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Items: 43

1.

Integrative multi-omics analysis identifies a prognostic miRNA signature and a targetable miR-21-3p/TSC2/mTOR axis in metastatic pheochromocytoma/paraganglioma.

Calsina B, Castro-Vega LJ, Torres-Pérez R, Inglada-Pérez L, Currás-Freixes M, Roldán-Romero JM, Mancikova V, Letón R, Remacha L, Santos M, Burnichon N, Lussey-Lepoutre C, Rapizzi E, Graña O, Álvarez-Escolá C, de Cubas AA, Lanillos J, Cordero-Barreal A, Martínez-Montes ÁM, Bellucci A, Amar L, Fernandes-Rosa FL, Calatayud M, Aller J, Lamas C, Sastre-Marcos J, Canu L, Korpershoek E, Timmers HJ, Lenders JW, Beuschlein F, Fassnacht-Capeller M, Eisenhofer G, Mannelli M, Al-Shahrour F, Favier J, Rodríguez-Antona C, Cascón A, Montero-Conde C, Gimenez-Roqueplo AP, Robledo M.

Theranostics. 2019 Jul 9;9(17):4946-4958. doi: 10.7150/thno.35458. eCollection 2019.

2.

TWEAK increases CD74 expression and sensitizes to DDT proinflammatory actions in tubular cells.

Valiño-Rivas L, Cuarental L, Grana O, Bucala R, Leng L, Sanz A, Gomez G, Ortiz A, Sanchez-Niño MD.

PLoS One. 2018 Jun 20;13(6):e0199391. doi: 10.1371/journal.pone.0199391. eCollection 2018.

3.

Saa3 is a key mediator of the protumorigenic properties of cancer-associated fibroblasts in pancreatic tumors.

Djurec M, Graña O, Lee A, Troulé K, Espinet E, Cabras L, Navas C, Blasco MT, Martín-Díaz L, Burdiel M, Li J, Liu Z, Vallespinós M, Sanchez-Bueno F, Sprick MR, Trumpp A, Sainz B Jr, Al-Shahrour F, Rabadan R, Guerra C, Barbacid M.

Proc Natl Acad Sci U S A. 2018 Feb 6;115(6):E1147-E1156. doi: 10.1073/pnas.1717802115. Epub 2018 Jan 19.

4.

Systems analysis identifies melanoma-enriched pro-oncogenic networks controlled by the RNA binding protein CELF1.

Cifdaloz M, Osterloh L, Graña O, Riveiro-Falkenbach E, Ximénez-Embún P, Muñoz J, Tejedo C, Calvo TG, Karras P, Olmeda D, Miñana B, Gómez-López G, Cañon E, Eyras E, Guo H, Kappes F, Ortiz-Romero PL, Rodríguez-Peralto JL, Megías D, Valcárcel J, Soengas MS.

Nat Commun. 2017 Dec 21;8(1):2249. doi: 10.1038/s41467-017-02353-y.

5.

Bicycle: a bioinformatics pipeline to analyze bisulfite sequencing data.

Graña O, López-Fernández H, Fdez-Riverola F, González Pisano D, Glez-Peña D.

Bioinformatics. 2018 Apr 15;34(8):1414-1415. doi: 10.1093/bioinformatics/btx778.

PMID:
29211825
6.

Inactivation of Capicua in adult mice causes T-cell lymphoblastic lymphoma.

Simón-Carrasco L, Graña O, Salmón M, Jacob HKC, Gutierrez A, Jiménez G, Drosten M, Barbacid M.

Genes Dev. 2017 Jul 15;31(14):1456-1468. doi: 10.1101/gad.300244.117. Epub 2017 Aug 21.

7.

Whole-body imaging of lymphovascular niches identifies pre-metastatic roles of midkine.

Olmeda D, Cerezo-Wallis D, Riveiro-Falkenbach E, Pennacchi PC, Contreras-Alcalde M, Ibarz N, Cifdaloz M, Catena X, Calvo TG, Cañón E, Alonso-Curbelo D, Suarez J, Osterloh L, Graña O, Mulero F, Megías D, Cañamero M, Martínez-Torrecuadrada JL, Mondal C, Di Martino J, Lora D, Martinez-Corral I, Bravo-Cordero JJ, Muñoz J, Puig S, Ortiz-Romero P, Rodriguez-Peralto JL, Ortega S, Soengas MS.

Nature. 2017 Jun 28;546(7660):676-680. doi: 10.1038/nature22977.

8.

Programmed mitophagy is essential for the glycolytic switch during cell differentiation.

Esteban-Martínez L, Sierra-Filardi E, McGreal RS, Salazar-Roa M, Mariño G, Seco E, Durand S, Enot D, Graña O, Malumbres M, Cvekl A, Cuervo AM, Kroemer G, Boya P.

EMBO J. 2017 Jun 14;36(12):1688-1706. doi: 10.15252/embj.201695916. Epub 2017 May 2.

9.

Hepatocellular Carcinomas Originate Predominantly from Hepatocytes and Benign Lesions from Hepatic Progenitor Cells.

Tummala KS, Brandt M, Teijeiro A, Graña O, Schwabe RF, Perna C, Djouder N.

Cell Rep. 2017 Apr 18;19(3):584-600. doi: 10.1016/j.celrep.2017.03.059.

10.

Genomic and Molecular Screenings Identify Different Mechanisms for Acquired Resistance to MET Inhibitors in Lung Cancer Cells.

Gimenez-Xavier P, Pros E, Bonastre E, Moran S, Aza A, Graña O, Gomez-Lopez G, Derdak S, Dabad M, Esteve-Codina A, Hernandez Mora JR, Salinas-Chaparro D, Esteller M, Pisano D, Sanchez-Cespedes M.

Mol Cancer Ther. 2017 Jul;16(7):1366-1376. doi: 10.1158/1535-7163.MCT-17-0104. Epub 2017 Apr 10.

11.

Liver carcinogenesis by FOS-dependent inflammation and cholesterol dysregulation.

Bakiri L, Hamacher R, Graña O, Guío-Carrión A, Campos-Olivas R, Martinez L, Dienes HP, Thomsen MK, Hasenfuss SC, Wagner EF.

J Exp Med. 2017 May 1;214(5):1387-1409. doi: 10.1084/jem.20160935. Epub 2017 Mar 29.

12.

Genomic Profiling of Patient-Derived Xenografts for Lung Cancer Identifies B2M Inactivation Impairing Immunorecognition.

Pereira C, Gimenez-Xavier P, Pros E, Pajares MJ, Moro M, Gomez A, Navarro A, Condom E, Moran S, Gomez-Lopez G, Graña O, Rubio-Camarillo M, Martinez-Martí A, Yokota J, Carretero J, Galbis JM, Nadal E, Pisano D, Sozzi G, Felip E, Montuenga LM, Roz L, Villanueva A, Sanchez-Cespedes M.

Clin Cancer Res. 2017 Jun 15;23(12):3203-3213. doi: 10.1158/1078-0432.CCR-16-1946. Epub 2017 Mar 16.

13.

Lineage-specific roles of the cytoplasmic polyadenylation factor CPEB4 in the regulation of melanoma drivers.

Pérez-Guijarro E, Karras P, Cifdaloz M, Martínez-Herranz R, Cañón E, Graña O, Horcajada-Reales C, Alonso-Curbelo D, Calvo TG, Gómez-López G, Bellora N, Riveiro-Falkenbach E, Ortiz-Romero PL, Rodríguez-Peralto JL, Maestre L, Roncador G, de Agustín Asensio JC, Goding CR, Eyras E, Megías D, Méndez R, Soengas MS.

Nat Commun. 2016 Nov 18;7:13418. doi: 10.1038/ncomms13418.

14.

Deep sequencing reveals microRNAs predictive of antiangiogenic drug response.

García-Donas J, Beuselinck B, Inglada-Pérez L, Graña O, Schöffski P, Wozniak A, Bechter O, Apellániz-Ruiz M, Leandro-García LJ, Esteban E, Castellano DE, González Del Alba A, Climent MA, Hernando S, Arranz JA, Morente M, Pisano DG, Robledo M, Rodriguez-Antona C.

JCI Insight. 2016 Jul 7;1(10):e86051. doi: 10.1172/jci.insight.86051.

15.

NSD2 contributes to oncogenic RAS-driven transcription in lung cancer cells through long-range epigenetic activation.

García-Carpizo V, Sarmentero J, Han B, Graña O, Ruiz-Llorente S, Pisano DG, Serrano M, Brooks HB, Campbell RM, Barrero MJ.

Sci Rep. 2016 Sep 8;6:32952. doi: 10.1038/srep32952.

16.

Telomeric RNAs are essential to maintain telomeres.

Montero JJ, López de Silanes I, Graña O, Blasco MA.

Nat Commun. 2016 Aug 17;7:12534. doi: 10.1038/ncomms12534.

17.

Chronic skin inflammation leads to bone loss by IL-17-mediated inhibition of Wnt signaling in osteoblasts.

Uluçkan Ö, Jimenez M, Karbach S, Jeschke A, Graña O, Keller J, Busse B, Croxford AL, Finzel S, Koenders M, van den Berg W, Schinke T, Amling M, Waisman A, Schett G, Wagner EF.

Sci Transl Med. 2016 Mar 16;8(330):330ra37. doi: 10.1126/scitranslmed.aad8996. Epub 2016 Mar 16.

PMID:
27089206
18.

MYC/PGC-1α Balance Determines the Metabolic Phenotype and Plasticity of Pancreatic Cancer Stem Cells.

Sancho P, Burgos-Ramos E, Tavera A, Bou Kheir T, Jagust P, Schoenhals M, Barneda D, Sellers K, Campos-Olivas R, Graña O, Viera CR, Yuneva M, Sainz B Jr, Heeschen C.

Cell Metab. 2015 Oct 6;22(4):590-605. doi: 10.1016/j.cmet.2015.08.015. Epub 2015 Sep 10.

19.

The pluripotency factor NANOG promotes the formation of squamous cell carcinomas.

Palla AR, Piazzolla D, Alcazar N, Cañamero M, Graña O, Gómez-López G, Dominguez O, Dueñas M, Paramio JM, Serrano M.

Sci Rep. 2015 May 19;5:10205. doi: 10.1038/srep10205.

20.

Nuclear DICKKOPF-1 as a biomarker of chemoresistance and poor clinical outcome in colorectal cancer.

Aguilera Ó, González-Sancho JM, Zazo S, Rincón R, Fernández AF, Tapia O, Canals F, Morte B, Calvanese V, Orgaz JL, Niell N, Aguilar S, Freije JM, Graña O, Pisano DG, Borrero A, Martínez-Useros J, Jiménez B, Fraga MF, García-Foncillas J, López-Otín C, Lafarga M, Rojo F, Muñoz A.

Oncotarget. 2015 Mar 20;6(8):5903-17.

21.

The contribution of cohesin-SA1 to gene expression and chromatin architecture in two murine tissues.

Cuadrado A, Remeseiro S, Graña O, Pisano DG, Losada A.

Nucleic Acids Res. 2015 Mar 31;43(6):3056-67. doi: 10.1093/nar/gkv144. Epub 2015 Mar 3.

22.

Inhibition of de novo NAD(+) synthesis by oncogenic URI causes liver tumorigenesis through DNA damage.

Tummala KS, Gomes AL, Yilmaz M, Graña O, Bakiri L, Ruppen I, Ximénez-Embún P, Sheshappanavar V, Rodriguez-Justo M, Pisano DG, Wagner EF, Djouder N.

Cancer Cell. 2014 Dec 8;26(6):826-839. doi: 10.1016/j.ccell.2014.10.002. Epub 2014 Nov 20.

23.

Identification of TERRA locus unveils a telomere protection role through association to nearly all chromosomes.

López de Silanes I, Graña O, De Bonis ML, Dominguez O, Pisano DG, Blasco MA.

Nat Commun. 2014 Sep 3;5:4723. doi: 10.1038/ncomms5723.

24.

RAB7 controls melanoma progression by exploiting a lineage-specific wiring of the endolysosomal pathway.

Alonso-Curbelo D, Riveiro-Falkenbach E, Pérez-Guijarro E, Cifdaloz M, Karras P, Osterloh L, Megías D, Cañón E, Calvo TG, Olmeda D, Gómez-López G, Graña O, Sánchez-Arévalo Lobo VJ, Pisano DG, Wang HW, Ortiz-Romero P, Tormo D, Hoek K, Rodríguez-Peralto JL, Joyce JA, Soengas MS.

Cancer Cell. 2014 Jul 14;26(1):61-76. doi: 10.1016/j.ccr.2014.04.030. Epub 2014 Jun 26.

25.

PLCG1 mutations in cutaneous T-cell lymphomas.

Vaqué JP, Gómez-López G, Monsálvez V, Varela I, Martínez N, Pérez C, Domínguez O, Graña O, Rodríguez-Peralto JL, Rodríguez-Pinilla SM, González-Vela C, Rubio-Camarillo M, Martín-Sánchez E, Pisano DG, Papadavid E, Papadaki T, Requena L, García-Marco JA, Méndez M, Provencio M, Hospital M, Suárez-Massa D, Postigo C, San Segundo D, López-Hoyos M, Ortiz-Romero PL, Piris MA, Sánchez-Beato M.

Blood. 2014 Mar 27;123(13):2034-43. doi: 10.1182/blood-2013-05-504308. Epub 2014 Feb 4.

PMID:
24497536
26.

CSF3R T618I co-occurs with mutations of splicing and epigenetic genes and with a new PIM3 truncated fusion gene in chronic neutrophilic leukemia.

Menezes J, Makishima H, Gomez I, Acquadro F, Gómez-López G, Graña O, Dopazo A, Alvarez S, Trujillo M, Pisano DG, Maciejewski JP, Cigudosa JC.

Blood Cancer J. 2013 Nov 8;3:e158. doi: 10.1038/bcj.2013.55. No abstract available.

27.

Reprogramming in vivo produces teratomas and iPS cells with totipotency features.

Abad M, Mosteiro L, Pantoja C, Cañamero M, Rayon T, Ors I, Graña O, Megías D, Domínguez O, Martínez D, Manzanares M, Ortega S, Serrano M.

Nature. 2013 Oct 17;502(7471):340-5. doi: 10.1038/nature12586. Epub 2013 Sep 11.

PMID:
24025773
28.

New mutations in chronic lymphocytic leukemia identified by target enrichment and deep sequencing.

Doménech E, Gómez-López G, Gzlez-Peña D, López M, Herreros B, Menezes J, Gómez-Lozano N, Carro A, Graña O, Pisano DG, Domínguez O, García-Marco JA, Piris MA, Sánchez-Beato M.

PLoS One. 2012;7(6):e38158. doi: 10.1371/journal.pone.0038158. Epub 2012 Jun 1.

29.

Long-range epigenetic silencing associates with deregulation of Ikaros targets in colorectal cancer cells.

Javierre BM, Rodriguez-Ubreva J, Al-Shahrour F, Corominas M, Graña O, Ciudad L, Agirre X, Pisano DG, Valencia A, Roman-Gomez J, Calasanz MJ, Prosper F, Esteller M, Gonzalez-Sarmiento R, Ballestar E.

Mol Cancer Res. 2011 Aug;9(8):1139-51. doi: 10.1158/1541-7786.MCR-10-0515. Epub 2011 Jul 7. Erratum in: Mol Cancer Res. 2011 Oct;9(10):1429-32.

30.

A DNA methylation fingerprint of 1628 human samples.

Fernandez AF, Assenov Y, Martin-Subero JI, Balint B, Siebert R, Taniguchi H, Yamamoto H, Hidalgo M, Tan AC, Galm O, Ferrer I, Sanchez-Cespedes M, Villanueva A, Carmona J, Sanchez-Mut JV, Berdasco M, Moreno V, Capella G, Monk D, Ballestar E, Ropero S, Martinez R, Sanchez-Carbayo M, Prosper F, Agirre X, Fraga MF, Graña O, Perez-Jurado L, Mora J, Puig S, Prat J, Badimon L, Puca AA, Meltzer SJ, Lengauer T, Bridgewater J, Bock C, Esteller M.

Genome Res. 2012 Feb;22(2):407-19. doi: 10.1101/gr.119867.110. Epub 2011 May 25.

31.

MidA is a putative methyltransferase that is required for mitochondrial complex I function.

Carilla-Latorre S, Gallardo ME, Annesley SJ, Calvo-Garrido J, Graña O, Accari SL, Smith PK, Valencia A, Garesse R, Fisher PR, Escalante R.

J Cell Sci. 2010 May 15;123(Pt 10):1674-83. doi: 10.1242/jcs.066076. Epub 2010 Apr 20.

32.

Assessment of domain boundary predictions and the prediction of intramolecular contacts in CASP8.

Ezkurdia I, Graña O, Izarzugaza JM, Tress ML.

Proteins. 2009;77 Suppl 9:196-209. doi: 10.1002/prot.22554.

PMID:
19714769
33.

The dynamic DNA methylomes of double-stranded DNA viruses associated with human cancer.

Fernandez AF, Rosales C, Lopez-Nieva P, Graña O, Ballestar E, Ropero S, Espada J, Melo SA, Lujambio A, Fraga MF, Pino I, Javierre B, Carmona FJ, Acquadro F, Steenbergen RD, Snijders PJ, Meijer CJ, Pineau P, Dejean A, Lloveras B, Capella G, Quer J, Buti M, Esteban JI, Allende H, Rodriguez-Frias F, Castellsague X, Minarovits J, Ponce J, Capello D, Gaidano G, Cigudosa JC, Gomez-Lopez G, Pisano DG, Valencia A, Piris MA, Bosch FX, Cahir-McFarland E, Kieff E, Esteller M.

Genome Res. 2009 Mar;19(3):438-51. doi: 10.1101/gr.083550.108. Epub 2009 Feb 10.

34.

The REGIA database (RegiaDB): status, limitations and future developments.

Alonso-Allende R, Fernández-González JM, Graña O, Valencia A.

Comp Funct Genomics. 2002;3(2):109-14. doi: 10.1002/cfg.144. No abstract available.

35.

Assessment of intramolecular contact predictions for CASP7.

Izarzugaza JM, Graña O, Tress ML, Valencia A, Clarke ND.

Proteins. 2007;69 Suppl 8:152-8.

PMID:
17671976
36.

CASP6 assessment of contact prediction.

Graña O, Baker D, MacCallum RM, Meiler J, Punta M, Rost B, Tress ML, Valencia A.

Proteins. 2005;61 Suppl 7:214-24.

PMID:
16187364
37.

Assessment of predictions submitted for the CASP6 comparative modeling category.

Tress M, Ezkurdia I, Graña O, López G, Valencia A.

Proteins. 2005;61 Suppl 7:27-45.

PMID:
16187345
38.

Scoring docking models with evolutionary information.

Tress M, de Juan D, Graña O, Gómez MJ, Gómez-Puertas P, González JM, López G, Valencia A.

Proteins. 2005 Aug 1;60(2):275-80.

PMID:
15981273
39.

EVAcon: a protein contact prediction evaluation service.

Graña O, Eyrich VA, Pazos F, Rost B, Valencia A.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W347-51.

40.

SQUARE--determining reliable regions in sequence alignments.

Tress ML, Graña O, Valencia A.

Bioinformatics. 2004 Apr 12;20(6):974-5. Epub 2004 Feb 5.

PMID:
14764569
41.

CAFASP3 in the spotlight of EVA.

Eyrich VA, Przybylski D, Koh IY, Grana O, Pazos F, Valencia A, Rost B.

Proteins. 2003;53 Suppl 6:548-60.

PMID:
14579345
42.

EVA: Evaluation of protein structure prediction servers.

Koh IY, Eyrich VA, Marti-Renom MA, Przybylski D, Madhusudhan MS, Eswar N, Graña O, Pazos F, Valencia A, Sali A, Rost B.

Nucleic Acids Res. 2003 Jul 1;31(13):3311-5.

43.

A neural network approach to evaluate fold recognition results.

Juan D, Graña O, Pazos F, Fariselli P, Casadio R, Valencia A.

Proteins. 2003 Mar 1;50(4):600-8.

PMID:
12577266

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