavier RJ, Levine B, Virgin HW, Sibley LD

A Noncanonical Autophagy Pathway Restricts Toxoplasma gondii Growth in a Strain-Specific Manner in IFN-?-Activated Human Cells.
MBio. 2015;6(5):e01157-15 - PMID: 26350966 - PMCID: PMC4600106 - DOI: 10.1128/mBio.01157-15

Selleck EM, Orchard RC, Lassen KG, Beatty WL, Xavier RJ, Levine B, Virgin HW, Sibley LD

A Noncanonical Autophagy Pathway Restricts Toxoplasma gondii Growth in a Strain-Specific Manner in IFN-?-Activated Human Cells.
MBio. 2015;6(5):e01157-15 - PMID: 26350966 - PMCID: PMC4600106 - DOI: 10.1128/mBio.01157-15

Luo C, Knight R, Siljander H, Knip M, Xavier RJ, Gevers D

ConStrains identifies microbial strains in metagenomic datasets.
Nat Biotechnol. 2015;33(10):1045-1052 - PMID: 26344404 - PMCID: PMC4676274 - DOI: 10.1038/nbt.3319

Avraham R, Haseley N, Brown D, Penaranda C, Jijon HB, Trombetta JJ, Satija R, Shalek AK, Xavier RJ, Regev A, Hung DT

Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses.
Cell. 2015;162(6):1309-21 - PMID: 26343579 - PMCID: PMC4578813 - DOI: 10.1016/j.cell.2015.08.027

Avraham R, Haseley N, Brown D, Penaranda C, Jijon HB, Trombetta JJ, Satija R, Shalek AK, Xavier RJ, Regev A, Hung DT

Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses.
Cell. 2015;162(6):1309-21 - PMID: 26343579 - PMCID: PMC4578813 - DOI: 10.1016/j.cell.2015.08.027

Govindan JA, Jayamani E, Zhang X, Breen P, Larkins-Ford J, Mylonakis E, Ruvkun G

Lipid signalling couples translational surveillance to systemic detoxification in Caenorhabditis elegans.
Nat Cell Biol. 2015;17(10):1294-303 - PMID: 26322678 - PMCID: PMC4589496 - DOI: 10.1038/ncb3229

Siegel MO, Borkowska AG, Dubrovsky L, Roth M, Welti R, Roberts AD, Parenti DM, Simon GL, Sviridov D, Simmens S, Bukrinsky M, Fitzgerald ML

HIV infection induces structural and functional changes in high density lipoproteins.
Atherosclerosis. 2015;243(1):19-29 - PMID: 26343868 - PMCID: PMC4609619 - DOI: 10.1016/j.atherosclerosis.2015.08.036

Cervone F, Ausubel FM, Lorenzo G

Enhancing immunity by engineering DAMPs.
Oncotarget. 2015;6(30):28523-4 - PMID: 26387132 - PMCID: PMC4745668 - DOI: 10.18632/oncotarget.5251

Ryan CM, Lee AF, Kazis LE, Shapiro GD, Schneider JC, Goverman J, Fagan SP, Wang C, Kim J, Sheridan RL, Tompkins RG

Is Real-Time Feedback of Burn-Specific Patient-Reported Outcome Measures in Clinical Settings Practical and Useful? A Pilot Study Implementing the Young Adult Burn Outcome Questionnaire.
J Burn Care Res. 2015;37(1):64-74 - PMID: 26284638 - DOI: 10.1097/BCR.0000000000000287

Phillips CM, Brown KC, Montgomery BE, Ruvkun G, Montgomery TA

piRNAs and piRNA-Dependent siRNAs Protect Conserved and Essential C. elegans Genes from Misrouting into the RNAi Pathway.
Dev Cell. 2015;34(4):457-465 - PMID: 26279487 - PMCID: PMC4550515 - DOI: 10.1016/j.devcel.2015.07.009

Hubbard BP, Badran AH, Zuris JA, Guilinger JP, Davis KM, Chen L, Tsai SQ, Sander JD, Joung JK, Liu DR

Continuous directed evolution of DNA-binding proteins to improve TALEN specificity.
Nat Methods. 2015;12(10):939-942 - PMID: 26258293 - PMCID: PMC4589463 - DOI: 10.1038/nmeth.3515

Larsen AT, Fahrenbach AC, Sheng J, Pian J, Szostak JW

Thermodynamic insights into 2-thiouridine-enhanced RNA hybridization.
Nucleic Acids Res. 2015;43(16):7675-87 - PMID: 26240387 - PMCID: PMC4652770 - DOI: 10.1093/nar/gkv761

Haney CH, Ausubel FM

MICROBIOME. Plant microbiome blueprints.
Science. 2015;349(6250):788-9 - PMID: 26293938 - DOI: 10.1126/science.aad0092

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP, Xavier RJ

Common Genetic Variants Influence Circulating Vitamin D Levels in Inflammatory Bowel Diseases.
Inflamm Bowel Dis. 2015;21(11):2507-2514 - PMID: 26241000 - PMCID: PMC4615315 - DOI: 10.1097/MIB.0000000000000524

Korem T, Zeevi D, Suez J, Weinberger A, Avnit-Sagi T, Pompan-Lotan M, Matot E, Jona G, Harmelin A, Cohen N, Sirota-Madi A, Thaiss CA, Pevsner-Fischer M, Sorek R, Xavier R, Elinav E, Segal E

Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples.
Science. 2015;349(6252):1101-6 - PMID: 26229116 - PMCID: PMC5087275 - DOI: 10.1126/science.aac4812

Kamat NP, Tobé S, Hill IT, Szostak JW

Electrostatic Localization of RNA to Protocell Membranes by Cationic Hydrophobic Peptides.
Angew Chem Int Ed Engl. 2015;54(40):11735-11739 - PMID: 26223820 - PMCID: PMC4600236 - DOI: 10.1002/anie.201505742

Graham DB, Becker CE, Doan A, Goel G, Villablanca EJ, Knights D, Mok A, Ng AC, Doench JG, Root DE, Clish CB, Xavier RJ

Functional genomics identifies negative regulatory nodes controlling phagocyte oxidative burst.
Nat Commun. 2015;6:7838 - PMID: 26194095 - PMCID: PMC4518307 - DOI: 10.1038/ncomms8838

Kuo SY, Castoreno AB, Aldrich LN, Lassen KG, Goel G, Dan?ík V, Kuballa P, Latorre I, Conway KL, Sarkar S, Maetzel D, Jaenisch R, Clemons PA, Schreiber SL, Shamji AF, Xavier RJ

Small-molecule enhancers of autophagy modulate cellular disease phenotypes suggested by human genetics.
Proc Natl Acad Sci U S A. 2015;112(31):E4281-7 - PMID: 26195741 - PMCID: PMC4534235 - DOI: 10.1073/pnas.1512289112

Pringle PL, Stewart KO, Peloquin JM, Sturgeon HC, Nguyen D, Sauk J, Garber JJ, Yajnik V, Ananthakrishnan AN, Chan AT, Xavier RJ, Khalili H

Body Mass Index, Genetic Susceptibility, and Risk of Complications Among Individuals with Crohn's Disease.
Inflamm Bowel Dis. 2015;21(10):2304-2310 - PMID: 26181430 - PMCID: PMC4567407 - DOI: 10.1097/MIB.0000000000000498

Baxt LA, Xavier RJ

Role of Autophagy in the Maintenance of Intestinal Homeostasis.
Gastroenterology. 2015;149(3):553-62 - PMID: 26170139 - PMCID: PMC4550567 - DOI: 10.1053/j.gastro.2015.06.046

Bakris GL, Pitt B, Weir MR, Freeman MW, Mayo MR, Garza D, Stasiv Y, Zawadzki R, Berman L, Bushinsky DA,

Effect of Patiromer on Serum Potassium Level in Patients With Hyperkalemia and Diabetic Kidney Disease: The AMETHYST-DN Randomized Clinical Trial.
JAMA. 2015;314(2):151-61 - PMID: 26172895 - DOI: 10.1001/jama.2015.7446

Joung JK

Unwanted mutations: Standards needed for gene-editing errors.
Nature. 2015;523(7559):158 - PMID: 26156364 - DOI: 10.1038/523158a

Ramezani A, Dubrovsky L, Pushkarsky T, Sviridov D, Karandish S, Raj DS, Fitzgerald ML, Bukrinsky M

Stimulation of Liver X Receptor Has Potent Anti-HIV Effects in a Humanized Mouse Model.
J Pharmacol Exp Ther. 2015;354(3):376-83 - PMID: 26126533 - PMCID: PMC4538872 - DOI: 10.1124/jpet.115.224485

Kleinstiver BP, Prew MS, Tsai SQ, Topkar VV, Nguyen NT, Zheng Z, Gonzales AP, Li Z, Peterson RT, Yeh JJ, Aryee MJ, Joung JK

Engineered CRISPR-Cas9 nucleases with altered PAM specificities.
Nature. 2015;523(7561):481-5 - PMID: 26098369 - PMCID: PMC4540238 - DOI: 10.1038/nature14592

Begun J, Lassen KG, Jijon HB, Baxt LA, Goel G, Heath RJ, Ng A, Tam JM, Kuo SY, Villablanca EJ, Fagbami L, Oosting M, Kumar V, Schenone M, Carr SA, Joosten LA, Vyas JM, Daly MJ, Netea MG, Brown GD, Wijmenga C, Xavier RJ

Integrated Genomics of Crohn's Disease Risk Variant Identifies a Role for CLEC12A in Antibacterial Autophagy.
Cell Rep. 2015;11(12):1905-1918 - PMID: 26095365 - PMCID: PMC4507440 - DOI: 10.1016/j.celrep.2015.05.045

Wyvekens N, Topkar VV, Khayter C, Joung JK, Tsai SQ

Dimeric CRISPR RNA-guided FokI-dCas9 nucleases (RFNs) directed by truncated gRNAs for highly specific genome editing.
Hum Gene Ther. 2015;26(7):425-431 - PMID: 26068112 - PMCID: PMC4509490 - DOI: 10.1089/hum.2015.084

Rajamuthiah R, Jayamani E, Conery AL, Fuchs BB, Kim W, Johnston T, Vilcinskas A, Ausubel FM, Mylonakis E

A Defensin from the Model Beetle Tribolium castaneum Acts Synergistically with Telavancin and Daptomycin against Multidrug Resistant Staphylococcus aureus.
PLoS One. 2015;10(6):e0128576 - PMID: 26062137 - PMCID: PMC4465704 - DOI: 10.1371/journal.pone.0128576

Kim W, Conery AL, Rajamuthiah R, Fuchs BB, Ausubel FM, Mylonakis E

Identification of an Antimicrobial Agent Effective against Methicillin-Resistant Staphylococcus aureus Persisters Using a Fluorescence-Based Screening Strategy.
PLoS One. 2015;10(6):e0127640 - PMID: 26039584 - PMCID: PMC4454602 - DOI: 10.1371/journal.pone.0127640

Causton B, Ramadas RA, Cho JL, Jones K, Pardo-Saganta A, Rajagopal J, Xavier RJ, Medoff BD

CARMA3 Is Critical for the Initiation of Allergic Airway Inflammation.
J Immunol. 2015;195(2):683-94 - PMID: 26041536 - PMCID: PMC4489191 - DOI: 10.4049/jimmunol.1402983

Adamala K, Engelhart AE, Kamat NP, Jin L, Szostak JW

Construction of a liposome dialyzer for the preparation of high-value, small-volume liposome formulations.
Nat Protoc. 2015;10(6):927-938 - PMID: 26020615 - PMCID: PMC4982460 - DOI: 10.1038/nprot.2015.054

Rahman SH, Kuehle J, Reimann C, Mlambo T, Alzubi J, Maeder ML, Riedel H, Fisch P, Cantz T, Rudolph C, Mussolino C, Joung JK, Schambach A, Cathomen T

Rescue of DNA-PK Signaling and T-Cell Differentiation by Targeted Genome Editing in a prkdc Deficient iPSC Disease Model.
PLoS Genet. 2015;11(5):e1005239 - PMID: 26000857 - PMCID: PMC4441453 - DOI: 10.1371/journal.pgen.1005239

Khor B, Gagnon JD, Goel G, Roche MI, Conway KL, Tran K, Aldrich LN, Sundberg TB, Paterson AM, Mordecai S, Dombkowski D, Schirmer M, Tan PH, Bhan AK, Roychoudhuri R, Restifo NP, O'Shea JJ, Medoff BD, Shamji AF, Schreiber SL, Sharpe AH, Shaw SY, Xavier RJ

The kinase DYRK1A reciprocally regulates the differentiation of Th17 and regulatory T cells.
Elife. 2015;4:ePub - PMID: 25998054 - PMCID: PMC4441007 - DOI: 10.7554/eLife.05920

Hwang WY, Fu Y, Reyon D, Gonzales AP, Joung JK, Yeh JR

Targeted Mutagenesis in Zebrafish Using CRISPR RNA-Guided Nucleases.
Methods Mol Biol. 2015;1311:317-34 - PMID: 25981483 - DOI: 10.1007/978-1-4939-2687-9_21

Smith MB, Rocha AM, Smillie CS, Olesen SW, Paradis C, Wu L, Campbell JH, Fortney JL, Mehlhorn TL, Lowe KA, Earles JE, Phillips J, Techtmann SM, Joyner DC, Elias DA, Bailey KL, Hurt RA, Preheim SP, Sanders MC, Yang J, Mueller MA, Brooks S, Watson DB, Zhang P, He Z, Dubinsky EA, Adams PD, Arkin AP, Fields MW, Zhou J, Alm EJ, Hazen TC

Natural bacterial communities serve as quantitative geochemical biosensors.
MBio. 2015;6(3):e00326-15 - PMID: 25968645 - PMCID: PMC4436078 - DOI: 10.1128/mBio.00326-15

Haney CH, Samuel BS, Bush J, Ausubel FM

Associations with rhizosphere bacteria can confer an adaptive advantage to plants.
Nat Plants. 2015;1(6):ePub - PMID: 27019743 - PMCID: PMC4806546 - DOI: 10.1038/nplants.2015.51

Haney CH, Samuel BS, Bush J, Ausubel FM

Associations with rhizosphere bacteria can confer an adaptive advantage to plants.
Nat Plants. 2015;1:15051 - PMID: 27250003

Sadreyev IR, Ji F, Cohen E, Ruvkun G, Tabach Y

PhyloGene server for identification and visualization of co-evolving proteins using normalized phylogenetic profiles.
Nucleic Acids Res. 2015;43(W1):W154-W159 - PMID: 25958392 - PMCID: PMC4489270 - DOI: 10.1093/nar/gkv452

Wlodarska M, Kostic AD, Xavier RJ

An Integrative View of Microbiome-Host Interactions in Inflammatory Bowel Diseases.
Cell Host Microbe. 2015;17(5):577-591 - PMID: 25974300 - PMCID: PMC4498258 - DOI: 10.1016/j.chom.2015.04.008

Black JC, Atabakhsh E, Kim J, Biette KM, Van Rechem C, Ladd B, Burrowes PD, Donado C, Mattoo H, Kleinstiver BP, Song B, Andriani G, Joung JK, Iliopoulos O, Montagna C, Pillai S, Getz G, Whetstine JR

Hypoxia drives transient site-specific copy gain and drug-resistant gene expression.
Genes Dev. 2015;29(10):1018-31 - PMID: 25995187 - PMCID: PMC4441050 - DOI: 10.1101/gad.259796.115

Corrigan-Curay J, O'Reilly M, Kohn DB, Cannon PM, Bao G, Bushman FD, Carroll D, Cathomen T, Joung JK, Roth D, Sadelain M, Scharenberg AM, von Kalle C, Zhang F, Jambou R, Rosenthal E, Hassani M, Singh A, Porteus MH

Genome editing technologies: defining a path to clinic.
Mol Ther. 2015;23(5):796-806 - PMID: 25943494 - PMCID: PMC4427885 - DOI: 10.1038/mt.2015.54

Zhang XC, Millet YA, Cheng Z, Bush J, Ausubel FM

Jasmonate signalling in Arabidopsis involves SGT1b-HSP70-HSP90 chaperone complexes.
Nat Plants. 2015;1:ePub - PMID: 27054042 - PMCID: PMC4819967 - DOI: 10.1038/nplants.2015.49

Tsurumi A, Que YA, Yan S, Tompkins RG, Rahme LG, Ryan CM

Do standard burn mortality formulae work on a population of severely burned children and adults?
Burns. 2015;41(5):935-45 - PMID: 25922299 - DOI: 10.1016/j.burns.2015.03.017

Izgu EC, Fahrenbach AC, Zhang N, Li L, Zhang W, Larsen A, Blain JC, Szostak JW

Uncovering the Thermodynamics of Monomer Binding for RNA Replication.
J Am Chem Soc. 2015;137(19):6373-82 - PMID: 25901790 - PMCID: PMC4984997 - DOI: 10.1021/jacs.5b02707

Rajamuthiah R, Fuchs BB, Conery AL, Kim W, Jayamani E, Kwon B, Ausubel FM, Mylonakis E

Repurposing Salicylanilide Anthelmintic Drugs to Combat Drug Resistant Staphylococcus aureus.
PLoS One. 2015;10(4):e0124595 - PMID: 25897961 - PMCID: PMC4405337 - DOI: 10.1371/journal.pone.0124595

Hou HW, Bhattacharyya RP, Hung DT, Han J

Direct detection and drug-resistance profiling of bacteremias using inertial microfluidics.
Lab Chip. 2015;15(10):2297-2307 - PMID: 25882432 - PMCID: PMC4437799 - DOI: 10.1039/c5lc00311c

Fox CS, Hall JL, Arnett DK, Ashley EA, Delles C, Engler MB, Freeman MW, Johnson JA, Lanfear DE, Liggett SB, Lusis AJ, Loscalzo J, MacRae CA, Musunuru K, Newby LK, O'Donnell CJ, Rich SS, Terzic A

Future Translational Applications From the Contemporary Genomics Era: A Scientific Statement From the American Heart Association.
Circulation. 2015;131(19):1715-36 - PMID: 25882488 - PMCID: PMC4825323 - DOI: 10.1161/CIR.0000000000000211

Benedetti M, Pontiggia D, Raggi S, Cheng Z, Scaloni F, Ferrari S, Ausubel FM, Cervone F, De Lorenzo G

Plant immunity triggered by engineered in vivo release of oligogalacturonides, damage-associated molecular patterns.
Proc Natl Acad Sci U S A. 2015;112(17):5533-8 - PMID: 25870275 - PMCID: PMC4418913 - DOI: 10.1073/pnas.1504154112

Aldrich LN, Kuo SY, Castoreno AB, Goel G, Kuballa P, Rees MG, Seashore-Ludlow BA, Cheah JH, Latorre IJ, Schreiber SL, Shamji AF, Xavier RJ

Discovery of a Small-Molecule Probe for V-ATPase Function.
J Am Chem Soc. 2015;137(16):5563-8 - PMID: 25860544 - PMCID: PMC4416280 - DOI: 10.1021/jacs.5b02150

Morgan XC, Kabakchiev B, Waldron L, Tyler AD, Tickle TL, Milgrom R, Stempak JM, Gevers D, Xavier RJ, Silverberg MS, Huttenhower C

Associations between host gene expression, the mucosal microbiome, and clinical outcome in the pelvic pouch of patients with inflammatory bowel disease.
Genome Biol. 2015;16(1):67 - PMID: 25887922 - PMCID: PMC4414286 - DOI: 10.1186/s13059-015-0637-x

Liao J, Karnik R, Gu H, Ziller MJ, Clement K, Tsankov AM, Akopian V, Gifford CA, Donaghey J, Galonska C, Pop R, Reyon D, Tsai SQ, Mallard W, Joung JK, Rinn JL, Gnirke A, Meissner A

Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells.
Nat Genet. 2015;47(5):469-78 - PMID: 25822089 - PMCID: PMC4414868 - DOI: 10.1038/ng.3258

Li JF, Zhang D, Sheen J

Targeted Plant Genome Editing via the CRISPR/Cas9 Technology.
Methods Mol Biol. 2015;1284:239-55 - PMID: 25757776 - DOI: 10.1007/978-1-4939-2444-8_12

Tompkins RG

Genomics of injury: The Glue Grant experience.
J Trauma Acute Care Surg. 2015;78(4):671-686 - PMID: 25742245 - PMCID: PMC4389222 - DOI: 10.1097/TA.0000000000000568

Cheng Z, Li JF, Niu Y, Zhang XC, Woody OZ, Xiong Y, Djonovi? S, Millet Y, Bush J, McConkey BJ, Sheen J, Ausubel FM

Pathogen-secreted proteases activate a novel plant immune pathway.
Nature. 2015;521(7551):213-6 - PMID: 25731164 - PMCID: PMC4433409 - DOI: 10.1038/nature14243

Haberman Y, Tickle TL, Dexheimer PJ, Kim MO, Tang D, Karns R, Baldassano RN, Noe JD, Rosh J, Markowitz J, Heyman MB, Griffiths AM, Crandall WV, Mack DR, Baker SS, Huttenhower C, Keljo DJ, Hyams JS, Kugathasan S, Walters TD, Aronow B, Xavier RJ, Gevers D, Denson LA

Pediatric Crohn disease patients exhibit specific ileal transcriptome and microbiome signature.
J Clin Invest. 2015;125(3):1363 - PMID: 25729854 - PMCID: PMC4362234 - DOI: 10.1172/JCI79657

Shishkin AA, Giannoukos G, Kucukural A, Ciulla D, Busby M, Surka C, Chen J, Bhattacharyya RP, Rudy RF, Patel MM, Novod N, Hung DT, Gnirke A, Garber M, Guttman M, Livny J

Simultaneous generation of many RNA-seq libraries in a single reaction.
Nat Methods. 2015;12(4):323-325 - PMID: 25730492 - PMCID: PMC4712044 - DOI: 10.1038/nmeth.3313

Sarmento OF, Svingen PA, Xiong Y, Xavier RJ, McGovern D, Smyrk TC, Papadakis KA, Urrutia RA, Faubion WA

A novel role for KLF14 in T regulatory cell differentiation.
Cell Mol Gastroenterol Hepatol. 2015;1(2):188-202.e4 - PMID: 25750932 - PMCID: PMC4349492 - DOI: 10.1016/j.jcmgh.2014.12.007

Keung AJ, Joung JK, Khalil AS, Collins JJ

Chromatin regulation at the frontier of synthetic biology.
Nat Rev Genet. 2015;16(3):159-71 - PMID: 25668787 - PMCID: PMC4846386 - DOI: 10.1038/nrg3900

Heuberger BD, Pal A, Del Frate F, Topkar VV, Szostak JW

Replacing Uridine with 2-Thio-Uridine Enhances the Rate and Fidelity of Nonenzymatic RNA Primer Extension.
J Am Chem Soc. 2015;137(7):2769-75 - PMID: 25654265 - PMCID: PMC4985000 - DOI: 10.1021/jacs.5b00445

Midtbø LK, Borkowska AG, Bernhard A, Rønnevik AK, Lock EJ, Fitzgerald ML, Torstensen BE, Liaset B, Brattelid T, Pedersen TL, Newman JW, Kristiansen K, Madsen L

Intake of farmed Atlantic salmon fed soybean oil increases hepatic levels of arachidonic acid-derived oxylipins and ceramides in mice.
J Nutr Biochem. 2015;26(6):585-95 - PMID: 25776459 - DOI: 10.1016/j.jnutbio.2014.12.005

Kostic AD, Gevers D, Siljander H, Vatanen T, Hyötyläinen T, Hämäläinen AM, Peet A, Tillmann V, Pöhö P, Mattila I, Lähdesmäki H, Franzosa EA, Vaarala O, de Goffau M, Harmsen H, Ilonen J, Virtanen SM, Clish CB, Oreši? M, Huttenhower C, Knip M, , Xavier RJ

The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes.
Cell Host Microbe. 2015;17(2):260-273 - PMID: 25662751 - PMCID: PMC4689191 - DOI: 10.1016/j.chom.2015.01.001

Iscla I, Wray R, Blount P, Larkins-Ford J, Conery AL, Ausubel FM, Ramu S, Kavanagh A, Huang JX, Blaskovich MA, Cooper MA, Obregon-Henao A, Orme I, Tjandra ES, Stroeher UH, Brown MH, Macardle C, van Holst N, Ling Tong C, Slattery AD, Gibson CT, Raston CL, Boulos RA

A new antibiotic with potent activity targets MscL.
J Antibiot (Tokyo). 2015;68(7):453-62 - PMID: 25649856 - PMCID: PMC4430313 - DOI: 10.1038/ja.2015.4

Stitziel NO, Peloso GM, Abifadel M, Cefalù AB, Fouchier S, Motazacker MM, Tada H, Larach DB, Awan Z, Haller JF, Pullinger CR, Varret M, Rabès JP, Noto D, Tarugi P, Kawashiri MA, Nohara A, Yamagishi M, Risman M, Deo R, Ruel I, Shendure J, Nickerson DA, Wilson JG, Rich SS, Gupta N, Farlow DN, , Neale BM, Daly MJ, Kane JP, Freeman MW, Genest J, Rader DJ, Mabuchi H, Kastelein JJ, Hovingh GK, Averna MR, Gabriel S, Boileau C, Kathiresan S

Exome Sequencing in Suspected Monogenic Dyslipidemias.
Circ Cardiovasc Genet. 2015;8(2):343-50 - PMID: 25632026 - PMCID: PMC4406825 - DOI: 10.1161/CIRCGENETICS.114.000776

Kirienko NV, Ausubel FM, Ruvkun G

Mitophagy confers resistance to siderophore-mediated killing by Pseudomonas aeruginosa.
Proc Natl Acad Sci U S A. 2015;112(6):1821-6 - PMID: 25624506 - PMCID: PMC4330731 - DOI: 10.1073/pnas.1424954112

Norman JM, Handley SA, Baldridge MT, Droit L, Liu CY, Keller BC, Kambal A, Monaco CL, Zhao G, Fleshner P, Stappenbeck TS, McGovern DP, Keshavarzian A, Mutlu EA, Sauk J, Gevers D, Xavier RJ, Wang D, Parkes M, Virgin HW

Disease-Specific Alterations in the Enteric Virome in Inflammatory Bowel Disease.
Cell. 2015;160(3):447-60 - PMID: 25619688 - PMCID: PMC4312520 - DOI: 10.1016/j.cell.2015.01.002

Nakazawa H, Yamada M, Tanaka T, Kramer J, Yu YM, Fischman AJ, Martyn JA, Tompkins RG, Kaneki M

Role of Protein Farnesylation in Burn-Induced Metabolic Derangements and Insulin Resistance in Mouse Skeletal Muscle.
PLoS One. 2015;10(1):e0116633 - PMID: 25594415 - PMCID: PMC4296934 - DOI: 10.1371/journal.pone.0116633

Jayamani E, Rajamuthiah R, Larkins-Ford J, Fuchs BB, Conery AL, Vilcinskas A, Ausubel FM, Mylonakis E

Insect-derived Cecropins Display Activity Against Acinetobacter baumannii in a Whole-Animal High-Throughput Caenorhabditis elegans Model.
Antimicrob Agents Chemother. 2015;59(3):1728-37 - PMID: 25583713 - PMCID: PMC4325797 - DOI: 10.1128/AAC.04198-14

Palsson-McDermott EM, Curtis AM, Goel G, Lauterbach MA, Sheedy FJ, Gleeson LE, van den Bosch MW, Quinn SR, Domingo-Fernandez R, Johnson DG, Jiang J, Israelsen WJ, Keane J, Thomas C, Clish C, Vanden Heiden M, Xavier RJ, O'Neill LA

Pyruvate Kinase M2 Regulates Hif-1? Activity and IL-1? Induction and Is a Critical Determinant of the Warburg Effect in LPS-Activated Macrophages.
Cell Metab. 2015;21(1):65-80 - PMID: 25565206 - PMCID: PMC5198835 - DOI: 10.1016/j.cmet.2014.12.005

Jeschke MG, Pinto R, Kraft R, Nathens AB, Finnerty CC, Gamelli RL, Gibran NS, Klein MB, Arnoldo BD, Tompkins RG, Herndon DN,

Morbidity and Survival Probability in Burn Patients in Modern Burn Care.
Crit Care Med. 2015;43(4):808-15 - PMID: 25559438 - PMCID: PMC4359665 - DOI: 10.1097/CCM.0000000000000790

Osborn MJ, Gabriel R, Webber BR, DeFeo AP, McElroy AN, Jarjour J, Starker CG, Wagner JE, Joung JK, Voytas DF, von Kalle C, Schmidt M, Blazar BR, Tolar J

Fanconi Anemia Gene Editing by the CRISPR/Cas9 System.
Hum Gene Ther. 2015;26(2):114-26 - PMID: 25545896 - PMCID: PMC4326027 - DOI: 10.1089/hum.2014.111

Warren HS, Tompkins RG, Moldawer LL, Seok J, Xu W, Mindrinos MN, Maier RV, Xiao W, Davis RW

Mice are not men.
Proc Natl Acad Sci U S A. 2015;112(4):E345 - PMID: 25540422 - PMCID: PMC4313842 - DOI: 10.1073/pnas.1414857111

Adamala K, Engelhart AE, Szostak JW

Generation of functional RNAs from inactive oligonucleotide complexes by non-enzymatic primer extension.
J Am Chem Soc. 2015;137(1):483-9 - PMID: 25521912 - PMCID: PMC4984999 - DOI: 10.1021/ja511564d

Tsai SQ, Zheng Z, Nguyen NT, Liebers M, Topkar VV, Thapar V, Wyvekens N, Khayter C, Iafrate AJ, Le LP, Aryee MJ, Joung JK

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases.
Nat Biotechnol. 2015;33(2):187-197 - PMID: 25513782 - PMCID: PMC4320685 - DOI: 10.1038/nbt.3117

Gjini E, Mansour MR, Sander JD, Moritz N, Nguyen AT, Kesarsing M, Gans E, He S, Chen S, Ko M, Kuang YY, Yang S, Zhou Y, Rodig S, Zon LI, Joung JK, Rao A, Look AT

A Zebrafish Model of Myelodysplastic Syndrome Produced Through tet2 Genomic Editing.
Mol Cell Biol. 2015;35(5):789-804 - PMID: 25512612 - PMCID: PMC4323485 - DOI: 10.1128/MCB.00971-14

Paulus GL, Xavier RJ

Autophagy and checkpoints for intracellular pathogen defense.
Curr Opin Gastroenterol. 2015;31(1):14-23 - PMID: 25394238 - PMCID: PMC4330559 - DOI: 10.1097/MOG.0000000000000134

Zuris JA, Thompson DB, Shu Y, Guilinger JP, Bessen JL, Hu JH, Maeder ML, Joung JK, Chen ZY, Liu DR

Cationic lipid-mediated delivery of proteins enables efficient protein-based genome editing in vitro and in vivo.
Nat Biotechnol. 2015;33(1):73-80 - PMID: 25357182 - PMCID: PMC4289409 - DOI: 10.1038/nbt.3081

Mammarella ND, Cheng Z, Fu ZQ, Daudi A, Bolwell GP, Dong X, Ausubel FM

Apoplastic peroxidases are required for salicylic acid-mediated defense against Pseudomonas syringae.
Phytochemistry. 2015;112:110-121 - PMID: 25096754 - PMCID: PMC4314520 - DOI: 10.1016/j.phytochem.2014.07.010

Yan S, Tsurumi A, Que YA, Ryan CM, Bandyopadhaya A, Morgan AA, Flaherty PJ, Tompkins RG, Rahme LG

Prediction of Multiple Infections After Severe Burn Trauma: A Prospective Cohort Study.
Ann Surg. 2015;261(4):781-792 - PMID: 24950278 - PMCID: PMC4284150 - DOI: 10.1097/SLA.0000000000000759

Zhao G, Yu YM, Kaneki M, Bonab AA, Tompkins RG, Fischman AJ

Simvastatin Reduces Burn Injury-Induced Splenic Apoptosis via Downregulation of the TNF-?/NF-?B Pathway.
Ann Surg. 2015;261(5):1006-12 - PMID: 24950285 - PMCID: PMC4272342 - DOI: 10.1097/SLA.0000000000000764

Tompkins RG

Survival From Burns in the New Millennium: 70 Years' Experience From a Single Institution.
Ann Surg. 2015;261(2):263-268 - PMID: 24670865 - PMCID: PMC4372065 - DOI: 10.1097/SLA.0000000000000623
Total: 95