
Pedro Gabriel Ferreira
Pedro G. Ferreira graduated in Systems and Informatics Engineering (2002) and completed a PhD in Artificial Intelligence from University of Minho (2007). He was a Postdoctoral Fellow at Center for Genomic Regulation, Barcelona (2008-2012) and at University of Geneva (2012-2014). He participated in several major international consortia including ICGC-CLL, ENCODE, GEUVADIS and GTEx. Currently, he is an Assistant Professor at the Department of Computer Science, Faculty of Sciences of University of Porto and a researcher at INESCTEC-LIADD and i3s/Ipatimup. His main research focus is in genomic data science. In particular, he is interested in unraveling the role of genomics on the human health and disease. He has been involved in several bioinformatics start-ups.
Projetos
Publicações
The landscape of expression and alternative splicing variation across human traits
García Pérez, R;Ramirez, JM;Ripoll Cladellas, A;Chazarra Gil, R;Oliveros, W;Soldatkina, O;Bosio, M;Rognon, PJ;Capella Gutierrez, S;Calvo, M;Reverter, F;Guigó, R;Aguet, F;Ferreira, PG;Ardlie, KG;Melé, M;
2023
Cell Genomics
An integrated encyclopedia of DNA elements in the human genome
Dunham, I;Kundaje, A;Aldred, SF;Collins, PJ;Davis, C;Doyle, F;Epstein, CB;Frietze, S;Harrow, J;Kaul, R;Khatun, J;Lajoie, BR;Landt, SG;Lee, BK;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, XJ;Dunham, I;Ernst, J;Furey, TS;Gerstein, M;Giardine, B;Greven, M;Hardison, RC;Harris, RS;Herrero, J;Hoffman, MM;Iyer, S;Kellis, M;Khatun, J;Kheradpour, P;Kundaje, A;Lassmann, T;Li, QH;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, HLS;Yip, KY;Zhuang, JL;Bernstein, BE;Birney, E;Dunham, I;Green, ED;Gunter, C;Snyder, M;Pazin, MJ;Lowdon, RF;Dillon, LAL;Adams, LB;Kelly, CJ;Zhang, J;Wexler, JR;Green, ED;Good, PJ;Feingold, EA;Bernstein, BE;Birney, E;Crawford, GE;Dekker, J;Elnitski, L;Farnham, PJ;Gerstein, M;Giddings, MC;Gingeras, TR;Green, ED;Guigo, R;Hardison, RC;Hubbard, TJ;Kellis, M;Kent, WJ;Lieb, JD;Margulies, EH;Myers, RM;Snyder, M;Stamatoyannopoulos, JA;Tenenbaum, SA;Weng, ZP;White, KP;Wold, B;Khatun, J;Yu, Y;Wrobel, J;Risk, BA;Gunawardena, HP;Kuiper, HC;Maier, CW;Xie, L;Chen, X;Giddings, MC;Bernstein, BE;Epstein, CB;Shoresh, N;Ernst, J;Kheradpour, P;Mikkelsen, TS;Gillespie, S;Goren, A;Ram, O;Zhang, XL;Wang, L;Issner, R;Coyne, MJ;Durham, T;Ku, M;Truong, T;Ward, LD;Altshuler, RC;Eaton, ML;Kellis, M;Djebali, S;Davis, CA;Merkel, A;Dobin, A;Lassmann, T;Mortazavi, A;Tanzer, A;Lagarde, J;Lin, W;Schlesinger, F;Xue, CH;Marinov, GK;Khatun, J;Williams, BA;Zaleski, C;Rozowsky, J;Roeder, M;Kokocinski, F;Abdelhamid, RF;Alioto, T;Antoshechkin, I;Baer, MT;Batut, P;Bell, I;Bell, K;Chakrabortty, S;Chen, X;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;Gunawardena, HP;Howald, C;Jha, S;Johnson, R;Kapranov, P;King, B;Kingswood, C;Li, GL;Luo, OJ;Park, E;Preall, JB;Presaud, K;Ribeca, P;Risk, BA;Robyr, D;Ruan, XA;Sammeth, M;Sandhu, KS;Schaeffer, L;See, LH;Shahab, A;Skancke, J;Suzuki, AM;Takahashi, H;Tilgner, H;Trout, D;Walters, N;Wang, HE;Wrobel, J;Yu, YB;Hayashizaki, Y;Harrow, J;Gerstein, M;Hubbard, TJ;Reymond, A;Antonarakis, SE;Hannon, GJ;Giddings, MC;Ruan, YJ;Wold, B;Carninci, P;Guigo, R;Gingeras, TR;Rosenbloom, KR;Sloan, CA;Learned, K;Malladi, VS;Wong, MC;Barber, G;Cline, MS;Dreszer, TR;Heitner, SG;Karolchik, D;Kent, WJ;Kirkup, VM;Meyer, LR;Long, JC;Maddren, M;Raney, BJ;Furey, TS;Song, LY;Grasfeder, LL;Giresi, PG;Lee, BK;Battenhouse, A;Sheffield, NC;Simon, JM;Showers, KA;Safi, A;London, D;Bhinge, AA;Shestak, C;Schaner, MR;Kim, SK;Zhang, ZZZ;Mieczkowski, PA;Mieczkowska, JO;Liu, Z;McDaniell, RM;Ni, YY;Rashid, NU;Kim, MJ;Adar, S;Zhang, ZC;Wang, TY;Winter, D;Keefe, D;Birney, E;Iyer, VR;Lieb, JD;Crawford, GE;Li, GL;Sandhu, KS;Zheng, MZ;Wang, P;Luo, OJ;Shahab, A;Fullwood, MJ;Ruan, XA;Ruan, YJ;Myers, RM;Pauli, F;Williams, BA;Gertz, J;Marinov, GK;Reddy, TE;Vielmetter, J;Partridge, EC;Trout, D;Varley, KE;Gasper, C;Bansal, A;Pepke, S;Jain, P;Amrhein, H;Bowling, KM;Anaya, M;Cross, MK;King, B;Muratet, MA;Antoshechkin, I;Newberry, KM;Mccue, K;Nesmith, AS;Fisher Aylor, KI;Pusey, B;DeSalvo, G;Parker, SL;Balasubramanian, S;Davis, NS;Meadows, SK;Eggleston, T;Gunter, C;Newberry, JS;Levy, SE;Absher, DM;Mortazavi, A;Wong, WH;Wold, B;Blow, MJ;Visel, A;Pennachio, LA;Elnitski, L;Margulies, EH;Parker, SCJ;Petrykowska, HM;Abyzov, A;Aken, B;Barrell, D;Barson, G;Berry, A;Bignell, A;Boychenko, V;Bussotti, G;Chrast, J;Davidson, C;Derrien, T;Despacio Reyes, G;Diekhans, M;Ezkurdia, I;Frankish, A;Gilbert, J;Gonzalez, JM;Griffiths, E;Harte, R;Hendrix, DA;Howald, C;Hunt, T;Jungreis, I;Kay, M;Khurana, E;Kokocinski, F;Leng, J;Lin, MF;Loveland, J;Lu, Z;Manthravadi, D;Mariotti, M;Mudge, J;Mukherjee, G;Notredame, C;Pei, BK;Rodriguez, JM;Saunders, G;Sboner, A;Searle, S;Sisu, C;Snow, C;Steward, C;Tanzer, A;Tapanari, E;Tress, ML;van Baren, MJ;Walters, N;Washietl, S;Wilming, L;Zadissa, A;Zhang, ZD;Brent, M;Haussler, D;Kellis, M;Valencia, A;Gerstein, M;Reymond, A;Guigo, R;Harrow, J;Hubbard, TJ;Landt, SG;Frietze, S;Abyzov, A;Addleman, N;Alexander, RP;Auerbach, RK;Balasubramanian, S;Bettinger, K;Bhardwaj, N;Boyle, AP;Cao, AR;Cayting, P;Charos, A;Cheng, Y;Cheng, C;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;Leng, J;Lian, J;Lindahl Allen, M;Min, RQ;Miotto, B;Monahan, H;Moqtaderi, Z;Mu, XMJ;O'Geen, H;Ouyang, ZQ;Patacsil, D;Pei, BK;Raha, D;Ramirez, L;Reed, B;Rozowsky, J;Sboner, A;Shi, MY;Sisu, C;Slifer, T;Witt, H;Wu, LF;Xu, XQ;Yan, KK;Yang, XQ;Yip, KY;Zhang, ZD;Struhl, K;Weissman, SM;Gerstein, M;Farnham, PJ;Snyder, M;Tenenbaum, SA;Penalva, LO;Doyle, F;Karmakar, S;Landt, SG;Bhanvadia, RR;Choudhury, A;Domanus, M;Ma, LJ;Moran, J;Patacsil, D;Slifer, T;Victorsen, A;Yang, XQ;Snyder, M;White, KP;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;Weng, ZP;Whitfield, TW;Wang, J;Collins, PJ;Aldred, SF;Trinklein, ND;Partridge, EC;Myers, RM;Dekker, J;Jain, G;Lajoie, BR;Sanyal, A;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;Jain, G;Johnson, AK;Johnson, EM;Kutyavin, TV;Lajoie, BR;Lee, K;Lotakis, D;Maurano, MT;Neph, SJ;Neri, FV;Nguyen, ED;Qu, HZ;Reynolds, AP;Roach, V;Rynes, E;Sabo, P;Sanchez, ME;Sandstrom, RS;Sanyal, A;Shafer, AO;Stergachis, AB;Thomas, S;Thurman, RE;Vernot, B;Vierstra, J;Vong, S;Wang, H;Weaver, MA;Yan, YQ;Zhang, MH;Akey, JM;Bender, M;Dorschner, MO;Groudine, M;MacCoss, MJ;Navas, P;Stamatoyannopoulos, G;Kaul, R;Dekker, J;Stamatoyannopoulos, JA;Dunham, I;Beal, K;Brazma, A;Flicek, P;Herrero, J;Johnson, N;Keefe, D;Lukk, M;Luscombe, NM;Sobral, D;Vaquerizas, JM;Wilder, SP;Batzoglou, S;Sidow, A;Hussami, N;Kyriazopoulou Panagiotopoulou, S;Libbrecht, MW;Schaub, MA;Kundaje, A;Hardison, RC;Miller, W;Giardine, B;Harris, RS;Wu, W;Bickel, PJ;Banfai, B;Boley, NP;Brown, JB;Huang, HY;Li, QH;Li, JJ;Noble, WS;Bilmes, JA;Buske, OJ;Hoffman, MM;Sahu, AD;Kharchenko, PV;Park, PJ;Baker, D;Taylor, J;Weng, ZP;Iyer, S;Dong, XJ;Greven, M;Lin, XY;Wang, J;Xi, HLS;Zhuang, JL;Gerstein, M;Alexander, RP;Balasubramanian, S;Cheng, C;Harmanci, A;Lochovsky, L;Min, R;Mu, XMJ;Rozowsky, J;Yan, KK;Yip, KY;Birney, E;
2012
NATURE
Mitotic cell-cycle progression is regulated by CPEB1 and CPEB4-dependent translational control
Novoa, I;Gallego, J;Ferreira, PG;Mendez, R;
2010
NATURE CELL BIOLOGY
Landscape of transcription in human cells
Djebali, S;Davis, CA;Merkel, A;Dobin, A;Lassmann, T;Mortazavi, A;Tanzer, A;Lagarde, J;Lin, W;Schlesinger, F;Xue, CH;Marinov, GK;Khatun, J;Williams, BA;Zaleski, C;Rozowsky, J;Roeder, M;Kokocinski, F;Abdelhamid, RF;Alioto, T;Antoshechkin, I;Baer, MT;Bar, NS;Batut, P;Bell, K;Bell, I;Chakrabortty, S;Chen, X;Chrast, J;Curado, J;Derrien, T;Drenkow, J;Dumais, E;Dumais, J;Duttagupta, R;Falconnet, E;Fastuca, M;Fejes Toth, K;Ferreira, P;Foissac, S;Fullwood, MJ;Gao, H;Gonzalez, D;Gordon, A;Gunawardena, H;Howald, C;Jha, S;Johnson, R;Kapranov, P;King, B;Kingswood, C;Luo, OJ;Park, E;Persaud, K;Preall, JB;Ribeca, P;Risk, B;Robyr, D;Sammeth, M;Schaffer, L;See, LH;Shahab, A;Skancke, J;Suzuki, AM;Takahashi, H;Tilgner, H;Trout, D;Walters, N;Wang, H;Wrobel, J;Yu, YB;Ruan, XA;Hayashizaki, Y;Harrow, J;Gerstein, M;Hubbard, T;Reymond, A;Antonarakis, SE;Hannon, G;Giddings, MC;Ruan, YJ;Wold, B;Carninci, P;Guigo, R;Gingeras, TR;
2012
NATURE
Teses Orientadas
Transcriptomics-based prediction of human phenotypes using scalable and secure machine learning approaches
Marta Carolina Cabral Moreno
D - 2019
UP-FCUP
Transcriptomics-based prediction of human phenotypes using scalable and secure machine learning approaches
Marta Carolina Cabral Moreno
D - 2020
UP-FCUP
HSA/CD24: a cardiomyocyte precursor biomarker and/or a gateway to cardiomyogenesis
Catarina Lopes Alves
M - 2020
UP-FCUP


