Can Alkan
Active 2003–2026
- 109
- Papers
- 36,194
- Citations
- 64
- h-index
- 84
- i10-index
Citations
Citation sources
Countries
Institutions
Fields
- Biochemistry, Genetics and Molecular Biology56.9%
- Medicine21.7%
- Agricultural and Biological Sciences6.5%
- Computer Science4%
- Neuroscience3.1%
- Immunology and Microbiology1.7%
- Other6.1%
Topics
- Genomics and Phylogenetic Studies8.9%
- Amyotrophic Lateral Sclerosis Research5.2%
- Chromosomal and Genetic Variations4.2%
- Genomic variations and chromosomal abnormalities4.2%
- Genomics and Rare Diseases3.6%
- Genetic diversity and population structure3.3%
- Other70.6%
Coauthors
- Evan E. Eichler34
- Onur Mutlu21
- Fereydoun Hormozdiari16
- Mohammed Alser15
- Süleyman Cenk Sahinalp13
- Jeffrey M. Kidd12
- Maika Malig12
- Tomàs Marquès‐Bonet12
- Damla Senol Cali10
- Faraz Hach10
- Jeremie S. Kim10
- Mario Ventura10
- Tina Graves9
- Francesca Antonacci8
- Richard K. Wilson8
- Zülal Bingöl8
- Can Firtina7
- Emre Karakoç7
- Iman Hajirasouliha7
- Peter H. Sudmant7
- S. Cenk Şahinalp7
- Farhad Hormozdiari6
- Belén Lorente-Galdós5
- Carl Baker5
All papers
- High-coverage whole-genome sequencing of the expanded 1000 Genomes Project cohort including 602 trios
Authors: Marta Byrska-Bishop, Uday S. Evani, Xuefang Zhao, Anna O. Basile, Haley Abel, Allison Regier, André Corvelo, Wayne E. Clarke, Rajeeva Musunuri, Kshithija Nagulapalli, Susan Fairley, Alexi Runnels, Lara Winterkorn, Ernesto Lowy, Evan E. Eichler, Jan O. Korbel, Charles Lee, Tobias Marschall, Scott E. Devine, William T. Harvey, Weichen Zhou, Ryan E. Mills, Tobias Rausch, Sushant Kumar, Can Alkan, Fereydoun Hormozdiari, Zechen Chong, Yu Chen, Xiaofei Yang, Jiadong Lin, Mark Gerstein, Kai Ye, Qihui Zhu, Feyza Yilmaz, Chunlin Xiao, Paul Flicek, Søren Germer, Harrison Brand, Ira M. Hall, Michael E. Talkowski, Giuseppe Narzisi, Michael C. Zody - Cell 2022 cited by 1,079
- A Hexanucleotide Repeat Expansion in C9ORF72 Is the Cause of Chromosome 9p21-Linked ALS-FTD
Authors: Alan E. Renton, Elisa Majounie, Adrian J. Waite, Javier Simón‐Sánchez, Sara Rollinson, J. Raphael Gibbs, Jennifer C. Schymick, Hannu Laaksovirta, John C. van Swieten, Liisa Myllykangas, Hannu Kalimo, Anders Paetau, Yevgeniya Abramzon, Anne M. Remes, Alice Kaganovich, Sonja W. Scholz, Jamie Duckworth, Jinhui Ding, Daniel W. Harmer, Dena G. Hernandez, Janel O. Johnson, Kin Y. Mok, Mina Ryten, Daniah Trabzuni, Rita Guerreiro, Richard W. Orrell, James Neal, Alex Murray, Justin Pearson, Iris E. Jansen, David Sondervan, Harro Seelaar, Derek J. Blake, Kate Young, Nicola Halliwell, Janis Bennion Callister, Greg Toulson, Anna Richardson, Alexander Gerhard, Julie S. Snowden, David Mann, David Neary, Michael A. Nalls, Terhi Peuralinna, Lilja Jansson, Veli‐Matti Isoviita, Anna-Lotta Kaivorinne, Maarit Hölttä‐Vuori, Elina Ikonen, Raimo Sulkava, Michael Benatar, Joanne Wuu, Adriano Chiò, Gabriella Restagno, Giuseppe Borghero, Mario Sabatelli, David Heckerman, Ekaterina Rogaeva, Lorne Zinman, Jeffrey D. Rothstein, Michael Sendtner, Carsten Drepper, Evan E. Eichler, Can Alkan, Ziedulla Abdullaev, Svetlana Pack, Amalia Dutra, Evgenia Pak, John Hardy, Andrew Singleton, Nigel Williams, Peter Heutink, Stuart Pickering‐Brown, Huw R. Morris, Pentti J. Tienari, Bryan J. Traynor - Neuron 2011 cited by 4,469
- An integrated map of structural variation in 2,504 human genomes
Authors: Peter H. Sudmant, Tobias Rausch, Eugene J. Gardner, Robert E. Handsaker, Alexej Abyzov, John Huddleston, Yan Zhang, Kai Ye, Goo Jun, Markus Hsi-Yang Fritz, Miriam K. Konkel, Ankit Malhotra, Adrian M. Stütz, Xinghua Shi, Francesco Paolo Casale, Jieming Chen, Fereydoun Hormozdiari, Gargi Dayama, Ken Chen, Maika Malig, Mark Chaisson, Klaudia Walter, Sascha Meiers, Seva Kashin, Erik Garrison, Adam Auton, Hugo Y. K. Lam, Xinmeng Jasmine Mu, Can Alkan, Danny Antaki, Taejeong Bae, Eliza Cerveira, Peter S. Chines, Zechen Chong, Laura Clarke, Elif Dal, Li Ding, Sarah B. Emery, Xian Fan, Madhusudan Gujral, Fatma Kahveci, Jeffrey M. Kidd, Yu Kong, Eric-Wubbo Lameijer, Shane McCarthy, Paul Flicek, Richard A. Gibbs, Gábor Marth, Christopher E. Mason, Androniki Menelaou, Donna M. Muzny, Bradley J. Nelson, Amina Noor, Nicholas F. Parrish, Matthew Pendleton, Andrew Quitadamo, Benjamin Raeder, Eric E. Schadt, Mallory Romanovitch, Andreas Schlattl, Robert Sebra, Andrey A. Shabalin, Andreas Untergasser, Jerilyn A. Walker, Min Wang, Fuli Yu, Chengsheng Zhang, Jing Zhang, Xiangqun Zheng-Bradley, Wanding Zhou, Thomas Zichner, Jonathan Sebat, Mark A. Batzer, Steven A. McCarroll, Ryan E. Mills, Mark Gerstein, Ali Bashir, Oliver Stegle, Scott E. Devine, Charles Lee, Evan E. Eichler, Jan O. Korbel - Nature 2015 cited by 2,695
- A Draft Sequence of the Neandertal Genome
Authors: Richard E. Green, Johannes Krause, Adrian W. Briggs, Tomislav Maričić, Udo Stenzel, Martin Kircher, Nick Patterson, Heng Li, Weiwei Zhai, Markus Hsi-Yang Fritz, Nancy F. Hansen, Éric Durand, Anna‐Sapfo Malaspinas, Jeffrey D. Jensen, Tomàs Marquès‐Bonet, Can Alkan, Kay Prüfer, Matthias Meyer, Hernán A. Burbano, Jeffrey M. Good, Rigo Schultz, Ayinuer Aximu‐Petri, Anne Butthof, Barbara Höber, Barbara Höffner, Madlen Siegemund, Antje Weihmann, Chad Nusbaum, Eric S. Lander, Carsten Russ, Nathaniel Novod, Jason P. Affourtit, Michael D. Miller, Christine Verna, Pavao Rudan, Dejana Brajković, Željko Kućan, Ivan Gušić, Vladimir B. Doronichev, Liubov V. Golovanova, Carles Lalueza‐Fox, Marco de la Rasilla Vives, Javier Fortea, Antonio Rosas, Ralf W. Schmitz, Philip L. Johnson, Evan E. Eichler, Daniel Falush, Ewan Birney, James C. Mullikin, Montgomery Slatkin, Rasmus Nielsen, Janet Kelso, Michael Lachmann, David Reich, Svante Pääbo - Science 2010 cited by 4,594
- Genome structural variation discovery and genotyping
Authors: Can Alkan, Bradley P. Coe, Evan E. Eichler - Nature Reviews Genetics 2011 cited by 1,719
- A High-Coverage Genome Sequence from an Archaic Denisovan Individual
Authors: Matthias Meyer, Martin Kircher, Marie-Theres Gansauge, Heng Li, Fernando Racimo, Swapan Mallick, Joshua G. Schraiber, Flora Jay, Kay Prüfer, Cesare de Filippo, Peter H. Sudmant, Can Alkan, Qiaomei Fu, Ron Do, Nadin Rohland, Arti Tandon, Michael Siebauer, Richard E. Green, Katarzyna Bryc, Adrian W. Briggs, Udo Stenzel, Jesse Dabney, Jay Shendure, Jacob O. Kitzman, Michael F. Hammer, M.V. Shunkov, А. П. Деревянко, Nick Patterson, Aida M. Andrés, Evan E. Eichler, Montgomery Slatkin, David Reich, Janet Kelso, Svante Pääbo - Science 2012 cited by 2,148
- A robust benchmark for detection of germline large deletions and insertions
Authors: Justin M. Zook, Nancy F. Hansen, Nathan D. Olson, Lesley M. Chapman, James C. Mullikin, Chunlin Xiao, Stephen T. Sherry, Sergey Koren, Adam M. Phillippy, Paul C. Boutros, Sayed Mohammad Ebrahim Sahraeian, Vincent Huang, Alexandre Rouette, Noah Alexander, Christopher E. Mason, Iman Hajirasouliha, Camir Ricketts, Joyce Lee, Rick Tearle, Ian T. Fiddes, Álvaro Martínez Barrio, Jeremiah A. Wala, Andrew Carroll, Noushin Ghaffari, Oscar L. Rodriguez, Ali Bashir, Shaun D. Jackman, John J. Farrell, Aaron M. Wenger, Can Alkan, Arda Söylev, Michael C. Schatz, Shilpa Garg, George M. Church, Tobias Marschall, Ken Chen, Xian Fan, Adam C. English, Jeffrey Rosenfeld, Weichen Zhou, Ryan E. Mills, Jay M. Sage, Jennifer R. Davis, Michael D. Kaiser, John S. Oliver, Anthony P. Catalano, Mark Chaisson, Noah Spies, Fritz J. Sedlazeck, Marc Salit - Nature Biotechnology 2020 cited by 483
- Genetic history of an archaic hominin group from Denisova Cave in Siberia
Authors: David Reich, Richard E. Green, Martin Kircher, Johannes Krause, Nick Patterson, Éric Durand, Bence Viola, Adrian W. Briggs, Udo Stenzel, Philip L. Johnson, Tomislav Maričić, Jeffrey M. Good, Tomàs Marquès‐Bonet, Can Alkan, Qiaomei Fu, Swapan Mallick, Heng Li, Matthias Meyer, Evan E. Eichler, Mark Stoneking, Michael P. Richards, Sahra Talamo, M.V. Shunkov, А. П. Деревянко, Jean Jacques Hublin, Janet Kelso, Montgomery Slatkin, Svante Pääbo - Nature 2010 cited by 2,043
- Mapping copy number variation by population-scale genome sequencing
Authors: 1000 Genomes Project, Ryan E. Mills, Klaudia Walter, Chip Stewart, Robert E. Handsaker, Ken Chen, Can Alkan, Alexej Abyzov, Seungtai Yoon, Kai Ye, R. Keira Cheetham, Asif Chinwalla, Donald F. Conrad, Yutao Fu, Fabian Grubert, Iman Hajirasouliha, Fereydoun Hormozdiari, Lilia M. Iakoucheva, Zamin Iqbal, Shuli Kang, Jeffrey M. Kidd, Miriam K. Konkel, Joshua M. Korn, Ekta Khurana, Deniz Kural, Hugo Y. K. Lam, Jing Leng, Ruiqiang Li, Yingrui Li, Chang‐Yun Lin, Ruibang Luo, Xinmeng Jasmine Mu, James Nemesh, Heather E. Peckham, Tobias Rausch, Aylwyn Scally, Xinghua Shi, Michael P. Strömberg, Adrian M. Stütz, Alexander E. Urban, Jerilyn A. Walker, Jiantao Wu, Yujun Zhang, Zhengdong D. Zhang, Mark A. Batzer, Li Ding, Gábor Marth, Gil McVean, Jonathan Sebat, M Snyder, Jun Wang, Kenny Ye, Evan E. Eichler, Mark Gerstein, Matthew E. Hurles, Charles Lee, Steven A. McCarroll, Jan O. Korbel - Nature 2011 cited by 1,215
- GRIM-Filter: Fast Seed Location Filtering in DNA Read Mapping Using Processing-in-Memory Technologies
Authors: Jeremie S. Kim, Damla Senol Cali, Hongyi Xin, Donghyuk Lee, Saugata Ghose, Mohammed Alser, Hasan Hassan, Oguz Ergin, Can Alkan, Onur Mutlu - BMC Genomics, BMC Genom. 2018 cited by 158
- Great ape genetic diversity and population history
Authors: Javier Prado-Martinez, Peter H. Sudmant, Jeffrey M. Kidd, Heng Li, Joanna L. Kelley, Belén Lorente-Galdós, Krishna R. Veeramah, August E. Woerner, Timothy D. O’Connor, Gabriel Santpere, Alex Cagan, Christoph Theunert, Ferrán Casals, Hafid Laayouni, Kasper Munch, Asger Hobolth, Anders E. Halager, Maika Malig, Jessica Hernández-Rodríguez, Irene Hernando-Herraez, Kay Prüfer, Marc Pybus, Laurel Johnstone, Michael Lachmann, Can Alkan, Dorina Twigg, Natalia Petit, Carl Baker, Fereydoun Hormozdiari, Marcos Fernández-Callejo, Marc Dabad, Michael L. Wilson, Laurie S. Stevison, Cristina Camprubí, Tiago Carvalho, Aurora Ruiz‐Herrera, Laura Vives, Marta Melé, Teresa Abelló, Ivanela Kondova, Ronald E. Bontrop, Anne E. Pusey, Felix Lankester, John Kiyang, Richard A. Bergl, Elizabeth V. Lonsdorf, Simon Myers, Mario Ventura, Pascal Gagneux, David Comas, Hans R. Siegismund, Julie Blanc, Lidia Agueda-Calpena, Marta Gut, Lucinda Fulton, Sarah A. Tishkoff, James C. Mullikin, Richard K. Wilson, Marta Gut, Mary Katherine Gonder, Oliver A. Ryder, Beatrice H. Hahn, Arcadi Navarro, Joshua M. Akey, Jaume Bertranpetit, David Reich, Thomas Mailund, Mikkel Heide Schierup, Christina Hvilsom, Aida M. Andrés, Jeffrey D. Wall, Carlos D. Bustamante, Michael F. Hammer, Evan E. Eichler, Tomàs Marquès‐Bonet - Nature 2013 cited by 995
- Accelerating Genome Analysis: A Primer on an Ongoing Journey
Authors: Mohammed Alser, Zülal Bingöl, Damla Senol Cali, Jeremie S. Kim, Saugata Ghose, Can Alkan, Onur Mutlu - IEEE Micro 2020 cited by 80
- Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions
Authors: Damla Senol Cali, Jeremie S. Kim, Saugata Ghose, Can Alkan, Onur Mutlu - Briefings in Bioinformatics, Briefings Bioinform. 2018 cited by 260
- Limitations of next-generation genome sequence assembly
Authors: Can Alkan, Saba Sajjadian, Evan E. Eichler - Nature Methods 2010 cited by 779
- Diversity of Human Copy Number Variation and Multicopy Genes
Authors: Peter H. Sudmant, Jacob O. Kitzman, Francesca Antonacci, Can Alkan, Maika Malig, Anya Tsalenko, Nick Sampas, Laurakay Bruhn, Jay Shendure, 1000 Genomes Project, Evan E. Eichler - Science 2010 cited by 719
- Personalized copy number and segmental duplication maps using next-generation sequencing
Authors: Can Alkan, Jeffrey M. Kidd, Tomàs Marquès‐Bonet, Gozde Aksay, Francesca Antonacci, Fereydoun Hormozdiari, Jacob O. Kitzman, Carl Baker, Maika Malig, Onur Mutlu, S. Cenk Şahinalp, Richard A. Gibbs, Evan E. Eichler - Nature Genetics 2009 cited by 776
- Genome Sequencing Highlights the Dynamic Early History of Dogs
Authors: Adam H. Freedman, Ilan Gronau, Rena M. Schweizer, Diego Ortega‐Del Vecchyo, Eunjung Han, Pedro Silva, Marco Galaverni, Zhenxin Fan, Péter Marx, Belén Lorente-Galdós, Holly C. Beale, Óscar Ramírez, Farhad Hormozdiari, Can Alkan, Carles Vilà, Kevin Squire, Eli Geffen, Josip Kusak, Adam R. Boyko, Heidi G. Parker, Clarence Lee, Vasisht Tadigotla, Adam Siepel, Carlos D. Bustamante, Timothy T. Harkins, Stanley F. Nelson, Elaine A. Ostrander, Tomàs Marquès‐Bonet, Robert K. Wayne, John Novembre - PLoS Genetics 2014 cited by 649
- Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mapping
Authors: Hongyi Xin, John Greth, John Emmons, Gennady Pekhimenko, Carl Kingsford, Can Alkan, Onur Mutlu - Bioinformatics, Bioinform. 2015 cited by 98
- Fast characterization of segmental duplication structure in multiple genome assemblies
Authors: Hamza Iseric, Can Alkan, Faraz Hach, Ibrahim Numanagic - Algorithms for Molecular Biology, Algorithms Mol. Biol. 2022 cited by 87
- Insights into hominid evolution from the gorilla genome sequence
Authors: Aylwyn Scally, Julien Y. Dutheil, LaDeana W. Hillier, Gregory E. Jordan, Ian Goodhead, Javier Herrero, Asger Hobolth, Tuuli Lappalainen, Thomas Mailund, Tomàs Marquès‐Bonet, Shane McCarthy, Stephen H. Montgomery, Petra Schwalie, Amy Tang, Michelle C. Ward, Yali Xue, Bryndís Yngvadóttir, Can Alkan, Lars Nørvang Andersen, Qasim Ayub, Edward V. Ball, Kathryn Beal, Brenda J. Bradley, Yuan Chen, Chris M. Clee, Stephen Fitzgerald, Tina Graves, Yong Gu, P. D. Heath, Andreas Heger, Emre Karakoç, Anja Kolb‐Kokocinski, Gavin K. Laird, Gerton Lunter, Stephen Meader, Matthew Mort, James C. Mullikin, Kasper Munch, Timothy D. O’Connor, Andrew D. Phillips, Javier Prado-Martinez, Anthony S. Rogers, Saba Sajjadian, Dominic Schmidt, Katy Shaw, Jared T. Simpson, Peter D. Stenson, Daniel J. Turner, Linda Vigilant, Albert J. Vilella, Weldon Whitener, Baoli Zhu, D.N. Cooper, Pieter de Jong, Emmanouil T. Dermitzakis, Evan E. Eichler, Paul Flicek, Nick Goldman, Nicholas I. Mundy, Zemin Ning, Duncan T. Odom, Chris P. Ponting, Michael A. Quail, Oliver A. Ryder, Stephen M. J. Searle, Wesley C. Warren, Richard K. Wilson, Mikkel Heide Schierup, Jane Rogers, Chris Tyler‐Smith, Richard Durbin - Nature 2012 cited by 814
- The bonobo genome compared with the chimpanzee and human genomes
Authors: Kay Prüfer, Kasper Munch, Ines Hellmann, Keiko Akagi, Jason Miller, Brian P. Walenz, Sergey Koren, Granger Sutton, Chinnappa D. Kodira, Roger Winer, James Knight, James C. Mullikin, Stephen Meader, Chris P. Ponting, Gerton Lunter, Saneyuki Higashino, Asger Hobolth, Julien Y. Dutheil, Emre Karakoç, Can Alkan, Saba Sajjadian, Claudia Rita Catacchio, Mario Ventura, Tomàs Marquès‐Bonet, Evan E. Eichler, Claudine André, Rebeca Atencia, Lawrence Mugisha, Jörg Junhold, Nick Patterson, Michael Siebauer, Jeffrey M. Good, Anne Fischer, Susan E. Ptak, Michael Lachmann, David E. Symer, Thomas Mailund, Mikkel Heide Schierup, Aida M. Andrés, Janet Kelso, Svante Pääbo - Nature 2012 cited by 599
- Activating mutations of STAT5B and STAT3 in lymphomas derived from γδ-T or NK cells
Authors: Can Küçük, Bei Jiang, Xiaozhou Hu, Wenyan Zhang, John Chan, Wenming Xiao, Nathan A. Lack, Can Alkan, John C. Williams, Kendra N. Avery, Pınar Kavak, Anna Scuto, Emel Sen-Kilic, Philippe Gaulard, Lou Staudt, Javeed Iqbal, Weiwei Zhang, Adam Cornish, Qiang Gong, Qun‐pei Yang, Hong Sun, Francesco d’Amore, Sirpa Leppä, Weiping Liu, Kai Fu, Laurence de Leval, Timothy W. McKeithan, Wing C. Chan - Nature Communications 2015 cited by 390
- Computational Pan-Genomics: Status, Promises and Challenges
Authors: Tobias Marschall, Manja Marz, Thomas Abeel, Louis Dijkstra, Bas E. Dutilh, Ali Ghaffaari, Paul Kersey, Wigard P. Kloosterman, Veli Mäkinen, Adam M. Novak, Benedict Paten, David Porubskỳ, Éric Rivals, Can Alkan, Jasmijn A. Baaijens, Paul I. W. de Bakker, Valentina Boeva, Raoul J.P. Bonnal, Francesca Chiaromonte, Rayan Chikhi, Francesca D. Ciccarelli, Robin Cijvat, Erwin Datema, Cornelia M. van Duijn, Evan E. Eichler, Corinna Ernst, Eleazar Eskin, Erik Garrison, Mohammed El-Kebir, Gunnar W. Klau, Jan O. Korbel, Eric-Wubbo Lameijer, Ben Langmead, Marcel Martin, Paul Medvedev, John C. Mu, Pieter B. Neerincx, Klaasjan G. Ouwens, Pierre Peterlongo, Nadia Pisanti, Sven Rahmann, Benjamin J. Raphael, Knut Reinert, Dick de Ridder, Jeroen de Ridder, Matthias Schlesner, Ole Schulz-Trieglaff, Ashley D. Sanders, Siavash Sheikhizadeh, Carl Shneider, Sandra Smit, Daniel Valenzuela, Jiayin Wang, Lodewyk F.A. Wessels, Ying Zhang, Victor Guryev, Fabio Vandin, Kai Ye, Alexander Schönhuth - 2016 cited by 151
- Targeting PLK1 overcomes T-DM1 resistance via CDK1-dependent phosphorylation and inactivation of Bcl-2/xL in HER2-positive breast cancer
Authors: Özge Saatci, Simone Borgoni, Özge Akbulut, Selvi Durmuş, Umar Raza, Erol Eyüpoğlu, Can Alkan, Aytekin Akyol, Özgür Kütük, Stefan Wiemann, Özgür Şahin - Oncogene 2018 cited by 81
