People

Daniel Sobral

Independent Researcher

Position
Independent Researcher (since 2019)
Email
dsobral@fct.unl.pt

Main publications

  • Passagem-Santos, D; Bonnet, M; Sobral, D; Trancoso, I; Silva, JG; Barreto, VM; Athanasiadis, A; Demengeot, J; Pereira-Leal, JB. 2016. RAG Recombinase as a Selective Pressure for Genome Evolution. Genome Biology and Evolution, 8(11), DOI:
  • Zerbino, DR; Johnson, N; Juetteman, T; Sheppard, D; Wilder, SP; Lavidas, I; Nuhn, M; Perry, E; Raffaillac-Desfosses, Q; Sobral, D; Keefe, D; Gräf, S; Ahmed, I; Kinsella, R; Pritchard, B; Brent, S; Amode, R; Parker, A; Trevanion, S; Birney, E; Dunham, I; Flicek, P. 2016. Ensembl regulation resources. JOURNAL OF DATABASE MANAGEMENT, 2016, DOI: 10.1093/database/bav119
  • Barroso-Batista, J; Sousa, A; Lourenço, M; Bergman, M-L; Sobral, D; Demengeot, J; Xavier, KB; Gordo, I. 2014. The First Steps of Adaptation of Escherichia coli to the Gut Are Dominated by Soft Sweeps. PLoS Genetics, 10(3), DOI: 10.1371/journal.pgen.1004182
  • Guilgur, LG; Prudêncio, P; Sobral, D; Liszekova, D; Rosa, A; Martinho, RG. 2014. Requirement for highly efficient pre-mRNA splicing during Drosophila early embryonic development. eLife, 2014(3), DOI: 10.7554/elife.02181.001
  • Flicek, P. and Ahmed, I. and Amode, M. R. and Barrell, D. and Beal, K. and Brent, S. and Carvalho-Silva, D. and Clapham, P. and Coates, G. and Fairley, S. and Fitzgerald, S. and Gil, L. and Garcia-Giron, C. and Gordon, L. and Hourlier, T. and Hunt, S. and Juettemann, T. and Kahari, A. K. and Keenan, S. and Komorowska, M. and Kulesha, E. and Longden, I. and Maurel, T. and McLaren, W. M. and Muffato, M. and Nag, R. and Overduin, B. and Pignatelli, M. and Pritchard, B. and Pritchard, E. and Riat, H. S. and Ritchie, G. R. and Ruffier, M. and Schuster, M. and Sheppard, D. and Sobral, D. and Taylor, K. and Thormann, A. and Trevanion, S. and White, S. and Wilder, S. P. and Aken, B. L. and Birney, E. and Cunningham, F. and Dunham, I. and Harrow, J. and Herrero, J. and Hubbard, T. J. and Johnson, N. and Kinsella, R. and Parker, A. and Spudich, G. and Yates, A. and Zadissa, A. and Searle, S. M.. 2013. Ensembl 2013. NUCLEIC ACIDS RESEARCH, 41(Database issue), DOI:
  • Dunham, I; Kundaje, A; Aldred, SF; Collins, PJ; Davis, CA; Doyle, F; Epstein, CB; Frietze, S; Harrow, J; Kaul, R; Khatun, J; Lajoie, BR; Landt, SG; Lee, B-K; Pauli, F; Rosenbloom, KR; Sabo, P; Safi, A; Sanyal, A; Shoresh, N; Simon, JM; Song, L; Trinklein, ND; Altshuler, RC; Birney, E; Brown, JB; Cheng, C; Djebali, S; Dong, X; Ernst, J; Furey, TS; Gerstein, M; Giardine, B; Greven, M; Hardison, RC; Harris, RS; Herrero, J; Hoffman, MM; Iyer, S; Kellis, M; Kheradpour, P; Lassmann, T; Li, Q; Lin, X; Marinov, GK; Merkel, A; Mortazavi, A; Parker, SCJ; Reddy, TE; Rozowsky, J; Schlesinger, F; Thurman, RE; Wang, J; Ward, LD; Whitfield, TW; Wilder, SP; Wu, W; Xi, HS; Yip, KY; Zhuang, J; Bernstein, BE; Green, ED; Gunter, C; Snyder, M; Pazin, MJ; Lowdon, RF; Dillon, LAL; Adams, LB; Kelly, CJ; Zhang, J; Wexler, JR; Good, PJ; Feingold, EA; Crawford, GE; Dekker, J; Elnitski, L; Farnham, PJ; Giddings, MC; Gingeras, TR; Guigó, R; Hubbard, TJ; Kent, WJ; Lieb, JD; Margulies, EH; Myers, RM; Stamatoyannopoulos, JA; Tenenbaum, SA; Weng, Z; White, KP; Wold, B; Yu, Y; Wrobel, J; Risk, BA; Gunawardena, HP; Kuiper, HC; Maier, CW; Xie, L; Chen, X; Mikkelsen, TS; Gillespie, S; Goren, A; Ram, O; Zhang, X; Wang, L; Issner, R; Coyne, MJ; Durham, T; Ku, M; Truong, T; Eaton, ML; Dobin, A; Tanzer, A; Lagarde, J; Lin, W; Xue, C; Williams, BA; Zaleski, C; Röder, M; Kokocinski, F; Abdelhamid, RF; Alioto, T; Antoshechkin, I; Baer, MT; Batut, P; Bell, I; Bell, K; Chakrabortty, S; Chrast, J; Curado, J; Derrien, T; Drenkow, J; Dumais, E; Dumais, J; Duttagupta, R; Fastuca, M; Fejes-Toth, K; Ferreira, P; Foissac, S; Fullwood, MJ; Gao, H; Gonzalez, D; Gordon, A; Howald, C; Jha, S; Johnson, R; Kapranov, P; King, B; Kingswood, C; Li, G; Luo, OJ; Park, E; Preall, JB; Presaud, K; Ribeca, P; Robyr, D; Ruan, X; Sammeth, M; Sandhu, KS; Schaeffer, L; See, L-H; Shahab, A; Skancke, J; Suzuki, AM; Takahashi, H; Tilgner, H; Trout, D; Walters, N; Wang, H; Hayashizaki, Y; Reymond, A; Antonarakis, SE; Hannon, GJ; Ruan, Y; Carninci, P; Sloan, CA; Learned, K; Malladi, VS; Wong, MC; Barber, GP; Cline, MS; Dreszer, TR; Heitner, SG; Karolchik, D; Kirkup, VM; Meyer, LR; Long, JC; Maddren, M; Raney, BJ; Grasfeder, LL; Giresi, PG; Battenhouse, A; Sheffield, NC; Showers, KA; London, D; Bhinge, AA; Shestak, C; Schaner, MR; Kim, SK; Zhang, ZZ; Mieczkowski, PA; Mieczkowska, JO; Liu, Z; McDaniell, RM; Ni, Y; Rashid, NU; Kim, MJ; Adar, S; Zhang, Z; Wang, T; Winter, D; Keefe, D; Iyer, VR; Zheng, M; Wang, P; Gertz, J; Vielmetter, J; Partridge, EC; Varley, KE; Gasper, C; Bansal, A; Pepke, S; Jain, P; Amrhein, H; Bowling, KM; Anaya, M; Cross, MK; Muratet, MA; Newberry, KM; McCue, K; Nesmith, AS; Fisher-Aylor, KI; Pusey, B; DeSalvo, G; Parker, SL; Balasubramanian, S; Davis, NS; Meadows, SK; Eggleston, T; Newberry, JS; Levy, SE; Absher, DM; Wong, WH; Blow, MJ; Visel, A; Pennachio, LA; Petrykowska, HM; Abyzov, A; Aken, B; Barrell, D; Barson, G; Berry, A; Bignell, A; Boychenko, V; Bussotti, G; Davidson, C; Despacio-Reyes, G; Diekhans, M; Ezkurdia, I; Frankish, A; Gilbert, J; Gonzalez, JM; Griffiths, E; Harte, R; Hendrix, DA; Hunt, T; Jungreis, I; Kay, M; Khurana, E; Leng, J; Lin, MF; Loveland, J; Lu, Z; Manthravadi, D; Mariotti, M; Mudge, J; Mukherjee, G; Notredame, C; Pei, B; Rodriguez, JM; Saunders, G; Sboner, A; Searle, S; Sisu, C; Snow, C; Steward, C; Tapanari, E; Tress, ML; Van Baren, MJ; Washietl, S; Wilming, L; Zadissa, A; Zhang, Z; Brent, M; Haussler, D; Valencia, A; Addleman, N; Alexander, RP; Auerbach, RK; Balasubramanian, S; Bettinger, K; Bhardwaj, N; Boyle, AP; Cao, AR; Cayting, P; Charos, A; Cheng, Y; Eastman, C; Euskirchen, G; Fleming, JD; Grubert, F; Habegger, L; Hariharan, M; Harmanci, A; Iyengar, S; Jin, VX; Karczewski, KJ; Kasowski, M; Lacroute, P; Lam, H; Lamarre-Vincent, N; Lian, J; Lindahl-Allen, M; Min, R; Miotto, B; Monahan, H; Moqtaderi, Z; Mu, XJ; O'Geen, H; Ouyang, Z; Patacsil, D; Raha, D; Ramirez, L; Reed, B; Shi, M; Slifer, T; Witt, H; Wu, L; Xu, X; Yan, K-K; Yang, X; Struhl, K; Weissman, SM; Penalva, LO; Karmakar, S; Bhanvadia, RR; Choudhury, A; Domanus, M; Ma, L; Moran, J; Victorsen, A; Auer, T; Centanin, L; Eichenlaub, M; Gruhl, F; Heermann, S; Hoeckendorf, B; Inoue, D; Kellner, T; Kirchmaier, S; Mueller, C; Reinhardt, R; Schertel, L; Schneider, S; Sinn, R; Wittbrodt, B; Wittbrodt, J; Jain, G; Balasundaram, G; Bates, DL; Byron, R; Canfield, TK; Diegel, MJ; Dunn, D; Ebersol, AK; Frum, T; Garg, K; Gist, E; Hansen, RS; Boatman, L; Haugen, E; Humbert, R; Johnson, AK; Johnson, EM; Kutyavin, TV; Lee, K; Lotakis, D; Maurano, MT; Neph, SJ; Neri, FV; Nguyen, ED; Qu, H; Reynolds, AP; Roach, V; Rynes, E; Sanchez, ME; Sandstrom, RS; Shafer, AO; Stergachis, AB; Thomas, S; Vernot, B; Vierstra, J; Vong, S; Wang, H; Weaver, MA; Yan, Y; Zhang, M; Akey, JM; Bender, M; Dorschner, MO; Groudine, M; MacCoss, MJ; Navas, P; Stamatoyannopoulos, G; Beal, K; Brazma, A; Flicek, P; Johnson, N; Lukk, M; Luscombe, NM; Sobral, D; Vaquerizas, JM; Batzoglou, S; Sidow, A; Hussami, N; Kyriazopoulou-Panagiotopoulou, S; Libbrecht, MW; Schaub, MA; Miller, W; Bickel, PJ; Banfai, B; Boley, NP; Huang, H; Li, JJ; Noble, WS; Bilmes, JA; Buske, OJ; Sahu, AD; Kharchenko, PV; Park, PJ; Baker, D; Taylor, J; Lochovsky, L. 2012. An integrated encyclopedia of DNA elements in the human genome. NATURE, 489(7414), DOI: 10.1038/nature11247
  • Tassy, O; Dauga, D; Daian, F; Sobral, D; Robin, F; Khoueiry, P; Salgado, D; Fox, V; Caillol, D; Schiappa, R; Laporte, B; Rios, A; Luxardi, G; Kusakabe, T; Joly, J-S; Darras, S; Christiaen, L; Contensin, M; Auger, H; Lamy, C; Hudson, C; Rothbächer, U; Gilchrist, MJ; Makabe, KW; Hotta, K; Fujiwara, S; Satoh, N; Satou, Y; Lemaire, P. 2010. The ANISEED database: Digital representation, formalization, and elucidation of a chordate developmental program. GENOME RESEARCH, 20(10), DOI: 10.1101/gr.108175.110
  • Sobral, D; Tassy, O; Lemaire, P. 2009. Highly Divergent Gene Expression Programs Can Lead to Similar Chordate Larval Body Plans. CURRENT BIOLOGY, 19(23), DOI: 10.1016/j.cub.2009.10.036

Main research interests

  • Bioinformatics
  • Genomics

Degrees

  • PhD in Bioinformatics, Aix Marseille University (2009)