| Year |
Citation |
Score |
| 2023 |
Heller HC, Herzog E, Brager A, Poe G, Allada R, Scheer F, Carskadon M, de la Iglesia HO, Jang R, Montero A, Wright K, Mouraine P, Walker MP, Goel N, Hogenesch J, et al. The Negative Effects of Travel on Student Athletes Through Sleep and Circadian Disruption. Journal of Biological Rhythms. 7487304231207330. PMID 37978840 DOI: 10.1177/07487304231207330 |
0.608 |
|
| 2023 |
Hammarlund JA, Li SY, Wu G, Lian JW, Howell SJ, Clarke R, Adamson A, Gonçalves CF, Hogenesch JB, Meng QJ, Anafi RC. Subtype-specific circadian clock dysregulation modulates breast cancer biology, invasiveness, and prognosis. Biorxiv : the Preprint Server For Biology. PMID 37293090 DOI: 10.1101/2023.05.17.540386 |
0.73 |
|
| 2023 |
Schwartz PB, Nukaya M, Berres ME, Rubinstein CD, Wu G, Hogenesch JB, Bradfield CA, Ronnekleiv-Kelly SM. The circadian clock is disrupted in pancreatic cancer. Plos Genetics. 19: e1010770. PMID 37262074 DOI: 10.1371/journal.pgen.1010770 |
0.722 |
|
| 2023 |
Koritala BSC, Lee YY, Gaspar LS, Bhadri SS, Su W, Wu G, Francey LJ, Ruben MD, Gong MC, Hogenesch JB, Smith DF. Obstructive sleep apnea in a mouse model is associated with tissue-specific transcriptomic changes in circadian rhythmicity and mean 24-hour gene expression. Plos Biology. 21: e3002139. PMID 37252926 DOI: 10.1371/journal.pbio.3002139 |
0.741 |
|
| 2023 |
Cal-Kayitmazbatir S, Francey LJ, Lee Y, Liu AC, Hogenesch JB. PSMD11 modulates circadian clock function through PER and CRY nuclear translocation. Plos One. 18: e0283463. PMID 36961772 DOI: 10.1371/journal.pone.0283463 |
0.826 |
|
| 2022 |
Swanson GR, Biglin M, Raff H, Chouhan V, Jochum S, Shaikh M, Francey L, Bishehsari F, Hogenesch J, Keshavarzian A. IMPACT OF CHRONOTHERAPY ON 6-MERCAPTOPURINE METABOLITES IN INFLAMMATORY BOWEL DISEASE: A PILOT CROSSOVER TRIAL. Clinical and Translational Gastroenterology. PMID 36730289 DOI: 10.14309/ctg.0000000000000549 |
0.65 |
|
| 2022 |
Lee YY, Endale M, Wu G, Ruben MD, Francey LJ, Morris AR, Choo NY, Anafi RC, Smith DF, Liu AC, Hogenesch JB. Integration of genome-scale data identifies candidate sleep regulators. Sleep. PMID 36462188 DOI: 10.1093/sleep/zsac279 |
0.78 |
|
| 2022 |
Wu G, Ruben MD, Francey LJ, Lee YY, Anafi RC, Hogenesch JB. An in silico genome-wide screen for circadian clock strength in human samples. Bioinformatics (Oxford, England). PMID 36321857 DOI: 10.1093/bioinformatics/btac686 |
0.833 |
|
| 2022 |
Lee YY, Cal-Kayitmazbatir S, Francey LJ, Bahiru MS, Hayer KE, Wu G, Zeller MJ, Roberts R, Speers J, Koshalek J, Berres ME, Bittman EL, Hogenesch JB. is a null mutation of Cryptochrome 1 in Syrian hamsters. Proceedings of the National Academy of Sciences of the United States of America. 119: e2123560119. PMID 35471909 DOI: 10.1073/pnas.2123560119 |
0.699 |
|
| 2022 |
Zhang T, Du X, Gu Y, Dong Y, Zhang W, Yuan Z, Huang X, Zou C, Zhou Y, Liu Z, Tao H, Yang L, Wu G, Hogenesch JB, Zhou CJ, et al. Analysis of Diurnal Variations in Heart Rate: Potential Applications for Chronobiology and Cardiovascular Medicine. Frontiers in Physiology. 13: 835198. PMID 35350693 DOI: 10.3389/fphys.2022.835198 |
0.314 |
|
| 2021 |
Shen Y, Endale M, Wang W, Morris AR, Francey LJ, Harold RL, Hammers DW, Huo Z, Partch CL, Hogenesch JB, Wu ZH, Liu AC. NF-κB modifies the mammalian circadian clock through interaction with the core clock protein BMAL1. Plos Genetics. 17: e1009933. PMID 34807912 DOI: 10.1371/journal.pgen.1009933 |
0.809 |
|
| 2021 |
Wu G, Francey LJ, Ruben MD, Hogenesch JB. Normalized coefficient of variation (nCV): a method to evaluate circadian clock robustness in population scale data. Bioinformatics (Oxford, England). PMID 34726689 DOI: 10.1093/bioinformatics/btab731 |
0.755 |
|
| 2021 |
Rosselot AE, Park M, Kim M, Matsu-Ura T, Wu G, Flores DE, Subramanian KR, Lee S, Sundaram N, Broda TR, McCauley HA, Hawkins JA, Chetal K, Salomonis N, Shroyer NF, ... ... Hogenesch JB, et al. Ontogeny and function of the circadian clock in intestinal organoids. The Embo Journal. e106973. PMID 34704277 DOI: 10.15252/embj.2020106973 |
0.448 |
|
| 2021 |
Lahens NF, Brooks TG, Sarantopoulou D, Nayak S, Lawrence C, Mrčela A, Srinivasan A, Schug J, Hogenesch JB, Barash Y, Grant GR. CAMPAREE: a robust and configurable RNA expression simulator. Bmc Genomics. 22: 692. PMID 34563123 DOI: 10.1186/s12864-021-07934-2 |
0.635 |
|
| 2021 |
Stokes K, Nunes M, Trombley C, Flôres DEFL, Wu G, Taleb Z, Alkhateeb A, Banskota S, Harris C, Love OP, Khan WI, Rueda L, Hogenesch JB, Karpowicz P. The circadian clock gene, Bmal1, regulates intestinal stem cell signaling and represses tumor initiation. Cellular and Molecular Gastroenterology and Hepatology. PMID 34534703 DOI: 10.1016/j.jcmgh.2021.08.001 |
0.486 |
|
| 2021 |
Wu G, Lee YY, Gulla EM, Potter A, Kitzmiller J, Ruben MD, Salomonis N, Whitsett JA, Francey LJ, Hogenesch JB, Smith DF. Short-term exposure to intermittent hypoxia leads to changes in gene expression seen in chronic pulmonary disease. Elife. 10. PMID 33599610 DOI: 10.7554/eLife.63003 |
0.73 |
|
| 2020 |
Wu G, Ruben MD, Francey LJ, Smith DF, Sherrill JD, Oblong JE, Mills KJ, Hogenesch JB. A population-based gene expression signature of molecular clock phase from a single epidermal sample. Genome Medicine. 12: 73. PMID 32825850 DOI: 10.1186/S13073-020-00768-9 |
0.756 |
|
| 2020 |
Cal-Kayitmazbatir S, Kulkoyluoglu-Cotul E, Growe J, Selby CP, Rhoades SD, Malik D, Oner H, Asimgil H, Francey LJ, Sancar A, Kruger WD, Hogenesch JB, Weljie A, Anafi RC, Kavakli IH. CRY1-CBS binding regulates circadian clock function and metabolism. The Febs Journal. PMID 32383312 DOI: 10.1111/Febs.15360 |
0.825 |
|
| 2020 |
Nayak G, Zhang KX, Vemaraju S, Odaka Y, Buhr ED, Holt-Jones A, Kernodle S, Smith AN, Upton BA, D'Souza S, Zhan JJ, Diaz N, Nguyen MT, Mukherjee R, Gordon SA, ... ... Hogenesch JB, et al. Adaptive Thermogenesis in Mice Is Enhanced by Opsin 3-Dependent Adipocyte Light Sensing. Cell Reports. 30: 672-686.e8. PMID 31968245 DOI: 10.1016/J.Celrep.2019.12.043 |
0.449 |
|
| 2019 |
Smith DF, Ruben MD, Francey LJ, Walch OJ, Hogenesch JB. When Should You Take Your Medicines? Journal of Biological Rhythms. 748730419892099. PMID 31813349 DOI: 10.1177/0748730419892099 |
0.67 |
|
| 2019 |
Ruben MD, Francey LJ, Guo Y, Wu G, Cooper EB, Shah AS, Hogenesch JB, Smith DF. A large-scale study reveals 24-h operational rhythms in hospital treatment. Proceedings of the National Academy of Sciences of the United States of America. PMID 31575744 DOI: 10.1073/Pnas.1909557116 |
0.71 |
|
| 2019 |
Lee Y, Shen Y, Francey LJ, Ramanathan C, Sehgal A, Liu AC, Hogenesch JB. The NRON complex controls circadian clock function through regulated PER and CRY nuclear translocation. Scientific Reports. 9: 11883. PMID 31417156 DOI: 10.1038/S41598-019-48341-8 |
0.827 |
|
| 2019 |
Ruben MD, Smith DF, FitzGerald GA, Hogenesch JB. Dosing time matters. Science (New York, N.Y.). 365: 547-549. PMID 31395773 DOI: 10.1126/Science.Aax7621 |
0.452 |
|
| 2019 |
Cederroth CR, Albrecht U, Bass J, Brown SA, Dyhrfjeld-Johnsen J, Gachon F, Green CB, Hastings MH, Helfrich-Förster C, Hogenesch JB, Lévi F, Loudon A, Lundkvist GB, Meijer JH, Rosbash M, et al. Medicine in the Fourth Dimension. Cell Metabolism. 30: 238-250. PMID 31390550 DOI: 10.1016/J.Cmet.2019.06.019 |
0.691 |
|
| 2019 |
Ruben MD, Hogenesch JB, Smith DF. Sleep and Circadian Medicine: Time of Day in the Neurologic Clinic. Neurologic Clinics. 37: 615-629. PMID 31256793 DOI: 10.1016/J.Ncl.2019.03.004 |
0.41 |
|
| 2019 |
Foteinou PT, Venkataraman A, Francey LJ, Anafi RC, Hogenesch JB, Doyle FJ. Reply to Furlan et al.: The role of SIRT1 in cell autonomous clock function. Proceedings of the National Academy of Sciences of the United States of America. PMID 31239349 DOI: 10.1073/Pnas.1907923116 |
0.76 |
|
| 2019 |
Zhang Z, Hunter L, Wu G, Maidstone R, Mizoro Y, Vonslow R, Fife M, Hopwood T, Begley N, Saer B, Wang P, Cunningham P, Baxter M, Durrington H, Blaikley JF, ... ... Hogenesch JB, et al. Genome-wide effect of pulmonary airway epithelial cell-specific Bmal1 deletion. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. fj201801682R. PMID 30794439 DOI: 10.1096/Fj.201801682R |
0.488 |
|
| 2019 |
Resuehr D, Wu G, Johnson RL, Young ME, Hogenesch JB, Gamble KL. Shift Work Disrupts Circadian Regulation of the Transcriptome in Hospital Nurses. Journal of Biological Rhythms. 748730419826694. PMID 30712475 DOI: 10.1177/0748730419826694 |
0.472 |
|
| 2018 |
Wu G, Ruben MD, Schmidt RE, Francey LJ, Smith DF, Anafi RC, Hughey JJ, Tasseff R, Sherrill JD, Oblong JE, Mills KJ, Hogenesch JB. Population-level rhythms in human skin with implications for circadian medicine. Proceedings of the National Academy of Sciences of the United States of America. PMID 30377266 DOI: 10.1073/Pnas.1809442115 |
0.814 |
|
| 2018 |
Foteinou PT, Venkataraman A, Francey LJ, Anafi RC, Hogenesch JB, Doyle FJ. Computational and experimental insights into the circadian effects of SIRT1. Proceedings of the National Academy of Sciences of the United States of America. PMID 30348778 DOI: 10.1073/Pnas.1803410115 |
0.806 |
|
| 2018 |
Merrick D, Mistry K, Wu J, Gresko N, Baggs JE, Hogenesch JB, Sun Z, Caplan MJ. Polycystin-1 regulates bone development through an interaction with the transcriptional co-activator taz. Human Molecular Genetics. PMID 30215740 DOI: 10.1093/Hmg/Ddy322 |
0.737 |
|
| 2018 |
Ruben MD, Wu G, Smith DF, Schmidt RE, Francey LJ, Lee YY, Anafi RC, Hogenesch JB. A database of tissue-specific rhythmically expressed human genes has potential applications in circadian medicine. Science Translational Medicine. 10. PMID 30209245 DOI: 10.1126/Scitranslmed.Aat8806 |
0.83 |
|
| 2018 |
von Allmen DC, Francey LJ, Rogers GM, Ruben MD, Cohen AP, Wu G, Schmidt RE, Ishman SL, Amin RS, Hogenesch JB, Smith DF. Circadian Dysregulation: The Next Frontier in Obstructive Sleep Apnea Research. Otolaryngology--Head and Neck Surgery : Official Journal of American Academy of Otolaryngology-Head and Neck Surgery. 194599818797311. PMID 30200807 DOI: 10.1177/0194599818797311 |
0.78 |
|
| 2018 |
Castellana S, Mazza T, Capocefalo D, Genov N, Biagini T, Fusilli C, Scholkmann F, Relógio A, Hogenesch JB, Mazzoccoli G. Systematic Analysis of Mouse Genome Reveals Distinct Evolutionary and Functional Properties Among Circadian and Ultradian Genes. Frontiers in Physiology. 9: 1178. PMID 30190679 DOI: 10.3389/Fphys.2018.01178 |
0.479 |
|
| 2018 |
Zhang X, Xue C, Lin J, Ferguson JF, Weiner A, Liu W, Han Y, Hinkle C, Li W, Jiang H, Gosai S, Hachet M, Garcia BA, Gregory BD, Soccio RE, ... Hogenesch JB, et al. Interrogation of nonconserved human adipose lincRNAs identifies a regulatory role of in adipocyte metabolism. Science Translational Medicine. 10. PMID 29925637 DOI: 10.1126/Scitranslmed.Aar5987 |
0.364 |
|
| 2018 |
Ramanathan C, Kathale ND, Liu D, Lee C, Freeman DA, Hogenesch JB, Cao R, Liu AC. mTOR signaling regulates central and peripheral circadian clock function. Plos Genetics. 14: e1007369. PMID 29750810 DOI: 10.1371/Journal.Pgen.1007369 |
0.675 |
|
| 2018 |
Yang Y, Adebali O, Wu G, Selby CP, Chiou YY, Rashid N, Hu J, Hogenesch JB, Sancar A. Cisplatin-DNA adduct repair of transcribed genes is controlled by two circadian programs in mouse tissues. Proceedings of the National Academy of Sciences of the United States of America. PMID 29735688 DOI: 10.1073/Pnas.1804493115 |
0.477 |
|
| 2018 |
Giovannone AJ, Winterstein C, Bhattaram P, Reales E, Low SH, Baggs JE, Xu M, Lalli MA, Hogenesch JB, Weimbs T. Soluble syntaxin 3 functions as a transcriptional regulator. The Journal of Biological Chemistry. PMID 29475951 DOI: 10.1074/Jbc.Ra117.000874 |
0.755 |
|
| 2017 |
Hughes ME, Abruzzi KC, Allada R, Anafi R, Arpat AB, Asher G, Baldi P, de Bekker C, Bell-Pedersen D, Blau J, Brown S, Ceriani MF, Chen Z, Chiu JC, Cox J, ... ... Hogenesch JB, et al. Guidelines for Genome-Scale Analysis of Biological Rhythms. Journal of Biological Rhythms. 748730417728663. PMID 29098954 DOI: 10.1177/0748730417728663 |
0.775 |
|
| 2017 |
Francey LJ, Hogenesch JB. It's not all in the brain. Elife. 6. PMID 28850329 DOI: 10.7554/Elife.30561 |
0.702 |
|
| 2017 |
Ruben MD, Hogenesch JB. Circadian Rhythms: Move Over Neurons - Astrocytes Mediate SCN Clock Function. Current Biology : Cb. 27: R350-R352. PMID 28486120 DOI: 10.1016/J.Cub.2017.03.055 |
0.334 |
|
| 2017 |
Krishnaiah SY, Wu G, Altman BJ, Growe J, Rhoades SD, Coldren F, Venkataraman A, Olarerin-George AO, Francey LJ, Mukherjee S, Girish S, Selby CP, Cal S, Er U, Sianati B, ... ... Hogenesch JB, et al. Clock Regulation of Metabolites Reveals Coupling between Transcription and Metabolism. Cell Metabolism. 25: 1206. PMID 28467936 DOI: 10.1016/J.Cmet.2017.04.023 |
0.806 |
|
| 2017 |
Babb PL, Lahens NF, Correa-Garhwal SM, Nicholson DN, Kim EJ, Hogenesch JB, Kuntner M, Higgins L, Hayashi CY, Agnarsson I, Voight BF. The Nephila clavipes genome highlights the diversity of spider silk genes and their complex expression. Nature Genetics. PMID 28459453 DOI: 10.1038/Ng.3852 |
0.721 |
|
| 2017 |
Anafi RC, Francey LJ, Hogenesch JB, Kim J. CYCLOPS reveals human transcriptional rhythms in health and disease. Proceedings of the National Academy of Sciences of the United States of America. PMID 28439010 DOI: 10.1073/Pnas.1619320114 |
0.82 |
|
| 2017 |
Krishnaiah SY, Wu G, Altman BJ, Growe J, Rhoades SD, Coldren F, Venkataraman A, Olarerin-George AO, Francey LJ, Mukherjee S, Girish S, Selby CP, Cal S, Er U, Sianati B, ... ... Hogenesch JB, et al. Clock Regulation of Metabolites Reveals Coupling between Transcription and Metabolism. Cell Metabolism. 25: 961-974.e4. PMID 28380384 DOI: 10.1016/J.Cmet.2017.03.019 |
0.805 |
|
| 2016 |
McGoff KA, Guo X, Deckard A, Kelliher CM, Leman AR, Francey LJ, Hogenesch JB, Haase SB, Harer JL. The Local Edge Machine: inference of dynamic models of gene regulation. Genome Biology. 17: 214. PMID 27760556 DOI: 10.1186/S13059-016-1076-Z |
0.741 |
|
| 2016 |
Love MI, Hogenesch JB, Irizarry RA. Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation. Nature Biotechnology. PMID 27669167 DOI: 10.1038/Nbt.3682 |
0.309 |
|
| 2016 |
Sengupta A, Krishnaiah SY, Rhoades S, Growe J, Slaff B, Venkataraman A, Olarerin-George AO, Van Dang C, Hogenesch JB, Weljie AM. Deciphering the Duality of Clock and Growth Metabolism in a Cell Autonomous System Using NMR Profiling of the Secretome. Metabolites. 6. PMID 27472375 DOI: 10.3390/Metabo6030023 |
0.815 |
|
| 2016 |
Wu G, Anafi RC, Hughes ME, Kornacker K, Hogenesch JB. MetaCycle: an integrated R package to evaluate periodicity in large scale data. Bioinformatics (Oxford, England). PMID 27378304 DOI: 10.1093/Bioinformatics/Btw405 |
0.752 |
|
| 2016 |
Erion R, King AN, Wu G, Hogenesch JB, Sehgal A. Neural clocks and Neuropeptide F/Y regulate circadian gene expression in a peripheral metabolic tissue. Elife. 5. PMID 27077948 DOI: 10.7554/Elife.13552 |
0.647 |
|
| 2016 |
Zhang R, Podtelezhnikov AA, Hogenesch JB, Anafi RC. Discovering Biology in Periodic Data through Phase Set Enrichment Analysis (PSEA). Journal of Biological Rhythms. 31: 244-57. PMID 26955841 DOI: 10.1177/0748730416631895 |
0.831 |
|
| 2016 |
Vaquero-Garcia J, Barrera A, Gazzara MR, González-Vallinas J, Lahens NF, Hogenesch JB, Lynch KW, Barash Y. A new view of transcriptome complexity and regulation through the lens of local splicing variations. Elife. 5. PMID 26829591 DOI: 10.7554/Elife.11752 |
0.72 |
|
| 2016 |
Erion R, King AN, Wu G, Hogenesch JB, Sehgal A. Author response: Neural clocks and Neuropeptide F/Y regulate circadian gene expression in a peripheral metabolic tissue Elife. DOI: 10.7554/Elife.13552.023 |
0.615 |
|
| 2016 |
Vaquero-Garcia J, Barrera A, Gazzara MR, González-Vallinas J, Lahens NF, Hogenesch JB, Lynch KW, Barash Y. Author response: A new view of transcriptome complexity and regulation through the lens of local splicing variations Elife. DOI: 10.7554/Elife.11752.080 |
0.69 |
|
| 2016 |
Kim EJ, Lahens N, Ricciotti E, Manduchi E, Grosser T, Fitzgerald G, Hogenesch J, Grant G. Resampling-based read-level normalization of RNA-Seq for differential expression analysis F1000research. 5. DOI: 10.7490/F1000Research.1112772.1 |
0.721 |
|
| 2015 |
Manderfield LJ, Engleka KA, Aghajanian H, Gupta M, Yang S, Li L, Baggs JE, Hogenesch JB, Olson EN, Epstein JA. Pax3 and Hippo Signaling Coordinate Melanocyte Gene Expression in Neural Crest. Cell Reports. 10: 841. PMID 30849859 DOI: 10.1016/J.Celrep.2015.01.041 |
0.725 |
|
| 2015 |
Ma D, Liu T, Chang L, Rui C, Xiao Y, Li S, Hogenesch JB, Chen YE, Lin JD. The Liver Clock Controls Cholesterol Homeostasis through Trib1 Protein-mediated Regulation of PCSK9/Low Density Lipoprotein Receptor (LDLR) Axis. The Journal of Biological Chemistry. 290: 31003-12. PMID 26547624 DOI: 10.1074/Jbc.M115.685982 |
0.381 |
|
| 2015 |
DeBruyne JP, Baggs JE, Sato TK, Hogenesch JB. Ubiquitin ligase Siah2 regulates RevErbα degradation and the mammalian circadian clock. Proceedings of the National Academy of Sciences of the United States of America. 112: 12420-5. PMID 26392558 DOI: 10.1073/Pnas.1501204112 |
0.824 |
|
| 2015 |
Altman BJ, Hsieh AL, Sengupta A, Krishnanaiah SY, Stine ZE, Walton ZE, Gouw AM, Venkataraman A, Li B, Goraksha-Hicks P, Diskin SJ, Bellovin DI, Simon MC, Rathmell JC, Lazar MA, ... ... Hogenesch JB, et al. MYC Disrupts the Circadian Clock and Metabolism in Cancer Cells. Cell Metabolism. 22: 1009-19. PMID 26387865 DOI: 10.1016/J.Cmet.2015.09.003 |
0.803 |
|
| 2015 |
Hayer KE, Pizarro A, Lahens NF, Hogenesch JB, Grant GR. Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data. Bioinformatics (Oxford, England). 31: 3938-45. PMID 26338770 DOI: 10.1093/Bioinformatics/Btv488 |
0.684 |
|
| 2015 |
Jang C, Lahens NF, Hogenesch JB, Sehgal A. Ribosome profiling reveals an important role for translational control in circadian gene expression. Genome Research. 25: 1836-47. PMID 26338483 DOI: 10.1101/Gr.191296.115 |
0.795 |
|
| 2015 |
Lee Y, Jang AR, Francey LJ, Sehgal A, Hogenesch JB. KPNB1 mediates PER/CRY nuclear translocation and circadian clock function. Elife. 4. PMID 26319354 DOI: 10.7554/Elife.08647 |
0.818 |
|
| 2015 |
Anton L, Olarerin-George AO, Hogenesch JB, Elovitz MA. Placental expression of miR-517a/b and miR-517c contributes to trophoblast dysfunction and preeclampsia. Plos One. 10: e0122707. PMID 25799546 DOI: 10.1371/Journal.Pone.0122707 |
0.718 |
|
| 2015 |
Wolman MA, Jain RA, Marsden KC, Bell H, Skinner J, Hayer KE, Hogenesch JB, Granato M. A genome-wide screen identifies PAPP-AA-mediated IGFR signaling as a novel regulator of habituation learning. Neuron. 85: 1200-11. PMID 25754827 DOI: 10.1016/J.Neuron.2015.02.025 |
0.344 |
|
| 2015 |
Olarerin-George AO, Hogenesch JB. Assessing the prevalence of mycoplasma contamination in cell culture via a survey of NCBI's RNA-seq archive. Nucleic Acids Research. 43: 2535-42. PMID 25712092 DOI: 10.1093/Nar/Gkv136 |
0.759 |
|
| 2015 |
Li J, Grant GR, Hogenesch JB, Hughes ME. Considerations for RNA-seq analysis of circadian rhythms. Methods in Enzymology. 551: 349-67. PMID 25662464 DOI: 10.1016/Bs.Mie.2014.10.020 |
0.659 |
|
| 2015 |
Lee Y, Jang AR, Francey LJ, Sehgal A, Hogenesch JB. Author response: KPNB1 mediates PER/CRY nuclear translocation and circadian clock function Elife. DOI: 10.7554/Elife.08647.020 |
0.803 |
|
| 2015 |
Anton L, Olarerin-George AO, Hogenesch JB, Elovitz MA. Clinical and demographic characteristics of Preeclampsia case-control study. Plos One. DOI: 10.1371/Journal.Pone.0122707.T001 |
0.71 |
|
| 2014 |
Manderfield LJ, Engleka KA, Aghajanian H, Gupta M, Yang S, Li L, Baggs JE, Hogenesch JB, Olson EN, Epstein JA. Pax3 and hippo signaling coordinate melanocyte gene expression in neural crest. Cell Reports. 9: 1885-95. PMID 25466249 DOI: 10.1016/J.Celrep.2014.10.061 |
0.753 |
|
| 2014 |
Toung JM, Lahens N, Hogenesch JB, Grant G. Detection theory in identification of RNA-DNA sequence differences using RNA-sequencing. Plos One. 9: e112040. PMID 25396741 DOI: 10.1371/Journal.Pone.0112040 |
0.674 |
|
| 2014 |
Zhang R, Lahens NF, Ballance HI, Hughes ME, Hogenesch JB. A circadian gene expression atlas in mammals: implications for biology and medicine. Proceedings of the National Academy of Sciences of the United States of America. 111: 16219-24. PMID 25349387 DOI: 10.1073/Pnas.1408886111 |
0.835 |
|
| 2014 |
Perez-Santángelo S, Mancini E, Francey LJ, Schlaen RG, Chernomoretz A, Hogenesch JB, Yanovsky MJ. Role for LSM genes in the regulation of circadian rhythms. Proceedings of the National Academy of Sciences of the United States of America. 111: 15166-71. PMID 25288739 DOI: 10.1073/Pnas.1409791111 |
0.782 |
|
| 2014 |
Lahens NF, Kavakli IH, Zhang R, Hayer K, Black MB, Dueck H, Pizarro A, Kim J, Irizarry R, Thomas RS, Grant GR, Hogenesch JB. IVT-seq reveals extreme bias in RNA sequencing. Genome Biology. 15: R86. PMID 24981968 DOI: 10.1186/Gb-2014-15-6-R86 |
0.782 |
|
| 2014 |
Anafi RC, Lee Y, Sato TK, Venkataraman A, Ramanathan C, Kavakli IH, Hughes ME, Baggs JE, Growe J, Liu AC, Kim J, Hogenesch JB. Machine learning helps identify CHRONO as a circadian clock component. Plos Biology. 12: e1001840. PMID 24737000 DOI: 10.1371/Journal.Pbio.1001840 |
0.835 |
|
| 2014 |
Ramanathan C, Xu H, Khan SK, Shen Y, Gitis PJ, Welsh DK, Hogenesch JB, Liu AC. Cell type-specific functions of period genes revealed by novel adipocyte and hepatocyte circadian clock models. Plos Genetics. 10: e1004244. PMID 24699442 DOI: 10.1371/Journal.Pgen.1004244 |
0.78 |
|
| 2014 |
Hughes ME, Peeler J, Hogenesch JB, Trojanowski JQ. The growth and impact of Alzheimer disease centers as measured by social network analysis. Jama Neurology. 71: 412-20. PMID 24514750 DOI: 10.1001/Jamaneurol.2013.6225 |
0.474 |
|
| 2014 |
Altman BJ, Hsieh A, Gouw AM, Stine ZE, Venkataraman A, Bellovin DI, Diskin SJ, Lu W, Zhang S, Felsher DW, Maris JM, Lazar MA, Rabinowitz JD, Hogenesch JB, Dang CV. Abstract 2953: Rev-erbα modulates Myc-driven cancer cell growth and altered metabolism Cancer Research. 74: 2953-2953. DOI: 10.1158/1538-7445.Am2014-2953 |
0.793 |
|
| 2014 |
Hsieh AL, Altman BJ, Venkataraman A, Bellovin DI, Felsher DW, Hogenesch JB, Dang CV. Abstract 1419: Oncogenic Myc disrupts NAMPT circadian oscillation in mouse hepatocellular carcinoma cell line Cancer Research. 74: 1419-1419. DOI: 10.1158/1538-7445.Am2014-1419 |
0.796 |
|
| 2014 |
Hsieh A, Altman B, Stine Z, Gouw A, Venkataraman A, Li B, Goraksha-Hicks P, Diskin S, Bellovin D, Celeste Simon M, Rathmell J, Lazar M, Maris J, Felsher D, Hogenesch J, et al. TM-06 * MYC AND MYCN DISRUPTION OF THE MOLECULAR CLOCK IN CANCER CELLS Neuro-Oncology. 16: v214-v214. DOI: 10.1093/Neuonc/Nou278.6 |
0.787 |
|
| 2013 |
Musiek ES, Lim MM, Yang G, Bauer AQ, Qi L, Lee Y, Roh JH, Ortiz-Gonzalez X, Dearborn JT, Culver JP, Herzog ED, Hogenesch JB, Wozniak DF, Dikranian K, Giasson BI, et al. Circadian clock proteins regulate neuronal redox homeostasis and neurodegeneration. The Journal of Clinical Investigation. 123: 5389-400. PMID 24270424 DOI: 10.1172/Jci70317 |
0.818 |
|
| 2013 |
Kasowski M, Kyriazopoulou-Panagiotopoulou S, Grubert F, Zaugg JB, Kundaje A, Liu Y, Boyle AP, Zhang QC, Zakharia F, Spacek DV, Li J, Xie D, Olarerin-George A, Steinmetz LM, Hogenesch JB, et al. Extensive variation in chromatin states across humans. Science (New York, N.Y.). 342: 750-2. PMID 24136358 DOI: 10.1126/Science.1242510 |
0.756 |
|
| 2013 |
Deckard A, Anafi RC, Hogenesch JB, Haase SB, Harer J. Design and analysis of large-scale biological rhythm studies: a comparison of algorithms for detecting periodic signals in biological data. Bioinformatics (Oxford, England). 29: 3174-80. PMID 24058056 DOI: 10.1093/Bioinformatics/Btt541 |
0.749 |
|
| 2013 |
Anton L, Olarerin-George AO, Schwartz N, Srinivas S, Bastek J, Hogenesch JB, Elovitz MA. miR-210 inhibits trophoblast invasion and is a serum biomarker for preeclampsia. The American Journal of Pathology. 183: 1437-45. PMID 24035613 DOI: 10.1016/J.Ajpath.2013.07.021 |
0.724 |
|
| 2013 |
Karpowicz P, Zhang Y, Hogenesch JB, Emery P, Perrimon N. The circadian clock gates the intestinal stem cell regenerative state. Cell Reports. 3: 996-1004. PMID 23583176 DOI: 10.1016/J.Celrep.2013.03.016 |
0.45 |
|
| 2013 |
Shimomura K, Kumar V, Koike N, Kim TK, Chong J, Buhr ED, Whiteley AR, Low SS, Omura C, Fenner D, Owens JR, Richards M, Yoo SH, Hong HK, Vitaterna MH, ... ... Hogenesch J, et al. Usf1, a suppressor of the circadian Clock mutant, reveals the nature of the DNA-binding of the CLOCK:BMAL1 complex in mice. Elife. 2: e00426. PMID 23580255 DOI: 10.7554/Elife.00426 |
0.549 |
|
| 2013 |
Olarerin-George AO, Anton L, Hwang YC, Elovitz MA, Hogenesch JB. A functional genomics screen for microRNA regulators of NF-kappaB signaling. Bmc Biology. 11: 19. PMID 23448136 DOI: 10.1186/1741-7007-11-19 |
0.754 |
|
| 2013 |
Miller MF, Cohen ED, Baggs JE, Hogenesch JB, Morrisey EE. High throughput genomic screen identifies multiple factors that promote cooperative Wnt signaling. Plos One. 8: e55782. PMID 23383281 DOI: 10.1371/Journal.Pone.0055782 |
0.737 |
|
| 2013 |
Pizarro A, Hayer K, Lahens NF, Hogenesch JB. CircaDB: a database of mammalian circadian gene expression profiles. Nucleic Acids Research. 41: D1009-13. PMID 23180795 DOI: 10.1093/Nar/Gks1161 |
0.723 |
|
| 2013 |
Shimomura K, Kumar V, Koike N, Kim T, Chong J, Buhr ED, Whiteley AR, Low SS, Omura C, Fenner D, Owens JR, Richards M, Yoo S, Hong H, Vitaterna MH, ... ... Hogenesch J, et al. Author response: Usf1, a suppressor of the circadian Clock mutant, reveals the nature of the DNA-binding of the CLOCK:BMAL1 complex in mice Elife. DOI: 10.7554/Elife.00426.021 |
0.547 |
|
| 2013 |
Altman BJ, Hsieh A, Gouw A, Venkataraman A, Li B, Bellovin D, Simon MC, Felsher D, Hogenesch J, Dang CV. Abstract 4616: Oncogenic c- and N-Myc disrupt circadian rhythm. Cancer Research. 73: 4616-4616. DOI: 10.1158/1538-7445.Am2013-4616 |
0.814 |
|
| 2013 |
Venkataraman A, Ballance H, Hogenesch JB. The Role of the Circadian System in Homeostasis Handbook of Systems Biology. 407-426. DOI: 10.1016/B978-0-12-385944-0.00021-6 |
0.782 |
|
| 2012 |
Wozniak MA, Cheng CQ, Shen CJ, Gao L, Olarerin-George AO, Won KJ, Hogenesch JB, Chen CS. Adhesion regulates MAP kinase/ternary complex factor exchange to control a proliferative transcriptional switch. Current Biology : Cb. 22: 2017-26. PMID 23063436 DOI: 10.1016/J.Cub.2012.08.050 |
0.768 |
|
| 2012 |
Miller MF, Cohen ED, Baggs JE, Lu MM, Hogenesch JB, Morrisey EE. Wnt ligands signal in a cooperative manner to promote foregut organogenesis. Proceedings of the National Academy of Sciences of the United States of America. 109: 15348-53. PMID 22949635 DOI: 10.1073/Pnas.1201583109 |
0.7 |
|
| 2012 |
Hughes ME, Hong HK, Chong JL, Indacochea AA, Lee SS, Han M, Takahashi JS, Hogenesch JB. Brain-specific rescue of Clock reveals system-driven transcriptional rhythms in peripheral tissue. Plos Genetics. 8: e1002835. PMID 22844252 DOI: 10.1371/Journal.Pgen.1002835 |
0.735 |
|
| 2012 |
Yusuf D, Butland SL, Swanson MI, Bolotin E, Ticoll A, Cheung WA, Zhang XY, Dickman CT, Fulton DL, Lim JS, Schnabl JM, Ramos OH, Vasseur-Cognet M, de Leeuw CN, Simpson EM, ... ... Hogenesch JB, et al. The transcription factor encyclopedia. Genome Biology. 13: R24. PMID 22458515 DOI: 10.1186/Gb-2012-13-3-R24 |
0.723 |
|
| 2012 |
Merrick D, Chapin H, Baggs JE, Yu Z, Somlo S, Sun Z, Hogenesch JB, Caplan MJ. The γ-secretase cleavage product of polycystin-1 regulates TCF and CHOP-mediated transcriptional activation through a p300-dependent mechanism. Developmental Cell. 22: 197-210. PMID 22178500 DOI: 10.1016/J.Devcel.2011.10.028 |
0.726 |
|
| 2011 |
Grant GR, Farkas MH, Pizarro AD, Lahens NF, Schug J, Brunk BP, Stoeckert CJ, Hogenesch JB, Pierce EA. Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (RUM). Bioinformatics (Oxford, England). 27: 2518-28. PMID 21775302 DOI: 10.1093/Bioinformatics/Btr427 |
0.669 |
|
| 2011 |
Xu K, DiAngelo JR, Hughes ME, Hogenesch JB, Sehgal A. The circadian clock interacts with metabolic physiology to influence reproductive fitness. Cell Metabolism. 13: 639-54. PMID 21641546 DOI: 10.1016/J.Cmet.2011.05.001 |
0.681 |
|
| 2011 |
Hogenesch JB, Ueda HR. Understanding systems-level properties: timely stories from the study of clocks. Nature Reviews. Genetics. 12: 407-16. PMID 21556016 DOI: 10.1038/Nrg2972 |
0.32 |
|
| 2011 |
Hogenesch JB, Herzog ED. Intracellular and intercellular processes determine robustness of the circadian clock. Febs Letters. 585: 1427-34. PMID 21536033 DOI: 10.1016/J.Febslet.2011.04.048 |
0.465 |
|
| 2011 |
DeBruyne JP, Hogenesch JB. A CRY in the Night. Developmental Cell. 20: 144-5. PMID 21316582 DOI: 10.1016/J.Devcel.2011.01.014 |
0.771 |
|
| 2010 |
Andrews JL, Zhang X, McCarthy JJ, McDearmon EL, Hornberger TA, Russell B, Campbell KS, Arbogast S, Reid MB, Walker JR, Hogenesch JB, Takahashi JS, Esser KA. CLOCK and BMAL1 regulate MyoD and are necessary for maintenance of skeletal muscle phenotype and function. Proceedings of the National Academy of Sciences of the United States of America. 107: 19090-5. PMID 20956306 DOI: 10.1073/Pnas.1014523107 |
0.558 |
|
| 2010 |
Hughes ME, Peeler J, Hogenesch JB. Network dynamics to evaluate performance of an academic institution. Science Translational Medicine. 2: 53ps49. PMID 20944088 DOI: 10.1126/Scitranslmed.3001580 |
0.479 |
|
| 2010 |
Baggs JE, Hogenesch JB. Genomics and systems approaches in the mammalian circadian clock. Current Opinion in Genetics & Development. 20: 581-7. PMID 20926286 DOI: 10.1016/J.Gde.2010.08.009 |
0.787 |
|
| 2010 |
Hughes ME, Hogenesch JB, Kornacker K. JTK_CYCLE: an efficient nonparametric algorithm for detecting rhythmic components in genome-scale data sets. Journal of Biological Rhythms. 25: 372-80. PMID 20876817 DOI: 10.1177/0748730410379711 |
0.626 |
|
| 2010 |
Baggs JE, Hughes ME, Hogenesch JB. The network as the target. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 2: 127-33. PMID 20836017 DOI: 10.1002/Wsbm.57 |
0.745 |
|
| 2010 |
McIntosh BE, Hogenesch JB, Bradfield CA. Mammalian Per-Arnt-Sim proteins in environmental adaptation. Annual Review of Physiology. 72: 625-45. PMID 20148691 DOI: 10.1146/Annurev-Physiol-021909-135922 |
0.794 |
|
| 2010 |
Paschos GK, Baggs JE, Hogenesch JB, FitzGerald GA. The role of clock genes in pharmacology. Annual Review of Pharmacology and Toxicology. 50: 187-214. PMID 20055702 DOI: 10.1146/Annurev.Pharmtox.010909.105621 |
0.781 |
|
| 2010 |
Huss JW, Lindenbaum P, Martone M, Roberts D, Pizarro A, Valafar F, Hogenesch JB, Su AI. The Gene Wiki: community intelligence applied to human gene annotation. Nucleic Acids Research. 38: D633-9. PMID 19755503 DOI: 10.1093/Nar/Gkp760 |
0.76 |
|
| 2009 |
Zhang EE, Liu AC, Hirota T, Miraglia LJ, Welch G, Pongsawakul PY, Liu X, Atwood A, Huss JW, Janes J, Su AI, Hogenesch JB, Kay SA. A genome-wide RNAi screen for modifiers of the circadian clock in human cells. Cell. 139: 199-210. PMID 19765810 DOI: 10.1016/J.Cell.2009.08.031 |
0.809 |
|
| 2009 |
McCarthy EV, Baggs JE, Geskes JM, Hogenesch JB, Green CB. Generation of a novel allelic series of cryptochrome mutants via mutagenesis reveals residues involved in protein-protein interaction and CRY2-specific repression. Molecular and Cellular Biology. 29: 5465-76. PMID 19687303 DOI: 10.1128/Mcb.00641-09 |
0.803 |
|
| 2009 |
Hughes ME, DiTacchio L, Hayes KR, Vollmers C, Pulivarthy S, Baggs JE, Panda S, Hogenesch JB. Harmonics of circadian gene transcription in mammals. Plos Genetics. 5: e1000442. PMID 19343201 DOI: 10.1371/Journal.Pgen.1000442 |
0.837 |
|
| 2009 |
Warzecha CC, Sato TK, Nabet B, Hogenesch JB, Carstens RP. ESRP1 and ESRP2 are epithelial cell-type-specific regulators of FGFR2 splicing. Molecular Cell. 33: 591-601. PMID 19285943 DOI: 10.1016/J.Molcel.2009.01.025 |
0.682 |
|
| 2009 |
Baggs JE, Price TS, DiTacchio L, Panda S, Fitzgerald GA, Hogenesch JB. Network features of the mammalian circadian clock. Plos Biology. 7: e52. PMID 19278294 DOI: 10.1371/Journal.Pbio.1000052 |
0.824 |
|
| 2009 |
Hogenesch JB. It's all in a day's work: Regulation of DNA excision repair by the circadian clock. Proceedings of the National Academy of Sciences of the United States of America. 106: 2481-2. PMID 19240220 DOI: 10.1073/Pnas.0813323106 |
0.41 |
|
| 2009 |
Bailey MJ, Coon SL, Carter DA, Humphries A, Kim JS, Shi Q, Gaildrat P, Morin F, Ganguly S, Hogenesch JB, Weller JL, Rath MF, Møller M, Baler R, Sugden D, et al. Night/day changes in pineal expression of >600 genes: central role of adrenergic/cAMP signaling. The Journal of Biological Chemistry. 284: 7606-22. PMID 19103603 DOI: 10.1074/Jbc.M808394200 |
0.421 |
|
| 2008 |
Price TS, Baggs JE, Curtis AM, Fitzgerald GA, Hogenesch JB. WAVECLOCK: wavelet analysis of circadian oscillation. Bioinformatics (Oxford, England). 24: 2794-5. PMID 18931366 DOI: 10.1093/Bioinformatics/Btn521 |
0.768 |
|
| 2008 |
Hogenesch JB, Su AI. Clock gene wikis available: join the "long tail". Journal of Biological Rhythms. 23: 456-7. PMID 18838611 DOI: 10.1177/0748730408322866 |
0.773 |
|
| 2008 |
Kumaki Y, Ukai-Tadenuma M, Uno KD, Nishio J, Masumoto KH, Nagano M, Komori T, Shigeyoshi Y, Hogenesch JB, Ueda HR. Analysis and synthesis of high-amplitude Cis-elements in the mammalian circadian clock. Proceedings of the National Academy of Sciences of the United States of America. 105: 14946-51. PMID 18815372 DOI: 10.1073/Pnas.0802636105 |
0.383 |
|
| 2008 |
Gumireddy K, Young DD, Xiong X, Hogenesch JB, Huang Q, Deiters A. Small-molecule inhibitors of microrna miR-21 function. Angewandte Chemie (International Ed. in English). 47: 7482-4. PMID 18712719 DOI: 10.1002/Anie.200801555 |
0.768 |
|
| 2008 |
Miller MF, Cohen ED, Goss AM, Baggs J, Hogenesch J, Morrisey EE. Synergistic activation of canonical signaling by a subset of Wnt ligands Developmental Biology. 319: 606. DOI: 10.1016/J.Ydbio.2008.05.453 |
0.689 |
|
| 2007 |
Hughes M, Deharo L, Pulivarthy SR, Gu J, Hayes K, Panda S, Hogenesch JB. High-resolution time course analysis of gene expression from pituitary. Cold Spring Harbor Symposia On Quantitative Biology. 72: 381-6. PMID 18419295 DOI: 10.1101/Sqb.2007.72.011 |
0.825 |
|
| 2007 |
Amelio AL, Miraglia LJ, Conkright JJ, Mercer BA, Batalov S, Cavett V, Orth AP, Busby J, Hogenesch JB, Conkright MD. A coactivator trap identifies NONO (p54nrb) as a component of the cAMP-signaling pathway. Proceedings of the National Academy of Sciences of the United States of America. 104: 20314-9. PMID 18077367 DOI: 10.1073/Pnas.0707999105 |
0.704 |
|
| 2007 |
Kozlov SV, Bogenpohl JW, Howell MP, Wevrick R, Panda S, Hogenesch JB, Muglia LJ, Van Gelder RN, Herzog ED, Stewart CL. The imprinted gene Magel2 regulates normal circadian output. Nature Genetics. 39: 1266-72. PMID 17893678 DOI: 10.1038/Ng2114 |
0.648 |
|
| 2007 |
Halsey TA, Yang L, Walker JR, Hogenesch JB, Thomas RS. A functional map of NFkappaB signaling identifies novel modulators and multiple system controls. Genome Biology. 8: R104. PMID 17553156 DOI: 10.1186/Gb-2007-8-6-R104 |
0.341 |
|
| 2007 |
McCarthy JJ, Andrews JL, McDearmon EL, Campbell KS, Barber BK, Miller BH, Walker JR, Hogenesch JB, Takahashi JS, Esser KA. Identification of the circadian transcriptome in adult mouse skeletal muscle. Physiological Genomics. 31: 86-95. PMID 17550994 DOI: 10.1152/Physiolgenomics.00066.2007 |
0.597 |
|
| 2007 |
Su AI, Hogenesch JB. Power-law-like distributions in biomedical publications and research funding. Genome Biology. 8: 404. PMID 17472739 DOI: 10.1186/Gb-2007-8-4-404 |
0.747 |
|
| 2007 |
Miller BH, McDearmon EL, Panda S, Hayes KR, Zhang J, Andrews JL, Antoch MP, Walker JR, Esser KA, Hogenesch JB, Takahashi JS. Circadian and CLOCK-controlled regulation of the mouse transcriptome and cell proliferation. Proceedings of the National Academy of Sciences of the United States of America. 104: 3342-7. PMID 17360649 DOI: 10.1073/Pnas.0611724104 |
0.837 |
|
| 2006 |
Lee K A, Burgoon LD, Lamb L, Dere E, Zacharewski TR, Hogenesch JB, LaPres JJ. Identification and characterization of genes susceptible to transcriptional cross-talk between the hypoxia and dioxin signaling cascades. Chemical Research in Toxicology. 19: 1284-93. PMID 17040097 DOI: 10.1021/Tx060068D |
0.414 |
|
| 2006 |
Sato TK, Yamada RG, Ukai H, Baggs JE, Miraglia LJ, Kobayashi TJ, Welsh DK, Kay SA, Ueda HR, Hogenesch JB. Feedback repression is required for mammalian circadian clock function. Nature Genetics. 38: 312-9. PMID 16474406 DOI: 10.1038/Ng1745 |
0.829 |
|
| 2006 |
Lee K, Burgoon LD, Lamb L, Dere E, Zacharewski TR, Hogenesch JB, LaPres JJ. Identification and Characterization of Genes Susceptible to Transcriptional Cross-Talk between the Hypoxia and Dioxin Signaling Cascades Volume 19, Number 10, October, 2006, pp 1284−1293 Chemical Research in Toxicology. 19: 1702-1702. DOI: 10.1021/Tx600294R |
0.328 |
|
| 2005 |
Gurkan C, Lapp H, Hogenesch JB, Balch WE. Exploring trafficking GTPase function by mRNA expression profiling: use of the SymAtlas web-application and the Membrome datasets. Methods in Enzymology. 403: 1-10. PMID 16473572 DOI: 10.1016/S0076-6879(05)03001-6 |
0.408 |
|
| 2005 |
Rudic RD, McNamara P, Reilly D, Grosser T, Curtis AM, Price TS, Panda S, Hogenesch JB, FitzGerald GA. Bioinformatic analysis of circadian gene oscillation in mouse aorta. Circulation. 112: 2716-24. PMID 16230482 DOI: 10.1161/Circulationaha.105.568626 |
0.742 |
|
| 2005 |
Baggs JE, Hayes KR, Hogenesch JB. Comparative genomics as a tool in the understanding of eukaryotic transcriptional regulation. Current Opinion in Genetics & Development. 15: 634-9. PMID 16226457 DOI: 10.1016/J.Gde.2005.09.012 |
0.808 |
|
| 2005 |
Willingham AT, Orth AP, Batalov S, Peters EC, Wen BG, Aza-Blanc P, Hogenesch JB, Schultz PG. A strategy for probing the function of noncoding RNAs finds a repressor of NFAT. Science (New York, N.Y.). 309: 1570-3. PMID 16141075 DOI: 10.1126/Science.1115901 |
0.807 |
|
| 2005 |
Harada JN, Bower KE, Orth AP, Callaway S, Nelson CG, Laris C, Hogenesch JB, Vogt PK, Chanda SK. Identification of novel mammalian growth regulatory factors by genome-scale quantitative image analysis. Genome Research. 15: 1136-44. PMID 16024821 DOI: 10.1101/Gr.3889305 |
0.706 |
|
| 2005 |
Gurkan C, Lapp H, Alory C, Su AI, Hogenesch JB, Balch WE. Large-scale profiling of Rab GTPase trafficking networks: the membrome. Molecular Biology of the Cell. 16: 3847-64. PMID 15944222 DOI: 10.1091/Mbc.E05-01-0062 |
0.764 |
|
| 2005 |
Vengellur A, Phillips JM, Hogenesch JB, LaPres JJ. Gene expression profiling of hypoxia signaling in human hepatocellular carcinoma cells. Physiological Genomics. 22: 308-18. PMID 15942021 DOI: 10.1152/Physiolgenomics.00045.2004 |
0.334 |
|
| 2005 |
Hayes KR, Baggs JE, Hogenesch JB. Circadian clocks are seeing the systems biology light. Genome Biology. 6: 219. PMID 15892879 DOI: 10.1186/Gb-2005-6-5-219 |
0.838 |
|
| 2005 |
Walker JR, Hogenesch JB. RNA profiling in circadian biology. Methods in Enzymology. 393: 366-76. PMID 15817299 DOI: 10.1016/S0076-6879(05)93016-4 |
0.408 |
|
| 2005 |
Zhang X, Odom DT, Koo SH, Conkright MD, Canettieri G, Best J, Chen H, Jenner R, Herbolsheimer E, Jacobsen E, Kadam S, Ecker JR, Emerson B, Hogenesch JB, Unterman T, et al. Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues. Proceedings of the National Academy of Sciences of the United States of America. 102: 4459-64. PMID 15753290 DOI: 10.1073/Pnas.0501076102 |
0.388 |
|
| 2005 |
Panda S, Nayak SK, Campo B, Walker JR, Hogenesch JB, Jegla T. Illumination of the melanopsin signaling pathway. Science (New York, N.Y.). 307: 600-4. PMID 15681390 DOI: 10.1126/Science.1105121 |
0.677 |
|
| 2004 |
Panda S, Hogenesch JB. It's all in the timing: many clocks, many outputs. Journal of Biological Rhythms. 19: 374-87. PMID 15534318 DOI: 10.1177/0748730404269008 |
0.744 |
|
| 2004 |
Rudic RD, McNamara P, Curtis AM, Boston RC, Panda S, Hogenesch JB, Fitzgerald GA. BMAL1 and CLOCK, two essential components of the circadian clock, are involved in glucose homeostasis. Plos Biology. 2: e377. PMID 15523558 DOI: 10.1371/Journal.Pbio.0020377 |
0.729 |
|
| 2004 |
Joseph SB, Bradley MN, Castrillo A, Bruhn KW, Mak PA, Pei L, Hogenesch J, O'connell RM, Cheng G, Saez E, Miller JF, Tontonoz P. LXR-dependent gene expression is important for macrophage survival and the innate immune response. Cell. 119: 299-309. PMID 15479645 DOI: 10.1016/J.Cell.2004.09.032 |
0.333 |
|
| 2004 |
Sato TK, Panda S, Miraglia LJ, Reyes TM, Rudic RD, McNamara P, Naik KA, FitzGerald GA, Kay SA, Hogenesch JB. A functional genomics strategy reveals Rora as a component of the mammalian circadian clock. Neuron. 43: 527-37. PMID 15312651 DOI: 10.1016/J.Neuron.2004.07.018 |
0.836 |
|
| 2004 |
Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G, Cooke MP, Walker JR, Hogenesch JB. A gene atlas of the mouse and human protein-encoding transcriptomes. Proceedings of the National Academy of Sciences of the United States of America. 101: 6062-7. PMID 15075390 DOI: 10.1073/Pnas.0400782101 |
0.783 |
|
| 2004 |
Walker JR, Su AI, Self DW, Hogenesch JB, Lapp H, Maier R, Hoyer D, Bilbe G. Applications of a rat multiple tissue gene expression data set. Genome Research. 14: 742-9. PMID 15060018 DOI: 10.1101/Gr.2161804 |
0.771 |
|
| 2004 |
Ueda HR, Hayashi S, Matsuyama S, Yomo T, Hashimoto S, Kay SA, Hogenesch JB, Iino M. Universality and flexibility in gene expression from bacteria to human. Proceedings of the National Academy of Sciences of the United States of America. 101: 3765-9. PMID 14999098 DOI: 10.1073/Pnas.0306244101 |
0.691 |
|
| 2004 |
Van Gelder RN, Hogenesch JB. Clean thoughts about dirty genes. Journal of Biological Rhythms. 19: 3-9. PMID 14964699 DOI: 10.1177/0748730403261123 |
0.396 |
|
| 2004 |
Grechez-Cassiau A, Panda S, Lacoche S, Teboul M, Azmi S, Laudet V, Hogenesch JB, Taneja R, Delaunay F. The transcriptional repressor STRA13 regulates a subset of peripheral circadian outputs. The Journal of Biological Chemistry. 279: 1141-50. PMID 14581485 DOI: 10.1074/Jbc.M305369200 |
0.758 |
|
| 2003 |
Hogenesch JB, Panda S, Kay S, Takahashi JS. Circadian transcriptional output in the SCN and liver of the mouse. Novartis Foundation Symposium. 253: 171-80; discussion 5. PMID 14712921 DOI: 10.1002/0470090839.Ch13 |
0.849 |
|
| 2003 |
Panda S, Hogenesch JB, Kay SA. Circadian light input in plants, flies and mammals. Novartis Foundation Symposium. 253: 73-82; discussion 82. PMID 14712915 DOI: 10.1002/0470090839.Ch6 |
0.781 |
|
| 2003 |
Conkright MD, Canettieri G, Screaton R, Guzman E, Miraglia L, Hogenesch JB, Montminy M. TORCs: transducers of regulated CREB activity. Molecular Cell. 12: 413-23. PMID 14536081 DOI: 10.1016/J.Molcel.2003.08.013 |
0.365 |
|
| 2003 |
Chanda SK, White S, Orth AP, Reisdorph R, Miraglia L, Thomas RS, DeJesus P, Mason DE, Huang Q, Vega R, Yu DH, Nelson CG, Smith BM, Terry R, Linford AS, ... ... Hogenesch JB, et al. Genome-scale functional profiling of the mammalian AP-1 signaling pathway. Proceedings of the National Academy of Sciences of the United States of America. 100: 12153-8. PMID 14514886 DOI: 10.1073/Pnas.1934839100 |
0.787 |
|
| 2003 |
Reyes TM, Walker JR, DeCino C, Hogenesch JB, Sawchenko PE. Categorically distinct acute stressors elicit dissimilar transcriptional profiles in the paraventricular nucleus of the hypothalamus. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 23: 5607-16. PMID 12843263 DOI: 10.1523/Jneurosci.23-13-05607.2003 |
0.385 |
|
| 2003 |
Panda S, Provencio I, Tu DC, Pires SS, Rollag MD, Castrucci AM, Pletcher MT, Sato TK, Wiltshire T, Andahazy M, Kay SA, Van Gelder RN, Hogenesch JB. Melanopsin is required for non-image-forming photic responses in blind mice. Science (New York, N.Y.). 301: 525-7. PMID 12829787 DOI: 10.1126/Science.1086179 |
0.785 |
|
| 2003 |
Conkright MD, Guzmán E, Flechner L, Su AI, Hogenesch JB, Montminy M. Genome-wide analysis of CREB target genes reveals a core promoter requirement for cAMP responsiveness. Molecular Cell. 11: 1101-8. PMID 12718894 DOI: 10.1016/S1097-2765(03)00134-5 |
0.776 |
|
| 2003 |
Downes M, Verdecia MA, Roecker AJ, Hughes R, Hogenesch JB, Kast-Woelbern HR, Bowman ME, Ferrer JL, Anisfeld AM, Edwards PA, Rosenfeld JM, Alvarez JG, Noel JP, Nicolaou KC, Evans RM. A chemical, genetic, and structural analysis of the nuclear bile acid receptor FXR. Molecular Cell. 11: 1079-92. PMID 12718892 DOI: 10.1016/S1097-2765(03)00104-7 |
0.302 |
|
| 2003 |
Sato TK, Panda S, Kay SA, Hogenesch JB. DNA arrays: applications and implications for circadian biology. Journal of Biological Rhythms. 18: 96-105. PMID 12693865 DOI: 10.1177/0748730403252245 |
0.802 |
|
| 2003 |
Panda S, Sato TK, Hampton GM, Hogenesch JB. An array of insights: application of DNA chip technology in the study of cell biology. Trends in Cell Biology. 13: 151-6. PMID 12628348 DOI: 10.1016/S0962-8924(03)00006-0 |
0.774 |
|
| 2003 |
Ueda H, Hayashi S, Matsuyama S, Yomo T, Hashimoto S, Kay S, Hogenesch J, Iino M. Underlying Principles in Transcriptional Dynamics from E. coli to Man Seibutsu Butsuri. 43: S6. DOI: 10.2142/biophys.43.S6_1 |
0.601 |
|
| 2002 |
Panda S, Sato TK, Castrucci AM, Rollag MD, DeGrip WJ, Hogenesch JB, Provencio I, Kay SA. Melanopsin (Opn4) requirement for normal light-induced circadian phase shifting. Science (New York, N.Y.). 298: 2213-6. PMID 12481141 DOI: 10.1126/Science.1076848 |
0.809 |
|
| 2002 |
Ceriani MF, Hogenesch JB, Yanovsky M, Panda S, Straume M, Kay SA. Genome-wide expression analysis in Drosophila reveals genes controlling circadian behavior. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 22: 9305-19. PMID 12417656 DOI: 10.1523/Jneurosci.22-21-09305.2002 |
0.831 |
|
| 2002 |
Li S, Liao J, Cutler G, Hoey T, Hogenesch JB, Cooke MP, Schultz PG, Ling XB. Comparative analysis of human genome assemblies reveals genome-level differences. Genomics. 80: 138-9. PMID 12160725 DOI: 10.1006/Geno.2002.6824 |
0.691 |
|
| 2002 |
Panda S, Antoch MP, Miller BH, Su AI, Schook AB, Straume M, Schultz PG, Kay SA, Takahashi JS, Hogenesch JB. Coordinated transcription of key pathways in the mouse by the circadian clock. Cell. 109: 307-20. PMID 12015981 DOI: 10.1016/S0092-8674(02)00722-5 |
0.84 |
|
| 2002 |
Panda S, Hogenesch JB, Kay SA. Circadian rhythms from flies to human. Nature. 417: 329-35. PMID 12015613 DOI: 10.1038/417329A |
0.788 |
|
| 2002 |
Su AI, Cooke MP, Ching KA, Hakak Y, Walker JR, Wiltshire T, Orth AP, Vega RG, Sapinoso LM, Moqrich A, Patapoutian A, Hampton GM, Schultz PG, Hogenesch JB. Large-scale analysis of the human and mouse transcriptomes. Proceedings of the National Academy of Sciences of the United States of America. 99: 4465-70. PMID 11904358 DOI: 10.1073/Pnas.012025199 |
0.821 |
|
| 2001 |
Hogenesch JB, Ching KA, Batalov S, Su AI, Walker JR, Zhou Y, Kay SA, Schultz PG, Cooke MP. A comparison of the Celera and Ensembl predicted gene sets reveals little overlap in novel genes. Cell. 106: 413-5. PMID 11534548 DOI: 10.1016/S0092-8674(01)00467-6 |
0.792 |
|
| 2000 |
Bunger MK, Wilsbacher LD, Moran SM, Clendenin C, Radcliffe LA, Hogenesch JB, Simon MC, Takahashi JS, Bradfield CA. Mop3 is an essential component of the master circadian pacemaker in mammals. Cell. 103: 1009-17. PMID 11163178 DOI: 10.1016/S0092-8674(00)00205-1 |
0.829 |
|
| 2000 |
Harmer SL, Hogenesch JB, Straume M, Chang HS, Han B, Zhu T, Wang X, Kreps JA, Kay SA. Orchestrated transcription of key pathways in Arabidopsis by the circadian clock. Science (New York, N.Y.). 290: 2110-3. PMID 11118138 DOI: 10.1126/Science.290.5499.2110 |
0.835 |
|
| 2000 |
Hogenesch JB, Gu YZ, Moran SM, Shimomura K, Radcliffe LA, Takahashi JS, Bradfield CA. The basic helix-loop-helix-PAS protein MOP9 is a brain-specific heterodimeric partner of circadian and hypoxia factors. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 20: RC83. PMID 10864977 DOI: 10.1523/Jneurosci.20-13-J0002.2000 |
0.779 |
|
| 2000 |
Gu YZ, Hogenesch JB, Bradfield CA. The PAS superfamily: sensors of environmental and developmental signals. Annual Review of Pharmacology and Toxicology. 40: 519-61. PMID 10836146 DOI: 10.1146/Annurev.Pharmtox.40.1.519 |
0.701 |
|
| 1998 |
Gu YZ, Moran SM, Hogenesch JB, Wartman L, Bradfield CA. Molecular characterization and chromosomal localization of a third alpha-class hypoxia inducible factor subunit, HIF3alpha. Gene Expression. 7: 205-13. PMID 9840812 |
0.661 |
|
| 1998 |
Hogenesch JB, Gu YZ, Jain S, Bradfield CA. The basic-helix-loop-helix-PAS orphan MOP3 forms transcriptionally active complexes with circadian and hypoxia factors. Proceedings of the National Academy of Sciences of the United States of America. 95: 5474-9. PMID 9576906 DOI: 10.1073/Pnas.95.10.5474 |
0.73 |
|
| 1997 |
Luo G, Gu YZ, Jain S, Chan WK, Carr KM, Hogenesch JB, Bradfield CA. Molecular characterization of the murine Hif-1 alpha locus. Gene Expression. 6: 287-99. PMID 9368100 |
0.676 |
|
| 1997 |
Hogenesch JB, Chan WK, Jackiw VH, Brown RC, Gu YZ, Pray-Grant M, Perdew GH, Bradfield CA. Characterization of a subset of the basic-helix-loop-helix-PAS superfamily that interacts with components of the dioxin signaling pathway. The Journal of Biological Chemistry. 272: 8581-93. PMID 9079689 DOI: 10.1074/jbc.272.13.8581 |
0.685 |
|
| 1994 |
Carver LA, Hogenesch JB, Bradfield CA. Tissue specific expression of the rat Ah-receptor and ARNT mRNAs. Nucleic Acids Research. 22: 3038-44. PMID 8065918 DOI: 10.1093/Nar/22.15.3038 |
0.702 |
|
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