Publications for All Faculty

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Freeman MW, Bond M, Murphy B, Hui J, Isaacsohn J

Results from a phase 1, randomized, double-blind, multiple ascending dose study characterizing the pharmacokinetics and demonstrating the safety and selectivity of the aldosterone synthase inhibitor baxdrostat in healthy volunteers.

Hypertens Res. 2022;46(1):108-118 - PMID: 36266539 - PMCID: PMC9747611 - DOI: 10.1038/s41440-022-01070-4
Halvorsen YD, Lock JP, Frias JP, Tinahones FJ, Dahl D, Conery AL, Freeman MW

A 96-Week, Double-Blind, Randomized, Controlled Trial Comparing Bexagliflozin to Glimepiride as an Adjunct to Metformin for the Treatment of Type 2 Diabetes in Adults.

Diabetes Obes Metab. 2022;25(1):293-301 - PMID: 36178197 - DOI: 10.1111/dom.14875
Jagadeesh KA, Dey KK, Montoro DT, Mohan R, Gazal S, Engreitz JM, Xavier RJ, Price AL, Regev A

Identifying disease-critical cell types and cellular processes by integrating single-cell RNA-sequencing and human genetics.

Nat Genet. 2022;54(10):1479-1492 - PMID: 36175791 - PMCID: PMC9910198 - DOI: 10.1038/s41588-022-01187-9
Strom KR, Szostak JW

Folding and Duplex Formation in Sequence-Defined Aniline Benzaldehyde Oligoarylacetylenes.

J Am Chem Soc. 2022;144(40):18350-18358 - PMID: 36174969 - PMCID: PMC9562438 - DOI: 10.1021/jacs.2c06268
Grünewald J, Miller BR, Szalay RN, Cabeceiras PK, Woodilla CJ, Holtz EJB, Petri K, Joung JK

Engineered CRISPR prime editors with compact, untethered reverse transcriptases.

Nat Biotechnol. 2022;41(3):337-343 - PMID: 36163548 - PMCID: PMC10023297 - DOI: 10.1038/s41587-022-01473-1
Liu KH, Liu M, Lin Z, Wang ZF, Chen B, Liu C, Guo A, Konishi M, Yanagisawa S, Wagner G, Sheen J

NIN-like protein 7 transcription factor is a plant nitrate sensor.

Science. 2022;377(6613):1419-1425 - PMID: 36137053 - PMCID: PMC9628810 - DOI: 10.1126/science.add1104
Rojas-Tapias DF, Brown EM, Temple ER, Onyekaba MA, Mohamed AMT, Duncan K, Schirmer M, Walker RL, Mayassi T, Pierce KA, Ávila-Pacheco J, Clish CB, Vlamakis H, Xavier RJ

Inflammation-associated nitrate facilitates ectopic colonization of oral bacterium Veillonella parvula in the intestine.

Nat Microbiol. 2022;7(10):1673-1685 - PMID: 36138166 - PMCID: PMC9728153 - DOI: 10.1038/s41564-022-01224-7
Ye R, Wang M, Du H, Chhajed S, Koh J, Liu KH, Shin J, Wu Y, Shi L, Xu L, Chen S, Zhang Y, Sheen J

Glucose-driven TOR-FIE-PRC2 signalling controls plant development.

Nature. 2022;609(7929):986-993 - PMID: 36104568 - PMCID: PMC9530021 - DOI: 10.1038/s41586-022-05171-5
Todisco M, Szostak JW

Hybridization kinetics of out-of-equilibrium mixtures of short RNA oligonucleotides.

Nucleic Acids Res. 2022;50(17):9647-9662 - PMID: 36099434 - PMCID: PMC9508827 - DOI: 10.1093/nar/gkac784
Pedersen TK, Brown EM, Plichta DR, Johansen J, Twardus SW, Delorey TM, Lau H, Vlamakis H, Moon JJ, Xavier RJ, Graham DB

The CD4+ T cell response to a commensal-derived epitope transitions from a tolerant to an inflammatory state in Crohn's disease.

Immunity. 2022;55(10):1909-1923.e6 - PMID: 36115338 - PMCID: PMC9890645 - DOI: 10.1016/j.immuni.2022.08.016
Li Y, Watanabe E, Kawashima Y, Plichta DR, Wang Z, Ujike M, Ang QY, Wu R, Furuichi M, Takeshita K, Yoshida K, Nishiyama K, Kearney SM, Suda W, Hattori M, Sasajima S, Matsunaga T, Zhang X, Watanabe K, Fujishiro J, Norman JM, Olle B, Matsuyama S, Namkoong H, Uwamino Y, Ishii M, Fukunaga K, Hasegawa N, Ohara O, Xavier RJ, Atarashi K, Honda K

Identification of trypsin-degrading commensals in the large intestine.

Nature. 2022;609(7927):582-589 - PMID: 36071157 - PMCID: PMC9477747 - DOI: 10.1038/s41586-022-05181-3
Pawlak M, DeTomaso D, Schnell A, Meyer Zu Horste G, Lee Y, Nyman J, Dionne D, Regan BML, Singh V, Delorey T, Schramm MA, Wang C, Wallrapp A, Burkett PR, Riesenfeld SJ, Anderson AC, Regev A, Xavier RJ, Yosef N, Kuchroo VK

Induction of a colitogenic phenotype in Th1-like cells depends on interleukin-23 receptor signaling.

Immunity. 2022;55(9):1663-1679.e6 - PMID: 36070768 - PMCID: PMC9808605 - DOI: 10.1016/j.immuni.2022.08.007
Sazonovs A, Stevens CR, Venkataraman GR, Yuan K, Avila B, Abreu MT, Ahmad T, Allez M, Ananthakrishnan AN, Atzmon G, Baras A, Barrett JC, Barzilai N, Beaugerie L, Beecham A, Bernstein CN, Bitton A, Bokemeyer B, Chan A, Chung D, Cleynen I, Cosnes J, Cutler DJ, Daly A, Damas OM, Datta LW, Dawany N, Devoto M, Dodge S, Ellinghaus E, Fachal L, Farkkila M, Faubion W, Ferreira M, Franchimont D, Gabriel SB, Ge T, Georges M, Gettler K, Giri M, Glaser B, Goerg S, Goyette P, Graham D, Hämäläinen E, Haritunians T, Heap GA, Hiltunen M, Hoeppner M, Horowitz JE, Irving P, Iyer V, Jalas C, Kelsen J, Khalili H, Kirschner BS, Kontula K, Koskela JT, Kugathasan S, Kupcinskas J, Lamb CA, Laudes M, Lévesque C, Levine AP, Lewis JD, Liefferinckx C, Loescher BS, Louis E, Mansfield J, May S, McCauley JL, Mengesha E, Mni M, Moayyedi P, Moran CJ, Newberry RD, O'Charoen S, Okou DT, Oldenburg B, Ostrer H, Palotie A, Paquette J, Pekow J, Peter I, Pierik MJ, Ponsioen CY, Pontikos N, Prescott N, Pulver AE, Rahmouni S, Rice DL, Saavalainen P, Sands B, Sartor RB, Schiff ER, Schreiber S, Schumm LP, Segal AW, Seksik P, Shawky R, Sheikh SZ, Silverberg MS, Simmons A, Skeiceviciene J, Sokol H, Solomonson M, Somineni H, Sun D, Targan S, Turner D, Uhlig HH, van der Meulen AE, Vermeire S, Verstockt S, Voskuil MD, Winter HS, Young J, Belgium IBD Consortium, Cedars-Sinai IBD, International IBD Genetics Consortium, NIDDK IBD Genetics Consortium, NIHR IBD BioResource, Regeneron Genetics Center, SHARE Consortium, SPARC IBD Network, UK IBD Genetics Consortium, Duerr RH, Franke A, Brant SR, Cho J, Weersma RK, Parkes M, Xavier RJ, Rivas MA, Rioux JD, McGovern DPB, Huang H, Anderson CA, Daly MJ

Large-scale sequencing identifies multiple genes and rare variants associated with Crohn's disease susceptibility.

Nat Genet. 2022;54(9):1275-1283 - PMID: 36038634 - PMCID: PMC9700438 - DOI: 10.1038/s41588-022-01156-2
Chou CH, Mohanty S, Kang HA, Kong L, Avila-Pacheco J, Joshi SR, Ueda I, Devine L, Raddassi K, Pierce K, Jeanfavre S, Bullock K, Meng H, Clish C, Santori FR, Shaw AC, Xavier RJ

Metabolomic and transcriptomic signatures of influenza vaccine response in healthy young and older adults.

Aging Cell. 2022;21(9):e13682 - PMID: 35996998 - PMCID: PMC9470889 - DOI: 10.1111/acel.13682
Gao LA, Wilkinson ME, Strecker J, Makarova KS, Macrae RK, Koonin EV, Zhang F

Prokaryotic innate immunity through pattern recognition of conserved viral proteins.

Science. 2022;377(6607):eabm4096 - PMID: 35951700 - PMCID: PMC10028730 - DOI: 10.1126/science.abm4096
Xue H, Meng J, Lei P, Cao Y, An X, Jia M, Li Y, Liu H, Sheen J, Liu X, Yu F

ARF2-PIF5 interaction controls transcriptional reprogramming in the ABS3-mediated plant senescence pathway.

EMBO J. 2022;41(19):e110988 - PMID: 35942625 - PMCID: PMC9531305 - DOI: 10.15252/embj.2022110988
Ruvkun G, Lehrbach N

Regulation and Functions of the ER-Associated Nrf1 Transcription Factor.

Cold Spring Harb Perspect Biol. 2022;15(1):ePub - PMID: 35940907 - PMCID: PMC9808582 - DOI: 10.1101/cshperspect.a041266
Bae M, Cassilly CD, Liu X, Park SM, Tusi BK, Chen X, Kwon J, Filipčík P, Bolze AS, Liu Z, Vlamakis H, Graham DB, Buhrlage SJ, Xavier RJ, Clardy J

Akkermansia muciniphila phospholipid induces homeostatic immune responses.

Nature. 2022;608(7921):168-173 - PMID: 35896748 - PMCID: PMC9328018 - DOI: 10.1038/s41586-022-04985-7
Wu LF, Liu Z, Roberts SJ, Su M, Szostak JW, Sutherland JD

Template-Free Assembly of Functional RNAs by Loop-Closing Ligation.

J Am Chem Soc. 2022;144(30):13920-13927 - PMID: 35880790 - PMCID: PMC9354263 - DOI: 10.1021/jacs.2c05601
Meng Y, Zhang N, Li J, Shen X, Sheen J, Xiong Y

TOR kinase, a GPS in the complex nutrient and hormonal signaling networks to guide plant growth and development.

J Exp Bot. 2022;73(20):7041-7054 - PMID: 35781569 - PMCID: PMC9664236 - DOI: 10.1093/jxb/erac282
Chen X, Jaiswal A, Costliow Z, Herbst P, Creasey EA, Oshiro-Rapley N, Daly MJ, Carey KL, Graham DB, Xavier RJ

pH sensing controls tissue inflammation by modulating cellular metabolism and endo-lysosomal function of immune cells.

Nat Immunol. 2022;23(7):1063-1075 - PMID: 35668320 - PMCID: PMC9720675 - DOI: 10.1038/s41590-022-01231-0
Brunkard JO, Chang C, Mayer BJ, Meyer C, Sheen J

ConducTORs of a Signaling Symphony: Metabolic and Hormone Responses Converge on TOR and EIN2 in plants.

Fac Rev. 2022;11:12 - PMID: 35719129 - PMCID: PMC9190210 - DOI: 10.12703/r-01-000008
Warrier T, Romano KP, Clatworthy AE, Hung DT

Integrated genomics and chemical biology herald an era of sophisticated antibacterial discovery, from defining essential genes to target elucidation.

Cell Chem Biol. 2022;29(5):716-729 - PMID: 35523184 - PMCID: PMC9893512 - DOI: 10.1016/j.chembiol.2022.04.006
Zhang SJ, Duzdevich D, Ding D, Szostak JW

Freeze-thaw cycles enable a prebiotically plausible and continuous pathway from nucleotide activation to nonenzymatic RNA copying.

Proc Natl Acad Sci U S A. 2022;119(17):e2116429119 - PMID: 35446612 - PMCID: PMC9169909 - DOI: 10.1073/pnas.2116429119
Thakku SG, Ackerman CM, Myhrvold C, Bhattacharyya RP, Livny J, Ma P, Gomez GI, Sabeti PC, Blainey PC, Hung DT

Multiplexed detection of bacterial nucleic acids using Cas13 in droplet microarrays.

PNAS Nexus. 2022;1(1):pgac021 - PMID: 35450424 - PMCID: PMC9013781 - DOI: 10.1093/pnasnexus/pgac021
Total: 2459