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Items: 1 to 50 of 111

1.

Deconvolution of pro- and antiviral genomic responses in Zika virus-infected and bystander macrophages.

Carlin AF, Vizcarra EA, Branche E, Viramontes KM, Suarez-Amaran L, Ley K, Heinz S, Benner C, Shresta S, Glass CK.

Proc Natl Acad Sci U S A. 2018 Sep 11. pii: 201807690. doi: 10.1073/pnas.1807690115. [Epub ahead of print]

2.

Transcription Elongation Can Affect Genome 3D Structure.

Heinz S, Texari L, Hayes MGB, Urbanowski M, Chang MW, Givarkes N, Rialdi A, White KM, Albrecht RA, Pache L, Marazzi I, García-Sastre A, Shaw ML, Benner C.

Cell. 2018 Sep 6;174(6):1522-1536.e22. doi: 10.1016/j.cell.2018.07.047. Epub 2018 Aug 23.

PMID:
30146161
3.

Author Correction: Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity.

Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, Downes M, Yu RT, Evans RM, Dorrestein PC, Knight R, Benner C, Anstee QM, Karin M.

Nature. 2018 Sep;561(7721):E1. doi: 10.1038/s41586-018-0304-y.

PMID:
29973714
4.

Non-operative meningiomas: long-term follow-up of 136 patients.

Romani R, Ryan G, Benner C, Pollock J.

Acta Neurochir (Wien). 2018 Jun 6. doi: 10.1007/s00701-018-3554-4. [Epub ahead of print]

PMID:
29876678
5.

Heterochromatin-Encoded Satellite RNAs Induce Breast Cancer.

Zhu Q, Hoong N, Aslanian A, Hara T, Benner C, Heinz S, Miga KH, Ke E, Verma S, Soroczynski J, Yates JR 3rd, Hunter T, Verma IM.

Mol Cell. 2018 Jun 7;70(5):842-853.e7. doi: 10.1016/j.molcel.2018.04.023. Epub 2018 May 31.

PMID:
29861157
6.

The Dfm1 Derlin Is Required for ERAD Retrotranslocation of Integral Membrane Proteins.

Neal S, Jaeger PA, Duttke SH, Benner C, Glass CK, Ideker T, Hampton RY.

Mol Cell. 2018 Mar 1;69(5):915. doi: 10.1016/j.molcel.2018.02.014. No abstract available.

PMID:
29499140
7.

Massively Parallel Sequencing of Peritoneal and Splenic B Cell Repertoires Highlights Unique Properties of B-1 Cell Antibodies.

Prohaska TA, Que X, Diehl CJ, Hendrikx S, Chang MW, Jepsen K, Glass CK, Benner C, Witztum JL.

J Immunol. 2018 Mar 1;200(5):1702-1717. doi: 10.4049/jimmunol.1700568. Epub 2018 Jan 29.

PMID:
29378911
8.

The Dfm1 Derlin Is Required for ERAD Retrotranslocation of Integral Membrane Proteins.

Neal S, Jaeger PA, Duttke SH, Benner C, K Glass C, Ideker T, Hampton RY.

Mol Cell. 2018 Jan 18;69(2):306-320.e4. doi: 10.1016/j.molcel.2017.12.012. Erratum in: Mol Cell. 2018 Mar 1;69(5):915.

PMID:
29351849
9.

Nup98 recruits the Wdr82-Set1A/COMPASS complex to promoters to regulate H3K4 trimethylation in hematopoietic progenitor cells.

Franks TM, McCloskey A, Shokirev MN, Benner C, Rathore A, Hetzer MW.

Genes Dev. 2017 Nov 15;31(22):2222-2234. doi: 10.1101/gad.306753.117. Epub 2017 Dec 21.

10.

Erratum: Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity.

Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, Downes M, Yu RT, Evans RM, Dorrestein PC, Knight R, Benner C, Anstee QM, Karin M.

Nature. 2017 Dec 21;552(7685):430. doi: 10.1038/nature25028. Epub 2017 Nov 22.

PMID:
29168501
11.

Inflammation-induced IgA+ cells dismantle anti-liver cancer immunity.

Shalapour S, Lin XJ, Bastian IN, Brain J, Burt AD, Aksenov AA, Vrbanac AF, Li W, Perkins A, Matsutani T, Zhong Z, Dhar D, Navas-Molina JA, Xu J, Loomba R, Downes M, Yu RT, Evans RM, Dorrestein PC, Knight R, Benner C, Anstee QM, Karin M.

Nature. 2017 Nov 16;551(7680):340-345. doi: 10.1038/nature24302. Epub 2017 Nov 8. Erratum in: Nature. 2017 Nov 22;:. Nature. 2018 Sep;561(7721):E1.

12.

Chromatin accessibility underlies synthetic lethality of SWI/SNF subunits in ARID1A-mutant cancers.

Kelso TWR, Porter DK, Amaral ML, Shokhirev MN, Benner C, Hargreaves DC.

Elife. 2017 Oct 2;6. pii: e30506. doi: 10.7554/eLife.30506.

13.

Mutant p53 shapes the enhancer landscape of cancer cells in response to chronic immune signaling.

Rahnamoun H, Lu H, Duttke SH, Benner C, Glass CK, Lauberth SM.

Nat Commun. 2017 Sep 29;8(1):754. doi: 10.1038/s41467-017-01117-y.

14.

Regulation of DNA repair pathway choice in S and G2 phases by the NHEJ inhibitor CYREN.

Arnoult N, Correia A, Ma J, Merlo A, Garcia-Gomez S, Maric M, Tognetti M, Benner CW, Boulton SJ, Saghatelian A, Karlseder J.

Nature. 2017 Sep 20;549(7673):548-552. doi: 10.1038/nature24023.

15.

Prospects of Fine-Mapping Trait-Associated Genomic Regions by Using Summary Statistics from Genome-wide Association Studies.

Benner C, Havulinna AS, Järvelin MR, Salomaa V, Ripatti S, Pirinen M.

Am J Hum Genet. 2017 Oct 5;101(4):539-551. doi: 10.1016/j.ajhg.2017.08.012. Epub 2017 Sep 21.

16.

Corrigendum: Evolution of a transcriptional regulator from a transmembrane nucleoporin.

Franks TM, Benner C, Narvaiza I, Marchetto MCN, Young JM, Malik HS, Gage FH, Hetzer MW.

Genes Dev. 2017 Apr 15;31(8):845. doi: 10.1101/gad.300699.117. No abstract available.

17.

biMM: efficient estimation of genetic variances and covariances for cohorts with high-dimensional phenotype measurements.

Pirinen M, Benner C, Marttinen P, Järvelin MR, Rivas MA, Ripatti S.

Bioinformatics. 2017 Aug 1;33(15):2405-2407. doi: 10.1093/bioinformatics/btx166.

18.

Successful emergency department interventions that reduce time to antibiotics in febrile pediatric cancer patients.

Spencer S, Nypaver M, Hebert K, Benner C, Stanley R, Cohen D, Rogers A, Goldstick J, Mahajan P.

BMJ Qual Improv Rep. 2017 Mar 7;6(1). pii: u212406.w4933. doi: 10.1136/bmjquality.u212406.w4933. eCollection 2017.

19.

Mesothelin/mucin 16 signaling in activated portal fibroblasts regulates cholestatic liver fibrosis.

Koyama Y, Wang P, Liang S, Iwaisako K, Liu X, Xu J, Zhang M, Sun M, Cong M, Karin D, Taura K, Benner C, Heinz S, Bera T, Brenner DA, Kisseleva T.

J Clin Invest. 2017 Apr 3;127(4):1254-1270. doi: 10.1172/JCI88845. Epub 2017 Mar 13.

20.

Nucleoporin-mediated regulation of cell identity genes.

Ibarra A, Benner C, Tyagi S, Cool J, Hetzer MW.

Genes Dev. 2016 Oct 15;30(20):2253-2258. Epub 2016 Nov 2.

21.

Nascent RNA sequencing reveals distinct features in plant transcription.

Hetzel J, Duttke SH, Benner C, Chory J.

Proc Natl Acad Sci U S A. 2016 Oct 25;113(43):12316-12321. Epub 2016 Oct 11.

22.

Genome-Wide Meta-Analysis of Sciatica in Finnish Population.

Lemmelä S, Solovieva S, Shiri R, Benner C, Heliövaara M, Kettunen J, Anttila V, Ripatti S, Perola M, Seppälä I, Juonala M, Kähönen M, Salomaa V, Viikari J, Raitakari OT, Lehtimäki T, Palotie A, Viikari-Juntura E, Husgafvel-Pursiainen K.

PLoS One. 2016 Oct 20;11(10):e0163877. doi: 10.1371/journal.pone.0163877. eCollection 2016.

23.

Making Improvements in the ED: Does ED Busyness Affect Time to Antibiotics in Febrile Pediatric Oncology Patients Presenting to the Emergency Department?

Benner CA, Mora E, Mueller E, Seagull FJ, Walkovich K, Johnson K, Halverson S, Rothman E, Hucks G, Younger JG, Nypaver MM.

Pediatr Emerg Care. 2018 May;34(5):310-316. doi: 10.1097/PEC.0000000000000882.

PMID:
27749799
24.

Emergence of a Homo sapiens-specific gene family and chromosome 16p11.2 CNV susceptibility.

Nuttle X, Giannuzzi G, Duyzend MH, Schraiber JG, Narvaiza I, Sudmant PH, Penn O, Chiatante G, Malig M, Huddleston J, Benner C, Camponeschi F, Ciofi-Baffoni S, Stessman HA, Marchetto MC, Denman L, Harshman L, Baker C, Raja A, Penewit K, Janke N, Tang WJ, Ventura M, Banci L, Antonacci F, Akey JM, Amemiya CT, Gage FH, Reymond A, Eichler EE.

Nature. 2016 Aug 11;536(7615):205-9. Epub 2016 Aug 3.

25.

53BP1 and USP28 mediate p53 activation and G1 arrest after centrosome loss or extended mitotic duration.

Meitinger F, Anzola JV, Kaulich M, Richardson A, Stender JD, Benner C, Glass CK, Dowdy SF, Desai A, Shiau AK, Oegema K.

J Cell Biol. 2016 Jul 18;214(2):155-66. doi: 10.1083/jcb.201604081.

26.

Reduced genomic tumor heterogeneity after neoadjuvant chemotherapy is related to favorable outcome in patients with esophageal adenocarcinoma.

Obulkasim A, Ylstra B, van Essen HF, Benner C, Stenning S, Langley R, Allum W, Cunningham D, Inam I, Hewitt LC, West NP, Meijer GA, van de Wiel MA, Grabsch HI.

Oncotarget. 2016 Jul 12;7(28):44084-44095. doi: 10.18632/oncotarget.9857.

27.

Evolution of a transcriptional regulator from a transmembrane nucleoporin.

Franks TM, Benner C, Narvaiza I, Marchetto MC, Young JM, Malik HS, Gage FH, Hetzer MW.

Genes Dev. 2016 May 15;30(10):1155-71. doi: 10.1101/gad.280941.116. Epub 2016 May 19. Erratum in: Genes Dev. 2017 Apr 15;31(8):845.

28.

Topoisomerase 1 inhibition suppresses inflammatory genes and protects from death by inflammation.

Rialdi A, Campisi L, Zhao N, Lagda AC, Pietzsch C, Ho JSY, Martinez-Gil L, Fenouil R, Chen X, Edwards M, Metreveli G, Jordan S, Peralta Z, Munoz-Fontela C, Bouvier N, Merad M, Jin J, Weirauch M, Heinz S, Benner C, van Bakel H, Basler C, García-Sastre A, Bukreyev A, Marazzi I.

Science. 2016 May 27;352(6289):aad7993. doi: 10.1126/science.aad7993. Epub 2016 Apr 28.

29.

Cardiac-Specific Disruption of GH Receptor Alters Glucose Homeostasis While Maintaining Normal Cardiac Performance in Adult Male Mice.

Jara A, Liu X, Sim D, Benner CM, Duran-Ortiz S, Qian Y, List EO, Berryman DE, Kim JK, Kopchick JJ.

Endocrinology. 2016 May;157(5):1929-41. doi: 10.1210/en.2015-1686. Epub 2016 Apr 1.

30.

FINEMAP: efficient variable selection using summary data from genome-wide association studies.

Benner C, Spencer CC, Havulinna AS, Salomaa V, Ripatti S, Pirinen M.

Bioinformatics. 2016 May 15;32(10):1493-501. doi: 10.1093/bioinformatics/btw018. Epub 2016 Jan 14.

31.

BRD4 is a novel therapeutic target for liver fibrosis.

Ding N, Hah N, Yu RT, Sherman MH, Benner C, Leblanc M, He M, Liddle C, Downes M, Evans RM.

Proc Natl Acad Sci U S A. 2015 Dec 22;112(51):15713-8. doi: 10.1073/pnas.1522163112. Epub 2015 Dec 7.

32.

Genome-Wide Analysis of Evolutionary Markers of Human Influenza A(H1N1)pdm09 and A(H3N2) Viruses May Guide Selection of Vaccine Strain Candidates.

Belanov SS, Bychkov D, Benner C, Ripatti S, Ojala T, Kankainen M, Kai Lee H, Wei-Tze Tang J, Kainov DE.

Genome Biol Evol. 2015 Nov 27;7(12):3472-83. doi: 10.1093/gbe/evv240.

33.

Perspectives on Unidirectional versus Divergent Transcription.

Duttke SH, Lacadie SA, Ibrahim MM, Glass CK, Corcoran DL, Benner C, Heinz S, Kadonaga JT, Ohler U.

Mol Cell. 2015 Nov 5;60(3):348-9. doi: 10.1016/j.molcel.2015.10.014. No abstract available.

34.

Primate-specific ORF0 contributes to retrotransposon-mediated diversity.

Denli AM, Narvaiza I, Kerman BE, Pena M, Benner C, Marchetto MC, Diedrich JK, Aslanian A, Ma J, Moresco JJ, Moore L, Hunter T, Saghatelian A, Gage FH.

Cell. 2015 Oct 22;163(3):583-93. doi: 10.1016/j.cell.2015.09.025. Epub 2015 Oct 22.

35.

New roles for DNA cytosine modification, eRNA, anchors, and superanchors in developing B cell progenitors.

Benner C, Isoda T, Murre C.

Proc Natl Acad Sci U S A. 2015 Oct 13;112(41):12776-81. doi: 10.1073/pnas.1512995112. Epub 2015 Sep 28.

36.

Hypoxia Drives Breast Tumor Malignancy through a TET-TNFα-p38-MAPK Signaling Axis.

Wu MZ, Chen SF, Nieh S, Benner C, Ger LP, Jan CI, Ma L, Chen CH, Hishida T, Chang HT, Lin YS, Montserrat N, Gascon P, Sancho-Martinez I, Izpisua Belmonte JC.

Cancer Res. 2015 Sep 15;75(18):3912-24. doi: 10.1158/0008-5472.CAN-14-3208. Epub 2015 Aug 20.

37.

Comparative Analysis of Whole-Genome Sequences of Influenza A(H1N1)pdm09 Viruses Isolated from Hospitalized and Nonhospitalized Patients Identifies Missense Mutations That Might Be Associated with Patient Hospital Admissions in Finland during 2009 to 2014.

Mishel P, Ojala T, Benner C, Lakspere T, Bychkov D, Jalovaara P, Kakkola L, Kallio-Kokko H, Kantele A, Kankainen M, Ikonen N, Ripatti S, Julkunen I, Kainov DE.

Genome Announc. 2015 Jul 30;3(4). pii: e00676-15. doi: 10.1128/genomeA.00676-15.

38.

Genetic Loci Associated with Allergic Sensitization in Lithuanians.

Šaulienė I, Greičiuvienė J, Šukienė L, Juškevičiūtė N, Benner C, Zinkevičienė A, Ripatti S, Donner K, Kainov D.

PLoS One. 2015 Jul 27;10(7):e0134188. doi: 10.1371/journal.pone.0134188. eCollection 2015.

39.

Abnormal Regulation of Microvascular Tone in a Murine Model of Sickle Cell Disease Assessed by Contrast Ultrasound.

Wu MD, Belcik JT, Qi Y, Zhao Y, Benner C, Pei H, Linden J, Lindner JR.

J Am Soc Echocardiogr. 2015 Sep;28(9):1122-8. doi: 10.1016/j.echo.2015.05.012. Epub 2015 Jun 27.

41.

The nucleoporin Nup153 regulates embryonic stem cell pluripotency through gene silencing.

Jacinto FV, Benner C, Hetzer MW.

Genes Dev. 2015 Jun 15;29(12):1224-38. doi: 10.1101/gad.260919.115. Epub 2015 Jun 16.

42.

An alternative pluripotent state confers interspecies chimaeric competency.

Wu J, Okamura D, Li M, Suzuki K, Luo C, Ma L, He Y, Li Z, Benner C, Tamura I, Krause MN, Nery JR, Du T, Zhang Z, Hishida T, Takahashi Y, Aizawa E, Kim NY, Lajara J, Guillen P, Campistol JM, Esteban CR, Ross PJ, Saghatelian A, Ren B, Ecker JR, Izpisua Belmonte JC.

Nature. 2015 May 21;521(7552):316-21. doi: 10.1038/nature14413. Epub 2015 May 6.

43.

SMADs and YAP compete to control elongation of β-catenin:LEF-1-recruited RNAPII during hESC differentiation.

Estarás C, Benner C, Jones KA.

Mol Cell. 2015 Jun 4;58(5):780-93. doi: 10.1016/j.molcel.2015.04.001. Epub 2015 Apr 30.

44.

Targeting the spliceosome in chronic lymphocytic leukemia with the macrolides FD-895 and pladienolide-B.

Kashyap MK, Kumar D, Villa R, La Clair JJ, Benner C, Sasik R, Jones H, Ghia EM, Rassenti LZ, Kipps TJ, Burkart MD, Castro JE.

Haematologica. 2015 Jul;100(7):945-54. doi: 10.3324/haematol.2014.122069. Epub 2015 Apr 10.

45.

Senataxin suppresses the antiviral transcriptional response and controls viral biogenesis.

Miller MS, Rialdi A, Ho JS, Tilove M, Martinez-Gil L, Moshkina NP, Peralta Z, Noel J, Melegari C, Maestre AM, Mitsopoulos P, Madrenas J, Heinz S, Benner C, Young JA, Feagins AR, Basler CF, Fernandez-Sesma A, Becherel OJ, Lavin MF, van Bakel H, Marazzi I.

Nat Immunol. 2015 May;16(5):485-94. doi: 10.1038/ni.3132. Epub 2015 Mar 30.

46.

Concurrent urologic and palliative care after cystectomy for treatment of muscle-invasive bladder cancer.

Rabow MW, Benner C, Shepard N, Meng MV.

Urol Oncol. 2015 Jun;33(6):267.e23-9. doi: 10.1016/j.urolonc.2015.02.012. Epub 2015 Mar 23.

PMID:
25814144
47.

An evolutionarily conserved DNA architecture determines target specificity of the TWIST family bHLH transcription factors.

Chang AT, Liu Y, Ayyanathan K, Benner C, Jiang Y, Prokop JW, Paz H, Wang D, Li HR, Fu XD, Rauscher FJ 3rd, Yang J.

Genes Dev. 2015 Mar 15;29(6):603-16. doi: 10.1101/gad.242842.114. Epub 2015 Mar 11.

48.

Identification of novel long noncoding RNAs underlying vertebrate cardiovascular development.

Kurian L, Aguirre A, Sancho-Martinez I, Benner C, Hishida T, Nguyen TB, Reddy P, Nivet E, Krause MN, Nelles DA, Esteban CR, Campistol JM, Yeo GW, Belmonte JCI.

Circulation. 2015 Apr 7;131(14):1278-1290. doi: 10.1161/CIRCULATIONAHA.114.013303. Epub 2015 Mar 4.

49.

The selection and function of cell type-specific enhancers.

Heinz S, Romanoski CE, Benner C, Glass CK.

Nat Rev Mol Cell Biol. 2015 Mar;16(3):144-54. doi: 10.1038/nrm3949. Epub 2015 Feb 4. Review.

50.

Human promoters are intrinsically directional.

Duttke SHC, Lacadie SA, Ibrahim MM, Glass CK, Corcoran DL, Benner C, Heinz S, Kadonaga JT, Ohler U.

Mol Cell. 2015 Feb 19;57(4):674-684. doi: 10.1016/j.molcel.2014.12.029. Epub 2015 Jan 29.

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