Selected Publications 2012-2018


Structural Dynamics Control Allosteric Activation of Cytohesin Family Arf GTPase Exchange Factors.
Malaby AW, Das S, Chakravarthy S, Irving TC, Bilsel O, Lambright DG. Structure. 2018 Jan 2;26(1):106-117.e6. doi: 10.1016/j.str.2017.11.019. Epub 2017 Dec 21. PMID: 29276036.  (Paper)

Stress-responsive and metabolic gene regulation are altered in low S-adenosylmethionine.
Ding W, Higgins DP, Yadav DK, Godbole AA, Pukkila-Worley R, Walker AK. PLoS Genet. 2018 Nov 28;14(11):e1007812. doi: 10.1371/journal.pgen.1007812. [Epub ahead of print] PMID: 30485261 [PubMed - as supplied by publisher].  (Paper)

Single-allele chromatin interactions identify regulatory hubs in dynamic compartmentalized domains.
Oudelaar AM, Davies JOJ, Hanssen LLP, Telenius JM, Schwessinger R, Liu Y, Brown JM, Downes DJ, Chiariello AM, Bianco S, Nicodemi M, Buckle VJ, Dekker J, Higgs DR, Hughes JR. Nat Genet. 2018 Oct 29. doi: 10.1038/s41588-018-0253-2. [Epub ahead of print] PMID: 30374068 [PubMed - as supplied by publisher]

Primate immunodeficiency virus proteins Vpx and Vpr counteract transcriptional repression of proviruses by the HUSH complex.
Yurkovetskiy L, Guney MH, Kim K, Goh SL, McCauley S, Dauphin A, Diehl WE, Luban J.  Nat Microbiol. 2018 Oct 8. doi: 10.1038/s41564-018-0256-x. [Epub ahead of print].  PMID: 30297740.  (Paper)

CRISPR delivery particles targeting nuclear receptor-interacting protein 1 (Nrip1) in adipose cells to enhance energy expenditure.
Shen Y, Cohen JL, Nicoloro SM, Kelly M, Yenilmez B, Henriques F, Tsagkaraki E, Edwards YJK, Hu X, Friedline RH, Kim JK, Czech MP.
J Biol Chem. 2018 Sep 6. pii: jbc.RA118.004554. doi: 10.1074/jbc.RA118.004554. [Epub ahead of print].  PMID: 30190322.  (Paper)

Neuronal modulation of brown adipose activity through perturbation of white adipocyte lipogenesis.
Guilherme A, Pedersen DJ, Henriques F, Bedard AH, Henchey E, Kelly M, Morgan DA, Rahmouni K, Czech MP. Mol Metab. 2018 Jun 27. pii: S2212-8778(18)30518-0. doi: 10.1016/j.molmet.2018.06.014. [Epub ahead of print] PMID: 30005879.  (Paper)

Recent Molecular Genetic Explorations of Caenorhabditis elegans MicroRNAs.
Ambros, V, Ruvkun, G.  Genetics. 2018 Jul;209(3):651-673. doi: 10.1534/genetics.118.300291.   PMID:29967059  (Paper)

Ingestion of Food Particles Regulates the Mechanosensing Misshapen-Yorkie Pathway in Drosophila Intestinal Growth.
Li Q, Nirala NK, Nie Y, Chen HJ, Ostroff G, Mao J, Wang Q, Xu L, Ip YT.  Dev Cell. 2018 May 21;45(4):433-449.e6. doi: 10.1016. PMID: 29754801.  (Paper)

Heavily and fully modified RNAs guide efficient SpyCas9-mediated genome editing.
Mir A, Alterman JF, Hassler MR, Debacker AJ, Hudgens E, Echeverria D, Brodsky MH, Khvorova A, Watts JK, Sontheimer EJ.  Nat Commun. 2018 Jul 6;9(1):2641. doi: 10.1038/s41467-018-05073-z.  PMID: 29980686

A Protein Scaffold Coordinates SRC-Mediated JNK Activation in Response to Metabolic Stress.
Kant S, Standen CL, Morel C, Jung DY, Kim JK, Swat W, Flavell RA, Davis RJ.  Cell Rep. 2017 Sep 19;20(12):2775-2783. doi: 10.1016/j.celrep.2017.08.025.
PMID: 28930674 [PubMed - indexed for MEDLINE].  (Paper)

The cJUN NH2-terminal kinase (JNK) signaling pathway promotes genome stability and prevents tumor initiation.
Girnius N, Edwards YJ, Garlick DS, Davis RJ.  Elife. 2018 Jun 1;7. pii: e36389. doi: 10.7554/eLife.36389.
PMID: 29856313 [PubMed - in process
] (Paper)

A Sex Chromosome piRNA Promotes Robust Dosage Compensation and Sex Determination in C. elegans.
Tang W, Seth M, Tu S, Shen EZ, Li Q, Shirayama M, Weng Z, Mello CC. Dev Cell. 2018 Mar 26;44(6):762-770.e3. doi: 10.1016/j.devcel.2018.01.025. Epub 2018 Feb 15.  PMID: 29456136 [PubMed - indexed for MEDLINE]

Impaired neurodevelopment by the low complexity domain of CPEB4 reveals a convergent pathway with neurodegeneration.

Shin J, Salameh JS, Richter JD.  Sci Rep. 2016 Jul 6;6:29395. doi: 10.1038/srep29395.  PMID: 27381259 [PubMed - indexed for MEDLINE] (Paper)

ZNFX-1 Functions within Perinuclear Nuage to Balance Epigenetic Signals.
Ishidate T, Ozturk AR, Durning DJ, Sharma R, Shen EZ, Chen H, Seth M, Shirayama M, Mello CC. Mol Cell. 2018 May 17;70(4):639-649.e6. doi: 10.1016/j.molcel.2018.04.009.  PMID: 29775580  [PubMed - in process].  (Paper)

In vivo and in vitro studies of Cry5B and nicotinic acetylcholine receptor agonist anthelmintics reveal a powerful and unique combination therapy against intestinal nematode parasites.
Hu Y, Miller M, Zhang B, Nguyen TT, Nielsen MK, Aroian RV. PLoS Negl Trop Dis. 2018 May 18;12(5):e0006506. doi: 10.1371/journal.pntd.0006506. [Epub ahead of print]PMID: 29775454 [PubMed - as supplied by publisher.  (Paper)

Bacillus thuringiensis Cry5B protein as a new pan-hookworm cure.
Hu Y, Nguyen TT, Lee ACY, Urban JF Jr, Miller MM, Zhan B, Koch DJ, Noon JB, Abraham A, Fujiwara RT, Bowman DD, Ostroff GR, Aroian RV. Int J Parasitol Drugs Drug Resist. 2018 May 4;8(2):287-294. doi: 10.1016/j.ijpddr.2018.05.001. [Epub ahead of print]  PMID: 29772478 [PubMed - as supplied by publisher].  (Paper)

Ingestion of Food Particles Regulates the Mechanosensing Misshapen-Yorkie Pathway in Drosophila Intestinal Growth.
Li Q, Nirala NK, Nie Y, Chen HJ, Ostroff G, Mao J, Wang Q, Xu L, Ip YT. Dev Cell. 2018 May 9. pii: S1534-5807(18)30289-2. doi: 10.1016/j.devcel.2018.04.014. (Paper)

 Ift25 is not a cystic kidney disease gene but is required for early steps of kidney development.
Desai PB, San Agustin JT, Stuck MW, Jonassen JA, Bates CM, Pazour GJ.
Mech Dev. 2018 Apr 4. pii: S0925-4773(18)30009-1. doi: 10.1016/j.mod.2018.04.001. [Epub ahead of print] PMID: 29626631 [PubMed - as supplied by
publisher] (Paper)

Identification of piRNA Binding Sites Reveals the Argonaute Regulatory Landscape of the C. elegans Germline.
Shen EZ, Chen H, Ozturk AR, Tu S, Shirayama M, Tang W, Ding YH, Dai SY, Weng Z, Mello CC. Cell. 2018 Feb 22;172(5):937-951.e18. doi: 10.1016/j.cell.2018.02.002. Epub 2018 Feb 15. PMID: 29456082 [PubMed - in process].  (Paper)

Comparative Analysis of Immune Cells Reveals a Conserved Regulatory Lexicon. 
Donnard E, Vangala P, Afik S, McCauley S, Nowosielska A, Kucukural A, Tabak B, Zhu X, Diehl W, McDonel P, Yosef N, Luban J, Garber M.
Cell Syst. 2018 Jan 30. pii: S2405-4712(18)30002-4. doi: 10.1016/j.cels.2018.01.002. [Epub ahead of print]. 
PMID: 29454939 [PubMed - as supplied by publisher]. (Paper)


Structural Dynamics Control Allosteric Activation of Cytohesin Family Arf GTPase Exchange Factors.
Malaby AW, Das S, Chakravarthy S, Irving TC, Bilsel O, Lambright DG. Structure. 2017 Dec 16. pii: S0969-2126(17)30393-3. doi: 10.1016/j.str.2017.11.019. [Epub ahead of print] PMID: 29276036 [PubMed - as supplied by publisher] (Paper)

Identification and characterization of T reg-like cells in zebrafish.
Eli Freiman, David Stachura, Arlin B. Rogers, Yariv Houvras, David M. Langenau, and Craig J. CeolJ Exp Med. 2017 Dec 4;214(12):3519-3530. doi: 10.1084/jem.20162084. Epub 2017 Oct 24.PMID: 29066577 PMCID: PMC5716030 [Available on 2018-06-04].  (Paper)

Using an Inducible CRISPR-dCas9-KRAB Effector System to Dissect Transcriptional Regulation in Human Embryonic Stem Cells.
Parsi KM, Hennessy E, Kearns N, Maehr R.  Methods Mol Biol. 2017;1507:221-233.  PMID: 27832543.   DOI: 10.1007/978-1-4939-6518-2_16 (Paper)

Brown Fat AKT2 Is a Cold-Induced Kinase that Stimulates ChREBP-Mediated De Novo Lipogenesis to Optimize Fuel Storage and Thermogenesis.
Sanchez-Gurmaches J, Tang Y, Jespersen NZ, Wallace M, Martinez Calejman C, Gujja S, Li H, Edwards YJK, Wolfrum C, Metallo CM, Nielsen S, Scheele C, Guertin DA. Cell Metab. 2017 Nov 15. pii: S1550-4131(17)30620-4. doi: 10.1016/j.cmet.2017.10.008. [Epub ahead of print].  PMID: 29153407 [PubMed - as supplied by publisher]  (Paper)

JNK Promotes Epithelial Cell Anoikis by Transcriptional and Post-translational Regulation of BH3-Only Proteins.
Girnius N, Davis RJ. Cell Rep. 2017 Nov 14;21(7):1910-1921. doi: 10.1016/j.celrep.2017.10.067. PMID: 29141222 [PubMed - in process] (Paper)

Identification and characterization of T reg-like cells in zebrafish.
Kasheta M, Painter CA, Moore FE, Lobbardi R, Bryll A, Freiman E, Stachura D, Rogers AB, Houvras Y, Langenau DM, Ceol CJ.
J Exp Med. 2017 Dec 4;214(12):3519-3530. doi: 10.1084/jem.20162084. Epub 2017 Oct 24.  PMID: 29066577 [PubMed - indexed for MEDLINE]  (Paper)

Transcription factor Hlx controls a systematic switch from white to brown fat through Prdm16-mediated co-activation.
Huang L, Pan D, Chen Q, Zhu LJ, Ou J, Wabitsch M, Wang YX.  Nat Commun. 2017 Jul 12;8(1):68. doi: 10.1038/s41467-017-00098-2. PMID: 28701693 [PubMed - indexed for MEDLINE]  (Paper)

A microRNA family exerts maternal control on sex determination in C. elegans.
McJunkin K, Ambros V.   Genes Dev. 2017 Feb 15;31(4):422-437. doi: 10.1101/gad.290155.116. Epub 2017 Mar 9. 
PMID: 28279983 PMCID:PMC5358761 DOI:10.1101/gad.290155.116 (Paper)  


Visualization of self-delivering hydrophobically modified siRNA cellular internalization.
Ly S, Navaroli DM, Didiot MC, Cardia J, Pandarinathan L, Alterman JF, Fogarty K, Standley C, Lifshitz LM, Bellve KD, Prot M, Echeverria D, Corvera S, Khvorova A. Nucleic Acids Res. 2017 Jan 9; 45(1): 15–25. Published online 2016 Nov 29. doi:  10.1093/nar/gkw1005. 
PMCID: PMC5224471.  (Paper)

Saturation Mutagenesis of the HIV-1 Envelope CD4 Binding Loop Reveals Residues Controlling Distinct Trimer Conformations.
Duenas-Decamp M, Jiang L, Bolon D, Clapham PR.  PLoS Pathog. 2016 Nov 7;12(11):e1005988. blished online 2016 Nov 7. doi:  10.1371/journal.ppat.1005988.
PMCID: PMC5098743.  (Paper)

Hsp90 and p23 Molecular Chaperones Control Chromatin Architecture by Maintaining the Functional Pool of the RSC Chromatin Remodeler.
Echtenkamp FJ, Gvozdenov Z, Adkins NL, Zhang Y, Lynch-Day M, Watanabe S, Peterson, CL, Freeman BC.  Mol Cell. 2016 Dec 1;64(5):888-899. doi: 10.1016/j.molcel.2016.09.040. Epub 2016 Nov 3.
PMID: 27818141DOI:10.1016/j.molcel.2016.09.040. (Paper)

High EBV load and genomic diversity are associated with generation of gp350 specific neutralizing antibodies following Acute Infectious Mononucleosis.
Weiss ER, Alter G, Ogembo JG, Henderson JL, Tabak B, Bakiş Y, Somasundaran M, Garber M, Selin L, Luzuriaga K.  J Virol. 2016 Dec 16;91(1). pii: e01562-16. Print 2017 Jan 1.
PMID: 27733645.  PMCID:PMC5165192  DOI:  10.1128/JVI.01562-16.  (Paper)

Adipocyte-specific Hypoxia-inducible gene 2 promotes fat deposition and diet-induced insulin resistance.
DiStefano MT, Roth Flach RJ, Senol-Cosar O, Danai LV, Virbasius JV, Nicoloro SM, Straubhaar J, Dagdeviren S, Wabitsch M, Gupta OT, Kim JK, Czech MP.   Mol Metab. 2016 Sep 28;5(12):1149-1161.  PMID: 27900258.
PMCID: PMC5123203.  (Paper)

Longevity of Genotype-Specific Immune Responses to Plasmodium falciparum Merozoite Surface Protein 1 in Kenyan Children from Regions of Different Malaria Transmission Intensity.
Bowman NM, Juliano JJ, Snider CJ, Kharabora O, Meshnick SR, Vulule J, John CC, Moormann AM.   Am J Trop Med Hyg. 2016 Sep 7;95(3):580-7. doi: 10.4269/ajtmh.15-0710. Epub 2016 Aug 1.  PMID:  27481054.
PMCID:PMC5014263.  (Paper)

Impaired neurodevelopment by the low complexity domain of CPEB4 reveals a convergent pathway with neurodegeneration.
Shin J, Salameh JS, Richter JD.  Sci Rep. 2016 Jul 6;6:29395. doi: 10.1038/srep29395.  PMID: 27381259.  (Paper)

Comparison of RNA isolation and associated methods for extracellular RNA detection by high-throughput quantitative polymerase chain reaction.
Tanriverdi K, Kucukural A, Mikhalev E, Tanriverdi SE, Lee R, Ambros VR, Freedman JE. Anal Biochem. 2016 May 15;501:66-74. doi: 10.1016/j.ab.2016.02.019. Epub 2016 Mar 10.  PMID:26969789.  (Paper)

The Centrosome Undergoes Plk1-Independent Interphase Maturation during Inflammation and Mediates Cytokine Release.
Vertii A, Ivshina M, Zimmerman W, Hehnly H, Kant S, Doxsey S.  Dev Cell. 2016 May 23;37(4):377-86. doi: 10.1016/j.devcel.2016.04.023.  PMID: 27219065.  (Paper)

Protein Kinase Mitogen Activated Protein Kinase Kinase Kinase Kinase 4 (MAP4K4) Promotes Obesity-Induced Hyperinsulinemia.
Roth Flach RJ, Danai LV, DiStefano MT, Kelly M, Garcia Menendez L, Jurczyk A, Sharma RB, Jung DY, Kim JH, Kim JK, Bortell R, Alonso LC, Czech MP.  J Biol Chem. 2016 Jul 29;291(31):16221-30. doi: 10.1074/jbc.M116.718932. Epub 2016 May 20..
PMID:27226575.  PMCID:PMC4965570.  (Paper)

Cholesterol-Independent SREBP-1 Maturation Is Linked to ARF1 Inactivation.
Smulan LJ,  Ding W, Freinkman E, Gujja S, Edwards Y J.K., Walker, AK.   Cell Rep.  2016 May 16.  PMCID: PMC4934023.
NIHMSID: NIHMS796514.  (Paper)

Raptor/mTORC1 loss in adipocytes causes progressive lipodystrophy and fatty liver disease.
Lee PL, Tang Y, Li H, Guertin DA.  Mol Metab. 2016 Apr 11;5(6):422-32. doi: 10.1016/j.molmet.2016.04.001. eCollection 2016 Jun.  PMID:  27257602.
PMCID:PMC4877665.  (Paper)

Early Combination Antiretroviral Therapy Limits Exposure to HIV-1 Replication and Cell-Associated HIV-1 DNA Levels in Infants.
McManus M, Mick E, Hudson R, Mofenson LM, Sullivan JL, Somasundaran M, Luzuriaga K; PACTG 356 Investigators.  PLoS One. 2016 Apr 22;11(4):e0154391. doi: 10.1371/journal.pone.0154391. eCollection 2016.  PMID: 27104621. PM
CID:PMC4841514.  (Paper)

Adipose tissue mTORC2 regulates ChREBP-driven de novo lipogenesis and hepatic glucose metabolism.
Tang Y, Wallace M, Sanchez-Gurmaches J, Hsiao WY, Li H, Lee PL, Vernia S, Metallo CM, Guertin DA.  Nat Commun. 2016 Apr 21;7:11365. doi: 10.1038/ncomms11365. PMID: 27098609.
PMCID:PMC4844681.  (Paper)

Endothelial Mitogen-Activated Protein Kinase Kinase Kinase Kinase 4 Is Critical for Lymphatic Vascular Development and Function.
Roth Flach RJ, Guo CA, Danai LV, Yawe JC, Gujja S, Edwards YJ, Czech MP.   Mol Cell Biol. 2016 May 31;36(12):1740-9. doi: 10.1128/MCB.01121-15. Print 2016 Jun 15. 
Published online 2016 May 31. Prepublished online 2016 Apr 4. doi:  10.1128/MCB.01121-15. PMCIDPMC4907094.  (Paper)

Inflammation Mediated by JNK in Myeloid Cells Promotes the Development of Hepatitis and Hepatocellular CarcinomaI.
Han MS, Barrett T, Brehm MA, Davis RJ.   Cell Rep. 2016 Apr 5;15(1):19-26. doi: 10.1016/j.celrep.2016.03.008. Epub 2016 Mar 24. 
PMID:270521.  PMCID:PMC4826851.  (Paper)

Genetic link between renal birth defects and congenital heart disease.
San Agustin JT, Klena N, Granath K, Panigrahy A, Stewart E, Devine W, Strittmatter L, Jonassen JA, Liu X, Lo CW, Pazour GJ.  Nat Commun. 2016 Mar 22;7:11103. doi: 10.1038/ncomms11103.  PMID: 27002738. PMCID:PMC4804176  (Paper)

The Mother Centriole Appendage Protein Cenexin Modulates Lumen Formation through Spindle Orientation.
Hung HF, Hehnly H, Doxsey S.   Curr Biol. 2016 Mar 2. pii: S0960-9822(16)00075-0. doi: 10.1016/j.cub.2016.01.025. [Epub ahead of print].  PMID: 26948879 [PubMed - as supplied by publisher] (Paper)

Fibroblast Growth Factor 21 Mediates Glycemic Regulation by Hepatic JNK.
Vernia S, Cavanagh-Kyros J, Barrett T, Tournier C, Davis RJ.   Cell Rep. 2016 Mar 2. pii: S2211-1247(16)30129-2. doi: 10.1016/j.celrep.2016.02.026. [Epub ahead of print].  PMID: 26947074 [PubMed - as supplied by publisher].  (Paper)

The RNase PARN-1 Trims piRNA 3' Ends to Promote Transcriptome Surveillance in C. elegans.
Tang W, Tu S, Lee HC, Weng Z, Mello CC.   Cell. 2016 Feb 25;164(5):974-84. doi: 10.1016/j.cell.2016.02.008. PMID: 26919432 [PubMed - in process] (Paper)

Excitatory transmission onto AgRP neurons is regulated by cJun NH2-terminal kinase 3 in response to metabolic stress.
Vernia S, Morel C, Madara JC, Cavanagh-Kyros J, Barrett T, Chase K, Kennedy NJ, Jung DY, Kim JK, Aronin N, Flavell RA, Lowell BB, Davis RJ.  eLife. 2016 Feb 24;5. pii: e10031. doi: 10.7554/eLife.10031.  PMID: 26910012 [PubMed - as supplied by publisher]. (Paper)

Tenomodulin promotes human adipocyte differentiation and beneficial visceral adipose tissue expansion.
Senol-Cosar O, Flach RJ, DiStefano M, Chawla A, Nicoloro S, Straubhaar J, Hardy OT, Noh HL, Kim JK, Wabitsch M, Scherer PE, Czech MP.  Nat Commun.  2016 Feb 16;7:10686.
Published online 2016 Feb 16. doi:  10.1038/ncomms10686.   PMCID: PMC4757769 (Paper)

TNFα-Mediated Cytotoxic Responses to IAP Inhibition Are Limited by the p38α MAPK Pathway.  
Girnius N, Davis RJ.   Cancer Cell. 2016 Feb 8;29(2):131-3.  doi: 10.1016/j.ccell.2016.01.008.  PMID:26859448 [PubMed - in process] (Paper)

Human 'brite/beige' adipocytes develop from capillary networks, and their implantation improves metabolic homeostasis in mice.
Min SY, Kady J, Nam M, Rojas-Rodriguez R, Berkenwald A, Kim JH, Noh HL, Kim JK, Cooper MP, Fitzgibbons T, Brehm MA, Corvera S.   Nat Med. 2016 Jan 25. doi: 10.1038/nm.4031. [Epub ahead of print]. PMID:  26808348.  (Paper)


Highly selective in vivo labeling of subcutaneous white adipocyte precursors with Prx1-Cre.
Sanchez-Gurmaches J, Hsiao WY, Guertin DA.   Stem Cell Reports. 2015 Apr 14;4(4):541-50. doi: 10.1016/j.stemcr.2015.02.008. Epub 2015 Mar 19.  PMID: 25801508.  (Paper)

Endothelial protein kinase MAP4K4 promotes vascular inflammation and atherosclerosis.
Roth Flach RJ, Skoura A, Matevossian A, Danai LV, Zheng W, Cortes C, Bhattacharya SK, Aouadi M, Hagan N, Yawe JC, Vangala P, Menendez LG, Cooper MP, Fitzgibbons TP, Buckbinder L, Czech MP. Nat Commun. 2015; 6: 8995.  Published online 2015 Dec 21. doi:  10.1038/ncomms9995.  PMCID: PMC4703891 (Paper)

Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis.
Rege M, Subramanian V, Zhu C, Hsieh TS, Weiner A, Friedman N, Clauder-Münster S, Steinmetz LM, Rando OJ, Boyer LA, Peterson CL.   Cell Rep. 2015 Nov 11. pii: S2211-1247(15)01200-0. doi: 10.1016/j.celrep.2015.10.030. [Epub ahead of print]  PMID: 26586442 [PubMed - as supplied by publisher]  (Paper)

A Gene Expression Signature That Correlates with CD8+ T Cell Expansion in Acute EBV Infection.
Greenough TC, Straubhaar JR, Kamga L, Weiss ER, Brody RM, McManus MM, Lambrecht LK, Somasundaran M, Luzuriaga KF.   J Immunol. 2015 Nov 1;195(9):4185-97. doi: 10.4049/jimmunol.1401513. Epub 2015 Sep 28.  PMID: 26416268.  PMCID:PMC4610856.  (Paper)

A PH Domain with Dual Phospholipid Binding Sites Regulates the ARF GAP, ASAP1.
Kahn RA, Lambright DG.  Structure.  2015 Nov 3;23(11):1971-3. doi: 10.1016/j.str.2015.10.002 PMID: 26536378 [PubMed - in process]. (Paper)

TRIM5 retroviral restriction activity correlates with the ability to induce innate immune signaling.
Lascano J, Uchil P, Mothes W, Luban J.   J Virol. 2015 Oct 14. pii: JVI.02496-15. [Epub ahead of print]  PMID: 26468522.  (Paper)

Centrosome-intrinsic mechanisms modulate centrosome integrity during fever.
Vertii A, Zimmerman W, Ivshina M, Doxsey S.  Mol Biol Cell. 2015 Oct 1;26(19):3451-63. doi: 10.1091/mbc.E15-03-0158. Epub 2015 Aug 12. PMID: 26269579.  PMCID:  PMC4591690. (Paper)

HIV-1 Nef promotes infection by excluding SERINC5 from virion incorporation.
Rosa A, Chande A, Ziglio S, De Sanctis V, Bertorelli R, Goh SL, McCauley SM, Nowosielska A, Antonarakis SE, Luban J, Santoni FA, Pizzato M. Nature. 2015 Sep 30. doi: 10.1038/nature15399. [Epub ahead of print]. PMID: 26416734.  (Paper)

Human adipose tissue expansion in pregnancy is impaired in gestational diabetes mellitus.
Rojas-Rodriguez R, Lifshitz LM, Bellve KD, Min SY, Pires J, Leung K, Boeras C, Sert A, Draper JT, Corvera S, Moore Simas TA. Diabetologia. 2015 Sep;58(9):2106-14. doi: 10.1007/s00125-015-3662-0. Epub 2015 Jun 13. PMID: 2606736.  (Paper)

Caenorhabditis elegans ALG-1 antimorphic mutations uncover functions for Argonaute in microRNA guide strand selection and passenger strand disposal.
Zinovyeva AY, Veksler-Lublinsky I, Vashisht AA, Wohlschlegel JA, Ambros VR.  Proc Natl Acad Sci U S A. 2015 Sep 8. pii: 201506576. [Epub ahead of print]. PMID:26351692.  PMCID: PMC4586838  [Available on 2016-03-22] (Paper)

s-Adenosylmethionine Levels Govern Innate Immunity through Distinct Methylation-Dependent Pathways.
Ding W, Smulan LJ, Hou NS, Taubert S, Watts JL, Walker AK.  Cell Metab. 2015 Aug 26. pii: S1550-4131(15)00342-3. doi: 10.1016/j.cmet.2015.07.013. [Epub ahead of print].  PMID:  26321661. (Paper)

Robust Distal Tip Cell Pathfinding in the Face of Temperature Stress Is Ensured by Two Conserved microRNAS in Caenorhabditis elegans.
Burke SL, Hammell M, Ambros V.   Genetics. 2015 Aug;200(4):1201-18. doi: 10.1534/genetics.115.179184. Epub 2015 Jun 15. PMID:26078280 [PubMed - in process].  (Paper)

Lv4 Is a Capsid-Specific Antiviral Activity in Human Blood Cells That Restricts Viruses of the SIVMAC/SIVSM/HIV-2 Lineage Prior to Integration
Pizzato  M,  McCauley SM,  Neagu MR,  Pertel T, Firrito C, Ziglio S, Dauphin A, Zufferey M, Berthoux L, Luban J.      PLoS Pathog.  2015 Jul 16;11(7):e1005050.  doi 10.1371/journal.ppat.1005050.  eCollection 2015.  PMID: 26181333.  PMCID:  PMC4504712.  (Paper)

POS-1 Promotes Endo-mesoderm Development by Inhibiting the Cytoplasmic Polyadenylation of neg-1 mRNA.
Elewa A, Shirayama M, Kaymak E, Harrison PF, Powell DR, Du Z, Chute CD, Woolf H, Yi D, Ishidate T, Srinivasan J, Bao Z, Beilharz TH, Ryder SP, Mello CC.  Dev Cell. 2015 Jun 17. pii: S1534-5807(15)00360-3. doi: 10.1016/j.devcel.2015.05.024.  [Epub ahead of print]  PMID: 26096734 [PubMed - as supplied by publisher].   (Paper)

Infection of ectocervical tissue and universal targeting of T-cells medicated by primary non-macrophage-tropic and highly macrophage-tropic HIV-1 R5 envelopes.
Peters PJ, Gonazlez-Perez MP, Musich T, Moore Simas TA, Lin R, Morse AN, Shattock RJ, Derdeyn CA, Clapham PR.   Retrovirology.  2015 Jun 9;12(1):48.  PMID: 26055104.  PMCID: PMC4459458.  (Paper)

Poised Regeneration of Zebrafish Melanocytes Involves Direct Differentiation and Concurrent Replenishment of Tissue-Resident Progenitor Cells.
Lyengar S, Kasheta M, Ceol CJ.  Developmental Cell 33, 1-13, June 22, 2015 (Paper)

A versatile reporter system for CRISPR-mediated chromosomal rearrangements.
Li Y, Park AI, Mou H, Colpan C, Bizhanova A, Akama-Garren E, Joshi N, Hendrickson EA, Feldser D, Yin H, Anderson DG, Jacks T, Weng Z, Xue W.  Genome Biol. 2015 May 28;16:111. doi: 10.1186/s13059-015-0680-7.  PMID: 26018130 [PubMed - indexed for MEDLINE].   (Paper)

Global genetic analysis in mice unveils central role for cilia in congenital heart disease.
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Intraflagellar transport 27 is essential for hedgehog signaling but dispensable for ciliogenesis during hair follicle morphogenesis.
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Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C.
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Biodistribution and function of extracellular miRNA-155 in mice.
Bala S, Csak T, Momen-Heravi F, Lippai D, Kodys K, Catalano D, Satishchandran A, Ambros V, Szabo G. Sci Rep. 2015 May 29;5:10721. doi: 10.1038/srep10721. PMID:26024046. PMCID:PMC4448655.  (Paper)

Caenorhabditis elegans microRNAs of the let-7 family act in innate immune response circuits and confer robust developmental timing against pathogen stress.
Ren Z, Ambros VR.   Proc Natl Acad Sci U S A. 2015 May 5;112(18):E2366-75. doi: 10.1073/pnas.1422858112. Epub 2015 Apr 20. PMID: 25897023. PMCID: PMC4426397 (Paper)

JNK-interacting protein 1 mediates Alzheimer's-like pathological features in AICD-transgenic mice.
Margevicius DR, Bastian C, Fan Q, Davis RJ, Pimplikar SW. Neurobiol Aging. 2015 Apr 30. pii: S0197-4580(15)00235-3. doi: 10.1016/j.neurobiolaging.2015.04.013. [Epub ahead of print]

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The lipid droplet protein Hypoxia-inducible gene 2 promotes hepatic triglyceride deposition by inhibiting lipolysis.
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Inducible deletion of protein kinase Map4k4 in obese mice improves insulin sensitivity in liver and adipose tissues.
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Structural basis for PI(4)P-specific membrane recruitment of the Legionella pneumophila effector DrrA/SidM.
Del Campo CM, Mishra AK, Wang YH, Roy CR, Janmey PA, Lambright DG.  Structure. 2014 Mar 4;22(3):397-408. doi: 10.1016/j.str.2013.12.018. Epub 2014 Feb 13. PMID: 24530282.  PMCID:  PMC3974903 (Paper)

Control of stem cell self-renewal and differentiation by the heterochronic genes and the cellular asymmetry machinery in Caenorhabditis elegans.
Harandi OF, Ambros VR.  Proc Natl Acad Sci USA. 2015 Jan 20;112(3):E287-96. doi: 10.1073/pnas.1422852112.  Epub 2015 Jan 5.  PMID: 25561544.  (Paper)

Direct interactions promote eviction of the Sir3 heterochromatin protein by the SWI/SNF chromatin remodeling enzyme.
Manning BJ, Peterson CL.  Proc Natl Acad Sci USA. 2014 Dec 16;111(50):17827-33. doi: 10.1073/pnas.1420096111. Epub 2014 Dec 1. PMID: 25453095. (Paper)

Suppression of pervasive noncoding transcription in embryonic stem cells by esBAF.
Hainer SJ, GU W, Carone BR, Landry BD, Rando OJ, Mello CC, Fazzio TG.  Genes Dev. 2015 Feb 15;29(4):362-78. doi: 10.1101/gad.253534.114  PMID: 25691467.  (Paper)

Hepatic acetyl CoA links adipose tissue inflammation to hepatic insulin resistance and type 2 diabetes
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Functional annotation of native enhancers with a Cas9-histone demethylase fusion.
Kearns NA, Pham H, Tabak B, Genga RM, Silverstein NJ, Garber M, Maehr R.  Nat Methods. 2015 Mar 16. doi: 10.1038/nmeth.3325. [Epub ahead of print]  PMID: 25775043 (Paper)

Ciliary proteins Bbs8 and Ift20 promote planar cell polarity in the cochlea.
May-Simera HL, Petralia RS, Montcouquiol M, Wang YX, Szarama KB, Liu Y, Lin W, Deans MR, Pazour GJ, Kelley MW. Development 2015 Feb Feb 1;142(3):555-66. doi: 10.1242/dev.113696.  PMID: 25605782 (Paper)

An efficient and sensitive method for preparing cDNA libraries from scarce biological samples.
Sterling CH, Veksler-Lublinsky I, Ambros V. Nucleic Acids Res. 2015 Jan;43(1):e1. doi: 10.1093/nar/gku637. Epub 2014 Jul 23.  PMID: 25056322 (Paper)

Chemical biology. A small-molecule inhibitor of the aberrant transcription factor CBFβ-SMMHC delays leukemia in mice.
Illendula A, Pulikkan JA, Zong H, Grembecka J, Xue L, Sen S, Zhou Y, Boulton A, Kuntimaddi A, Gao Y, Rajewski RA, Guzman ML, Castilla LH, Bushweller JH. 

Science. 2015 Feb 13;347(6223):779-84. doi: 10.1126/science.aaa0314.
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The genome and transcriptome of the zoonotic hookworm Ancylostoma ceylanicum identify infection-specific gene families.
Schwarz EM, Hu Y, Antoshechkin I,  Miller MM, Sternberg PW, Aroian RV. Nat Gent. 2015 Mar 2. doi: 10.1038/ng.3237 PMID: 25730766  (Paper)

The PPARα-FGF21 hormone axis contributes to metabolic regulation by the hepatic JNK signaling pathway.
Vernia S, Cavanagh-Kyros J, Garcia-Haro L, Sabio G, Barrett T, Jung DY, Kim JK, Xu J, Shulha HP, Garber M, Gao G, Davis RJ. Cell Metab. 2014 Sep 2;20(3):512-25. doi: 10.1016/j.cmet.2014.06.010. Epub 2014 Jul 17.
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The Ino80 complex prevents invasion of euchromatin into silent chromatin.
Xue Y, Van C, Pradhan SK, Su T, Gehrke J, Kuryan BG, Kitada T, Vashisht A, Tran N, Wohlschlegel J, Peterson CL, Kurdistani SK, Carey MF.
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Distinct functions for IFT140 and IFT20 in opsin transport.
Crouse JA, Lopes VS, Sanagustin JT, Keady BT, Williams DS, Pazour GJ.  Cytoskeleton (Hoboken). 2014 May;71(5):302-10. doi: 10.1002/cm.21173. Epub 2014 Mar 25.  PMID: 24619649 (Paper)

Adipocytes arise from multiple lineages that are heterogeneously and dynamically distributed.
Sanchez-Gurmaches J, Guertin DA.  Nat Commun. 2014 Jun 19;5:4099. doi: 10.1038/ncomms5099.  PMID: 24942009 [PubMed - indexed for MEDLINE] (Paper)

IFT27 Links the BBSome to IFT for Maintenance of the Ciliary Signaling Compartment.
Eguether T, San Agustin JT, Keady BT, Jonassen JA, Liang Y, Francis R, Tobita K, Johnson CA, Abdelhamed ZA, Lo CW, Pazour GJ. Dev Cell. 2014 Nov 10;31(3):279-90. doi: 10.1016/j.devcel.2014.09.011. Epub 2014 Oct 30. PMID: 25446516 (Paper)

CPEB-regulation of TAK1 Synthesis Mediates Cytokine Production and the Inflammatory Immune Response.
Ivshina M, Alexandrov IM, Vertii A, Doxsey S, Richter JD.  Mol Cell Biol. 2014 Dec 1. pii: MCB.00800-14. PMID: 25452303 (Paper)

Direct interactions promote eviction of the Sir3 heterochromatin protein by the SWI/SNF chromatin remodeling enzyme.
Manning BJ, Peterson CL.Proc Natl Acad Sci U S A. 2014 Dec 1. pii: 201420096.  PMID: 25453095 (Paper)

The conserved misshapen-warts-yorkie pathway acts in enteroblasts to regulate intestinal stem cells in Drosophila.
Li Q, Li S, Mana-Capelli S, Roth Flach RJ, Danai LV, Amcheslavsky A, Nie Y, Kaneko S, Yao X, Chen X, Cotton JL, Mao J, McCollum D, Jiang J, Czech MP, Xu L, Ip YT. Dev Cell. 2014 Nov 10;31(3):291-304. doi: 10.1016/j.devcel.2014.09.012. Epub 2014 Nov 10. (Paper)

A Negative Feedback Loop of Transcription Factors Specifies Alternative Dendritic Cell Chromatin States.
Bornstein C, Winter D, Barnett-Itzhaki Z, David E, Kadri S, Garber M, Amit I.  Mol Cell. 2014 Nov 20. pii: S1097-2765(14)00798-9. doi: 10.1016/j.molcel.2014.10.014. (Paper)

Control of adipose tissue expandability in response to high fat diet by the insulin-like growth factor-binding protein-4.
Gealekman O, Gurav K, Chouinard M, Straubhaar J, Thompson M, Malkani S, Hartigan C, Corvera S. J Biol Chem. 2014 Jun 27;289(26):18327-38. doi: 10.1074/jbc.M113.545798. Epub 2014 Apr 28.PMID: 24778188 (Paper)

miR-14 Regulates Autophagy during Developmental Cell Death by Targeting ip3-kinase 2.
Nelson C, Ambros V, Baehrecke EH. Mol Cell. 2014 Oct 8. pii: S1097-2765(14)00718-7. doi: 10.1016/j.molcel.2014.09.011. [Epub ahead of print] PMID: 25306920 (Paper)

NrasG12D oncoprotein inhibits apoptosis of preleukemic cells expressing Cbf?-SMMHC via activation of MEK/ERK axis.
Xue L, Pulikkan JA, Valk PJ, Castilla LH.  Blood. 2014 Jul 17;124(3):426-36. doi: 10.1182/blood-2013-12-541730. Epub 2014 Jun 3. PMID: 24894773 (Paper)

Enteroendocrine Cells Support Intestinal Stem-Cell-Mediated Homeostasis in Drosophila.
Amcheslavsky A, Song W, Li Q, Nie Y, Bragatto I, Ferrandon D, Perrimon N, Ip YT.  Cell Rep. 2014 Sep 24. pii: S2211-1247(14)00728-1. doi: 10.1016/j.celrep.2014.08.052. (Paper)

A Unique Set of Centrosome Proteins Requires Pericentrin for Spindle-Pole Localization and Spindle Orientation.
Chun-Ting Chen, Heidi Hehnly, Qing Yu, Debby Farkas, Guoqiang Zheng, Sambra D. Redick, Hui-Fang Hung, Rajeev Samtani, Agata Jurczyk, Schahram Akbarian, Carol Wise, Andrew Jackson, Michael Bober, Yin Guo, Cecilia Lo, and Stephen Doxsey (Paper)

A separable domain of the p150 subunit of human chromatin assembly factor-1 promotes protein and chromosome associations with nucleoli.
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IL-1 Signaling in Obesity-Induced Hepatic Lipogenesis and Steatosis.
Negrin KA, Roth Flach RJ, DiStefano MT, Matevossian A, Friedline RH, Jung D, Kim JK, Czech MP.  PLoS One. 2014 Sep 12;9(9):e107265. doi: 10.1371/journal.pone.0107265. eCollection 2014.  PMID: 25216251 (Paper)

A therapeutically targetable mechanism of BCR-ABL-independent imatinib resistance in chronic myeloid leukemia.
Ma L, Shan Y, Bai R, Xue L, Eide CA, Ou J, Zhu LJ, Hutchinson L, Cerny J, Khoury HJ, Sheng Z, Druker BJ, Li S, Green MR.  Sci Transl Med. 2014 Sep 3;6(252):252ra121. doi: 10.1126/scitranslmed.3009073.  PMID: 25186176 (Paper)

Solution-state conformation and stoichiometry of yeast Sir3 heterochromatin fibres.
Swygert SG, Manning BJ, Senapati S, Kaur P, Lindsay S, Demeler B, Peterson CL.  Nat Commun. 2014 Aug 28;5:4751. doi: 10.1038/ncomms5751. PMID: 25163529 (Paper)

Gene expression profiling identifies the zinc-finger protein Charlatan as a regulator of intestinal stem cells in Drosophila.Amcheslavsky A, Nie Y, Li Q, He F, Tsuda L, Markstein M, Ip YT. Development. 2014 Jul;141(13):2621-32. doi: 10.1242/dev.106237. PMID: 24961799 (Paper)

The HP1 homolog rhino anchors a nuclear complex that suppresses piRNA precursor splicing.
Zhang Z, Wang J, Schultz N, Zhang F, Parhad SS, Tu S, Vreven T, Zamore PD, Weng Z, Theurkauf WE.  Cell. 2014 Jun 5;157 (Paper)

Circulating microRNA profiles in human patients with acetaminophen hepatotoxicity or ischemic hepatitis.
Ward J, Kanchagar C, Veksler-Lublinsky I, Lee RC, McGill MR, Jaeschke H, Curry SC, Ambros VR.  Proc Natl Acad Sci U S A. 2014 Aug 4. pii: 201412608. [Epub ahead of print]  PMID: 25092309 (Paper)

The Embryonic mir-35 Family of MicroRNAs Promotes Multiple Aspects of Fecundity in C. elegans.
McJunkin K, Ambros V.  G3 (Bethesda). 2014 Jul 21. pii: g3.114.011973. doi: 10.1534/g3.114.011973. [Epub ahead of print]  PMID: 25053708 (Paper)

The PPARα-FGF21 Hormone Axis Contributes to Metabolic Regulation by the Hepatic JNK Signaling Pathway.
Vernia S, Cavanagh-Kyros J, Garcia-Haro L, Sabio G, Barrett T, Jung DY, Kim JK, Xu J, Shulha HP, Garber M, Gao G, Davis RJ.  Cell Metab. 2014 Jul 15. (Paper)

Rictor/mTORC2 Loss in the Myf5 Lineage Reprograms Brown Fat Metabolism and Protects Mice against Obesity and Metabolic Disease.
Hung CM, Calejman CM, Sanchez-Gurmaches J, Li H, Clish CB, Hettmer S, Wagers AJ, Guertin DA. (Paper)

A single vertebrate DNA virus protein disarms invertebrate immunity to RNA virus infection.
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Gene expression profiling identifies the zinc-finger protein Charlatan as a regulator of intestinal stem cells in Drosophila.
Amcheslavsky A, Nie Y, Li Q, He F, Tsuda L, Markstein M, Ip YT. (Paper)

Adipocytes arise from multiple lineages that are heterogeneously and dynamically distributed.
Sanchez-Gurmaches J, Guertin DA. Nat Commun. 2014 Jun 19;5:4099. doi: 10.1038/ncomms5099. PMID: 24942009 (Paper)

Local proliferation of macrophages contributes to obesity-associated adipose tissue inflammation.
Amano SU, Cohen JL, Vangala P, Tencerova M, Nicoloro SM, Yawe JC, Shen Y, Czech MP, Aouadi M.Cell Metab. 2014 Jan 7;19(1):162-71. doi: 10.1016/j.cmet.2013.11.017. Epub 2013 Dec 26. PMID: 24374218(Paper)

Role of the mixed-lineage protein kinase pathway in the metabolic stress response to obesity.
Kant S, Barrett T, Vertii A, Noh YH, Jung DY, Kim JK, Davis RJ. Cell Rep. 2013 Aug 29;4(4):681-8. doi: 10.1016/j.celrep.2013.07.019. Epub 2013 Aug 15. PMID: 23954791 [PubMed](Paper)

Cas9 effector-mediated regulation of transcription and differentiation in human pluripotent stem cells.
Kearns NA, Genga RM, Enuameh MS, Garber M, Wolfe SA, Maehr R. Development. 2014 Jan;141(1):219-23. doi: 10.1242/dev.103341. PMID: 24346702 [PubMed - indexed for MEDLINE] (Paper)

EBV Latent Membrane Protein 1 genetic variability in peripheral blood B cells and oropharyngeal fluids.
Renzette N, Somasundaran M, Brewster F, Coderre J, Weiss ER, McManus M, Greenough T, Tabak B, Garber M, Kowalik TF, Luzuriaga K. J Virol. 2014 Jan 15. [Epub ahead of print] PMID: 24429365 (Paper)

Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals.
Washietl S, Kellis M, Garber M.Genome Res. 2014 Jan 15. [Epub ahead of print] PMID:24429298 (Paper)

Distinct functions for IFT140 and IFT20 in opsin transport.
Crouse JA, Lopes VS, Sanagustin JT, Keady BT, Williams DS, Pazour GJ.  Cytoskeleton (Hoboken). 2014 Mar 12. doi: 10.1002/cm.21173. [Epub ahead of print] PMID: 24619649 [PubMed - as supplied by publisher] (Paper)

A KRAS-directed transcriptional silencing pathway that mediates the CpG island methylator phenotype.
Serra RW, Fang M, Park SM, Hutchinson L, Green MR.  Elife. 2014 Mar 12;3:e02313. doi: 10.7554/eLife.02313.  PMID: 24623306 [PubMed] (Paper)

Arf4 is required for Mammalian development but dispensable for ciliary assembly.
Follit JA, San Agustin JT, Jonassen JA, Huang T, Rivera-Perez JA, Tremblay KD, Pazour GJ.   PLoS Genet. 2014 Feb 20;10(2):e1004170. doi: 10.1371/journal.pgen.1004170. eCollection 2014 Feb. PMID: 24586199 (Paper)

EBV Latent Membrane Protein 1 genetic variability in peripheral blood B cells and oropharyngeal fluids.
Renzette N, Somasundaran M, Brewster F, Coderre J, Weiss ER, McManus M, Greenough T, Tabak B, Garber M, Kowalik TF, Luzuriaga K. J Virol. 2014 Jan 15. (Paper)

Interspecies systems biology uncovers metabolites affecting C. elegans gene expression and life history traits.
Watson E, Macneil LT, Ritter AD, Yilmaz LS, Rosebrock AP, Caudy AA, Walhout AJ.  Cell. 2014 Feb 13;156(4):759-70. doi: 10.1016/j.cell.2014.01.047. PMID: 24529378 (Paper)

Rab11 Endosomes Contribute to Mitotic Spindle Organization and Orientation.
Hehnly H, Doxsey S. Dev Cell. 2014 Feb 18. pii: S1534-5807(14)00037-9. doi: 10.1016/j.devcel.2014.01.014. PMID: 24561039 (Paper)


Argonautes promote male fertility and provide a paternal memory of germline gene expression in C. elegans.
Conine CC, Moresco JJ, Gu W, Shirayama M, Conte D Jr, Yates JR 3rd, Mello CC.

Cell. 2013 Dec 19;155(7):1532-44. doi: 10.1016/j.cell.2013.11.032. PMID: 24360276 (Paper)

Genetic and acute CPEB1 depletion ameliorate fragile X pathophysiology.
Udagawa T, Farny NG, Jakovcevski M, Kaphzan H, Alarcon JM, Anilkumar S, Ivshina M, Hurt JA, Nagaoka K, Nalavadi VC, Lorenz LJ, Bassell GJ, Akbarian S, Chattarji S, Klann E, Richter JD. Nat Med. 2013 Nov;19(11):1473-7. doi: 10.1038/nm.3353. Epub 2013 Oct 20.

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Gudu, an Armadillo repeat-containing protein, is required for spermatogenesis in Drosophila.
Cheng W, Ip YT, Xu Z.  Gene. 2013 Dec 1;531(2):294-300. doi: 10.1016/j.gene.2013.08.080. Epub 2013 Sep 17. PMID: 24055424 [PubMed - indexed for MEDLINE] (Paper)

Diet-induced obesity mediated by the JNK/DIO2 signal transduction pathway.
Vernia S, Cavanagh-Kyros J, Barrett T, Jung DY, Kim JK, Davis RJ.  Genes Dev. 2013 Nov 1;27(21):2345-55. doi: 10.1101/gad.223800.113. PMID: 24186979 [PubMed - indexed for MEDLINE] (Paper)

Argonautes Promote Male Fertility and Provide a Paternal Memory of Germline Gene Expression in C. elegans.
Conine CC, Moresco JJ, Gu W, Shirayama M, Conte D Jr, Yates JR 3rd, Mello CC. Cell. 2013 Dec 19;155(7):1532-44. doi: 10.1016/j.cell.2013.11.032. PMID: 24360276 [PubMed - in process] (Paper)

The C. elegans CSR-1 Argonaute Pathway Counteracts Epigenetic Silencing to Promote Germline Gene Expression.
Seth M, Shirayama M, Gu W, Ishidate T, Conte D Jr, Mello CC. Dev Cell. 2013 Dec 18. pii: S1534-5807(13)00695-3. doi: 10.1016/j.devcel.2013.11.014. [Epub ahead of print] (Paper)

Using networks to measure similarity between genes: association index selection.
Fuxman Bass JI, Diallo A, Nelson J, Soto JM, Myers CL, Walhout AJ. Nat Methods. 2013 Nov 26;10(12):1169-76. doi: 10.1038/nmeth.2728. PMID: 24296474 Paper

Hdac6 regulates Tip60-p400 function in stem cells
Chen PB, Hung JH, Hickman TL, Coles AH, Carey JF, Weng Z, Chu F, Fazzio TG.   Elife. 2013 Dec 4;2(0):e01557. doi: 10.7554/eLife.01557. PMID: 24302573 Paper

Absence of Detectable HIV-1 Viremia after Treatment Cessation in an Infant.
Persaud D, Gay H, Ziemniak C, Chen YH, Piatak M, Chun TW, Strain M, Richman D, Luzuriaga K.N Engl J Med. 2013 Oct 23.Paper

Structural basis for membrane recruitment and allosteric activation of cytohesin family Arf GTPase exchange factors.
Malaby AW, van den Berg B, Lambright DG. Proc Natl Acad Sci U S A. 2013 Aug 12. [Epub ahead of print] PMID: 23940353 [PubMed - as supplied by publisher] Paper

Chemical screening identifies filastatin, a small molecule inhibitor of Candida albicans adhesion, morphogenesis, and pathogenesis.
Fazly A, Jain C, Dehner AC, Issi L, Lilly EA, Ali A, Cao H, Fidel PL, P Rao R, Kaufman PD. Chemical screening identifies filastatin, a small molecule inhibitor of Candida albicans adhesion, morphogenesis, and pathogenesis. Proc Natl Acad Sci U S A. 2013 Aug 13; 110(33):13594-9. Paper

Generation of organized anterior foregut epithelia from pluripotent stem cells using small molecules
Kearns NA, Genga RM, Ziller M, Kapinas K, Peters H, Brehm MA, Meissner A, Maehr R. Stem Cell Res. 2013 Jun 29;11(3):1003-1012. doi: 10.1016/j.scr.2013.06.007. [Epub ahead of print] Paper

Gene silencing in adipose tissue macrophages regulates whole-body metabolism in obese mice.
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A histone acetylation switch regulates H2A.Z deposition by the SWR-C remodeling enzyme.
Watanabe S, Radman-Livaja M, Rando OJ, Peterson CL. Science. 2013 Apr 12;340(6129):195-9. Paper

CapSeq and CIP-TAP identify Pol II start sites and reveal capped small RNAs as C. elegans piRNA precursors.
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Efficiency of bridging-sheet recruitment explains HIV-1 R5 envelope glycoprotein sensitivity to soluble CD4 and macrophage tropism.

O'Connell O, Repik A, Reeves JD, Gonzalez-Perez MP, Quitadamo B, Anton ED, Duenas-Decamp M, Peters P, Lin R, Zolla-Pazner S, Corti D, Wallace A, Wang S, Kong XP, Lu S, Clapham PR. J Virol. 2013 Jan;87(1):187-98. doi: 10.1128/JVI.01834-12. Epub 2012 Oct 10. PMID: 23055568 [PubMed - indexed for MEDLINE] Paper

HERV-H RNA is abundant in human embryonic stem cells and a precise marker for pluripotency.
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A Synthetic Interaction Screen Identifies Factors Selectively Required for Proliferation and TERT Transcription in p53-Deficient Human Cancer Cells.
Xie L, Gazin C, Park SM, Zhu LJ, Debily MA, Kittler EL, Zapp ML, Lapointe D, Gobeil S, Virbasius CM, Green MR. PLoS Genet. 2012 Dec; Epub 2012 Dec 20. Paper

β3-adrenergic receptor stimulation induces E-selectin-mediated adipose tissue inflammation.
Roth Flach RJ, Matevossian A, Akie TE, Negrin KA, Paul MT, Czech MP. J Biol Chem. 2012 Dec 12 Paper

Translational control of mitochondrial energy production mediates neuron morphogenesis.
Oruganty-Das A, Ng T, Udagawa T, Goh EL, Richter JD. Cell Metab. 2012 Dec 12 Paper

JNK Expression by Macrophages Promotes Obesity-Induced Insulin Resistance and Inflammation.
Han MS, Jung DY, Morel C, Lakhani SA, Kim JK, Flavell RA, Davis RJ. Science. 2012 Dec 6 Paper

Specific miRNA Stabilization by Gld2-Catalyzed Monoadenylation.
D'Ambrogio A, Gu W, Udagawa T, Mello CC, Richter JD. Cell Rep. 2012 Nov 28. doi:pii: S2211-1247. Paper

Identification of Map4k4 as a novel suppressor of skeletal muscle differentiation.
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An MBoC Favorite: Role of GTP hydrolysis in microtubule dynamics: information from a slowly hydrolyzable analogue, GMPCPP.
Chen CT, Doxsey SJ. Mol Biol Cell. 2012 Oct;23(19):3775. Paper

PTEN loss in the Myf5 lineage redistributes body fat and reveals subsets of white adipocytes that arise from Myf5 precursors.
Sanchez-Gurmaches J, Hung CM, Sparks CA, Tang Y, Li H, Guertin DA. Cell Metab. 2012 Sep 5;16(3):348-62. Paper

Transcription factor ATF5 is required for terminal differentiation and survival of olfactory sensory neurons.
Wang SZ, Ou J, Zhu LJ, Green MR. Proc Natl Acad Sci U S A. 2012 Oct 22. Paper

An Unusual Two Step Control of CPEB Destruction by Pin1.
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JNK and PTEN cooperatively control the development of invasive adenocarcinoma of the prostate.
Hübner A, Mulholland DJ, Standen CL, Karasarides M, Cavanagh-Kyros J, Barrett T, Chi H, Greiner DL, Tournier C, Sawyers CL, Flavell RA, Wu H, Davis RJ. Proc Natl Acad Sci U S A. 2012 Jul 24;109(30):12046-51. Paper


Functional cooperation of the proapoptotic Bcl2 family proteins Bmf and Bim in vivo.
Hübner A, Cavanagh-Kyros J, Rincon M, Flavell RA, Davis RJ.  Mol Cell Biol. 2010 Jan;30(1):98-105.

The Argonaute CSR-1 and its 22G-RNA cofactors are required for holocentric chromosome segregation

Claycomb JM, Batista PJ, Pang KM, Gu W, Vasale JJ, van Wolfswinkel JC, Chaves DA, Shirayama M, Mitani S, Ketting RF, Conte D Jr, Mello CC.  Cell. 2009 Oct 2;139(1):123-34.

Distinct argonaute-mediated 22G-RNA pathways direct genome surveillance in the C. elegans germline.

Gu W, Shirayama M, Conte D Jr, Vasale J, Batista PJ, Claycomb JM, Moresco JJ, Youngman EM, Keys J, Stoltz MJ, Chen CC, Chaves DA, Duan S, Kasschau KD, Fahlgren N, Yates JR 3rd, Mitani S, Carrington JC, Mello CC.  Mol Cell. 2009 Oct 23;36(2):231-44. Epub 2009 Oct 1.

Recombinational repair within heterochromatin requires ATP-dependent chromatin remodeling.

Sinha M, Watanabe S, Johnson A, Moazed D, Peterson CL.  Cell. 2009 Sep 18;138(6):1109-21.

Nutrient stress activates inflammation and reduces glucose metabolism by suppressing AMP-activated protein kinase in the heart.

Ko HJ, Zhang Z, Jung DY, Jun JY, Ma Z, Jones KE, Chan SY, Kim JK. Diabetes. 2009 Nov;58(11):2536-46. Epub 2009 Aug 18.

Signal transduction cross talk mediated by Jun N-terminal kinase-interacting protein and insulin receptor substrate scaffold protein complexes.

Standen CL, Kennedy NJ, Flavell RA, Davis RJ. Mol Cell Biol. 2009 Sep;29(17):4831-40. Epub 2009 Jun 29.

Mcl-1 integrates the opposing actions of signaling pathways that mediate survival and apoptosis.

Morel C, Carlson SM, White FM, Davis RJ.  Mol Cell Biol. 2009 Jul;29(14):3845-52. Epub 2009 May 11.

Mechanisms that regulate localization of a DNA double-strand break to the nuclear periphery.

Oza P, Jaspersen SL, Miele A, Dekker J, Peterson CL.Genes Dev. 2009 Apr 15;23(8):912-27.

A multiparameter network reveals extensive divergence between C. elegans bHLH transcription factors. 

Grove CA, De Masi F, Barrasa MI, Newburger DE, Alkema MJ, Bulyk ML, Walhout AJ. Cell. 2009 Jul 23;138(2):314-27.

Induction of hepatitis by JNK-mediated expression of TNF-alpha.

Das M, Sabio G, Jiang F, Rincón M, Flavell RA, Davis RJ. Cell. 2009 Jan 23;136(2):249-60.

Transmembrane passage of hydrophobic compounds through a protein channel wall.

Hearn EM, Patel DR, Lepore BW, Indic M, van den Berg B.  Nature. 2009 Mar 19;458(7236):367-70. Epub 2009 Feb 1.

Orally delivered siRNA targeting macrophage Map4k4 suppresses systemic inflammation.

Aouadi M, Tesz GJ, Nicoloro SM, Wang M, Chouinard M, Soto E, Ostroff GR, Czech MP. Nature. 2009 Apr 30;458(7242):1180-4.

Three distinct condensin complexes control C. elegans chromosome dynamics.

Csankovszki G, Collette K, Spahl K, Carey J, Snyder M, Petty E, Patel U, Tabuchi T, Liu H, McLeod I, Thompson J, Sarkesik A, Yates J, Meyer BJ, Hagstrom K. Curr Biol. 2009 Jan 13;19(1):9-19.; PM ID: 19119011 [PubMed - in process]

An essential role for the RNA-binding protein Smaug during the Drosophila maternal-to-zygotic transition.

Benoit B, He CH, Zhang F, Votruba SM, Tadros W, Westwood JT, Smibert CA, Lipshitz HD, Theurkauf WE.  Development. 2009 Mar;136(6):923-32. PMID: 19234062 [PubMed - in process]

Dynein light intermediate chain 1 is required for progress through the spindle assembly checkpoint. 

Sivaram MV, Wadzinski TL, Redick SD, Manna T, Doxsey SJ.  EMBO J. 2009 Feb 19. [Epub ahead of print] PMID: 19229290 [PubMed - as supplied by publisher]

A last-minute rescue of trapped chromatin.

Chen CT, Doxsey S.Cell. 2009 Feb 6;136(3):397-9. PMID: 19203574 [PubMed - indexed for MEDLINE]

mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein-enriched transcripts.

Hammell M, Long D, Zhang L, Lee A, Carmack CS, Han M, Ding Y, Ambros V.Nat Methods. 2008 Sep;5(9):813-9.PMID: 19160516 [PubMed - indexed for MEDLINE]

Chapter 5 targeting proteins to the ciliary membrane.

Pazour GJ, Bloodgood RA.  Curr Top Dev Biol. 2008;85:115-49.PMID: 19147004 [PubMed - in process]

The ESCRT pathway and HIV-1 budding. 

Usami Y, Popov S, Popova E, Inoue M, Weissenhorn W, G Göttlinger H. 
Biochem Soc Trans. 2009 Feb;37(Pt 1):181-4.PMID: 19143627 [PubMed - indexed for MEDLINE]

CPEB regulation of human cellular senescence, energy metabolism, and p53 mRNA translation.

Burns DM, Richter JD.Genes Dev. 2008 Dec 15;22(24):3449-60.PMID: 19141477 [PubMed - indexed for MEDLINE]

Making synaptic plasticity and memory last: mechanisms of translational regulation.

Richter JD, Klann E.  Genes Dev. 2009 Jan 1;23(1):1-11. Review.PMID: 19136621 [PubMed - indexed for MEDLINE]

Determinants flanking the CD4 binding loop modulate macrophage-tropism of HIV-1 R5 envelopes.

Duenas-Decamp MJ, Peters P, Burton D, Clapham PR.  J Virol. 2009 Jan 7. [Epub ahead of print] PMID: 19129457 [PubMed - as supplied by publisher]

Tissue damage-induced intestinal stem cell division in Drosophila.

Amcheslavsky A, Jiang J, Ip YT.Cell Stem Cell. 2009 Jan 9;4(1):49-61.PMID: 19128792 [PubMed - indexed for MEDLINE]

The Golgin GMAP210/TRIP11 anchors IFT20 to the Golgi complex.

Follit JA, San Agustin JT, Xu F, Jonassen JA, Samtani R, Lo CW, Pazour GJ.  PLoS Genet. 2008 Dec;4(12):e1000315. Epub 2008 Dec 26.PMID: 19112494 [PubMed - indexed for MEDLINE]

Plugging gp120s cavity.

Repik A, Clapham PR.  Structure. 2008 Nov 12;16(11):1603-4. PMID: 19000812 [PubMed - indexed for MEDLINE]

Deletion of IFT20 in the mouse kidney causes misorientation of the mitotic spindle and cystic kidney disease.

Jonassen JA, San Agustin J, Follit JA, Pazour GJ.  J Cell Biol. 2008 Nov 3;183(3):377-84.PMID: 18981227 [PubMed - indexed for MEDLINE]

Sorting of EGF and transferrin at the plasma membrane and by cargo-specific signaling to EEA1-enriched endosomes.

Leonard D, Hayakawa A, Lawe D, Lambright D, Bellve KD, Standley C, Lifshitz LM, Fogarty KE, Corvera S.  J Cell Sci. 2008 Oct 15;121(Pt 20):3445-58. Epub 2008 Sep 30.PMID: 18827013 [PubMed - indexed for MEDLINE]

The FLYWCH transcription factors FLH-1, FLH-2, and FLH-3 repress embryonic expression of microRNA genes in C. elegans.

Ow MC, Martinez NJ, Olsen PH, Silverman HS, Barrasa MI, Conradt B, Walhout AJ, Ambros V.  Genes Dev. 2008 Sep 15;22(18):2520-34.PMID: 18794349 [PubMed - indexed for MEDLINE]

Enhanced angiogenesis in obesity and in response to PPARgamma activators through adipocyte VEGF and ANGPTL4 production.

Gealekman O, Burkart A, Chouinard M, Nicoloro SM, Straubhaar J, Corvera S.Am J Physiol Endocrinol Metab. 2008 Nov;295(5):E1056-64. Epub 2008 Aug 26.PMID: 18728224 [PubMed - indexed for MEDLINE]

A molecular circuit composed of CPEB-1 and c-Jun controls growth hormone-mediated synaptic plasticity in the mouse hippocampus.

Zearfoss NR, Alarcon JM, Trifilieff P, Kandel E, Richter JD.  J Neurosci. 2008 Aug 20;28(34):8502-9.PMID: 18716208 [PubMed - indexed for MEDLINE

mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein-enriched transcripts.

Hammell M, Long D, Zhang L, Lee A, Carmack CS, Han M, Ding Y, Ambros V.  Nat Methods. 2008 Sep;5(9):813-819. Epub 2008 Aug 17.PMID: 18711361 [PubMed - as supplied by publisher]

Evidence for a pathogenic determinant in HIV-1 Nef involved in B cell dysfunction in HIV/AIDS.

Swingler S, Zhou J, Swingler C, Dauphin A, Greenough T, Jolicoeur P, Stevenson M.  Cell Host Microbe. 2008 Jul 17;4(1):63-76. PMID: 18621011 [PubMed - indexed for MEDLINE]

Crystal structure of the outer membrane protein OpdK from Pseudomonas aeruginosa.

Biswas S, Mohammad MM, Movileanu L, van den Berg B.Structure. 2008 Jul;16(7):1027-35.PMID: 18611376 [PubMed - indexed for MEDLINE]

PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans. 

Batista PJ, Ruby JG, Claycomb JM, Chiang R, Fahlgren N, Kasschau KD, Chaves DA, Gu W, Vasale JJ, Duan S, Conte D Jr, Luo S, Schroth GP, Carrington JC, Bartel DP, Mello CC
Mol Cell. 2008 Jul 11;31(1):67-78. Epub 2008 Jun 19.PMID: 18571452 [PubMed - indexed for MEDLINE]

A Rad51 presynaptic filament is sufficient to capture nucleosomal homology during recombinational repair of a DNA double-strand break.

Sinha M, Peterson CL.  Mol Cell. 2008 Jun 20;30(6):803-10.PMID: 18570881 [PubMed - indexed for MEDLINE]

Outer-membrane transport of aromatic hydrocarbons as a first step in biodegradation.

Hearn EM, Patel DR, van den Berg B.  Proc Natl Acad Sci U S A. 2008 Jun 24;105(25):8601-6. Epub 2008 Jun 16.PMID: 18559855 [PubMed - indexed for MEDLINE]

Preferential utilization of Imp7/8 in nuclear import of Smads.

Yao X, Chen X, Cottonham C, Xu LJ Biol Chem. 2008 Aug 15;283(33):22867-74. Epub 2008 Jun 2.PMID: 18519565 [PubMed - indexed for MEDLINE]

Cidea is associated with lipid droplets and insulin sensitivity in humans. 

Puri V, Ranjit S, Konda S, Nicoloro SM, Straubhaar J, Chawla A, Chouinard M, Lin C, Burkart A, Corvera S, Perugini RA, Czech MP.  Proc Natl Acad Sci U S A. 2008 Jun 3;105(22):7833-8. Epub 2008 May 28.PMID: 18509062 [PubMed - indexed for MEDLINE]

Primate lentiviral Vpx commandeers DDB1 to counteract a macrophage restriction.

Sharova N, Wu Y, Zhu X, Stranska R, Kaushik R, Sharkey M, Stevenson M.PLoS Pathog. 2008 May 2;4(5):e1000057.PMID: 18451984 [PubMed - indexed for MEDLINE]

A Rictor-Myo1c complex participates in dynamic cortical actin events in 3T3-L1 adipocytes.

Hagan GN, Lin Y, Magnuson MA, Avruch J, Czech MP.  Mol Cell Biol. 2008 Jul;28(13):4215-26. Epub 2008 Apr 21.PMID: 18426911 [PubMed - indexed for MEDLINE]

Adipocyte dysfunctions linking obesity to insulin resistance and type 2 diabetes.

Guilherme A, Virbasius JV, Puri V, Czech MP.  Nat Rev Mol Cell Biol. 2008 May;9(5):367-77. Review.PMID: 18401346 [PubMed - indexed for MEDLINE]

Chromatin immunoprecipitation (ChIP) coupled to detection by quantitative real-time PCR to study transcription factor binding to DNA in Caenorhabditis elegans.

Mukhopadhyay A, Deplancke B, Walhout AJ, Tissenbaum HA.  Nat Protoc. 2008;3(4):698-709.PMID: 18388953 [PubMed - indexed for MEDLINE]

Natural resistance of human immunodeficiency virus type 1 to the CD4bs antibody b12 conferred by a glycan and an arginine residue close to the CD4 binding loop.

Duenas-Decamp MJ, Peters P, Burton D, Clapham PR.  J Virol. 2008 Jun;82(12):5807-14. Epub 2008 Apr 2.PMID: 18385254 [PubMed - indexed for MEDLINE]

Characterization of multilayered nanoparticles encapsulated in yeast cell wall particles for DNA delivery.

Soto ER, Ostroff GR.  Bioconjug Chem. 2008 Apr;19(4):840-8. Epub 2008 Apr 1. PMID: 18376856 [PubMed - indexed for MEDLINE]

A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system.

Noyes MB, Meng X, Wakabayashi A, Sinha S, Brodsky MH, Wolfe SA.
Nucleic Acids Res. 2008 May;36(8):2547-60. Epub 2008 Mar 10. PMID: 18332042 [PubMed - indexed for MEDLINE]

Genetics. Dwarfism, where pericentrin gains stature.

Delaval B, Doxsey S.  Science. 2008 Feb 8;319(5864):732-3. No abstract available. PMID: 18258883 [PubMed - indexed for MEDLINE]

Variation in HIV-1 R5 macrophage-tropism correlates with sensitivity to reagents that block envelope: CD4 interactions but not with sensitivity to other entry inhibitors.

Peters PJ, Duenas-Decamp MJ, Sullivan WM, Brown R, Ankghuambom C, Luzuriaga K, Robinson J, Burton DR, Bell J, Simmonds P, Ball J, Clapham PR.  Retrovirology. 2008 Jan 18;5:5 PMID: 18205925 [PubMed - indexed for MEDLINE]

Identification and characterization of HIV-1 CD8+ T cell escape variants with impaired fitness.

Sanchez-Merino V, Farrow MA, Brewster F, Somasundaran M, Luzuriaga K.  J Infect Dis. 2008 Jan 15;197(2):300-8. PMID: 18177249 [PubMed - indexed for MEDLINE