L
Lakesh Kansakar
Researcher at Temple University
Publications - 5
Citations - 780
Lakesh Kansakar is an academic researcher from Temple University. The author has contributed to research in topics: Protein function prediction & Human Phenotype Ontology. The author has an hindex of 4, co-authored 5 publications receiving 721 citations.
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Journal ArticleDOI
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Yuxiang Jiang,Tal Ronnen Oron,Wyatt T. Clark,Asma R. Bankapur,Daniel D'Andrea,Rosalba Lepore,Christopher S. Funk,Indika Kahanda,Karin Verspoor,Asa Ben-Hur,Da Chen Emily Koo,Duncan Penfold-Brown,Dennis Shasha,Noah Youngs,Richard Bonneau,Alexandra Lin,Sayed Mohammad Ebrahim Sahraeian,Pier Luigi Martelli,Giuseppe Profiti,Rita Casadio,Renzhi Cao,Zhaolong Zhong,Jianlin Cheng,Adrian M. Altenhoff,Adrian M. Altenhoff,Nives Škunca,Nives Škunca,Christophe Dessimoz,Christophe Dessimoz,Christophe Dessimoz,Tunca Doğan,Kai Hakala,Suwisa Kaewphan,Farrokh Mehryary,Tapio Salakoski,Filip Ginter,Hai Fang,Ben Smithers,Matt E. Oates,Julian Gough,Petri Törönen,Patrik Koskinen,Liisa Holm,Ching-Tai Chen,Wen-Lian Hsu,Kevin Bryson,Domenico Cozzetto,Federico Minneci,David T. Jones,Samuel Chapman,Dukka Bkc,Ishita K. Khan,Daisuke Kihara,Dan Ofer,Nadav Rappoport,Amos Stern,Elena Cibrian-Uhalte,Paul Denny,Rebecca E. Foulger,Reija Hieta,Duncan Legge,Ruth C. Lovering,Michele Magrane,Anna N. Melidoni,Prudence Mutowo-Meullenet,Klemens Pichler,Aleksandra Shypitsyna,Biao Li,Pooya Zakeri,Pooya Zakeri,Sarah ElShal,Sarah ElShal,Léon-Charles Tranchevent,Léon-Charles Tranchevent,Sayoni Das,Natalie L. Dawson,David A. Lee,Jonathan G. Lees,Ian Sillitoe,Prajwal Bhat,Tamás Nepusz,Alfonso E. Romero,Rajkumar Sasidharan,Haixuan Yang,Alberto Paccanaro,Jesse Gillis,Adriana E. Sedeno-Cortes,Paul Pavlidis,Shou Feng,Juan Miguel Cejuela,Tatyana Goldberg,Tobias Hamp,Lothar Richter,Asaf Salamov,Toni Gabaldón,Toni Gabaldón,Marina Marcet-Houben,Fran Supek,Fran Supek,Qingtian Gong,Wei Ning,Yuanpeng Zhou,Weidong Tian,Marco Falda,Paolo Fontana,Enrico Lavezzo,Stefano Toppo,Carlo Ferrari,Manuel Giollo,Damiano Piovesan,Silvio C. E. Tosatto,Angela del Pozo,José M. Fernández,Paolo Maietta,Alfonso Valencia,Michael L. Tress,Alfredo Benso,Stefano Di Carlo,Gianfranco Politano,Alessandro Savino,Hafeez Ur Rehman,Matteo Re,Marco Mesiti,Giorgio Valentini,Joachim W. Bargsten,Aalt D. J. van Dijk,Branislava Gemovic,Sanja Glisic,Vladmir Perovic,Veljko Veljkovic,Nevena Veljkovic,Danillo C Almeida-E-Silva,Ricardo Z. N. Vêncio,Malvika Sharan,Jörg Vogel,Lakesh Kansakar,Shanshan Zhang,Slobodan Vucetic,Zheng Wang,Michael J.E. Sternberg,Mark N. Wass,Rachael P. Huntley,Maria Jesus Martin,Claire O'Donovan,Peter N. Robinson,Yves Moreau,Anna Tramontano,Patricia C. Babbitt,Steven E. Brenner,Michal Linial,Christine A. Orengo,Burkhard Rost,Casey S. Greene,Sean D. Mooney,Iddo Friedberg,Iddo Friedberg,Predrag Radivojac +156 more
TL;DR: The second critical assessment of functional annotation (CAFA), a timed challenge to assess computational methods that automatically assign protein function, was conducted by as mentioned in this paper. But the results of the CAFA2 assessment are limited.
Additional file 1 of An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Yuxiang Jiang,Tal Ronnen Oron,Wyatt T. Clark,Asma R. Bankapur,Daniel D'Andrea,Rosalba Lepore,Christopher S. Funk,Indika Kahanda,Karin Verspoor,Asa Ben-Hur,Da Chen Emily Koo,Duncan Penfold-Brown,Dennis Shasha,Noah Youngs,Richard Bonneau,Alexandra Lin,Sayed M. E. Sahraeian,Pier Luigi Martelli,Giuseppe Profiti,Rita Casadio,Renzhi Cao,Zhaolong Zhong,Jianlin Cheng,Adrian M. Altenhoff,Nives Škunca,Christophe Dessimoz,Tunca Doğan,Kai Hakala,Suwisa Kaewphan,Farrokh Mehryary,Tapio Salakoski,Filip Ginter,Hai Fang,Ben Smithers,Matt E. Oates,Julian Gough,Petri Törönen,Patrik Koskinen,Liisa Holm,Ching-Tai Chen,Wen-Lian Hsu,Kevin Bryson,Domenico Cozzetto,Federico Minneci,David T. Jones,Samuel Chapman,Dukka Bkc,Ishita K. Khan,Daisuke Kihara,Dan Ofer,Nadav Rappoport,Amos Stern,Elena Cibrian-Uhalte,Paul Denny,Rebecca E. Foulger,Reija Hieta,Duncan Legge,Ruth C. Lovering,Michele Magrane,Anna N. Melidoni,Prudence Mutowo-Meullenet,Klemens Pichler,Aleksandra Shypitsyna,Biao Li,Pooya Zakeri,Sarah ElShal,Léon-Charles Tranchevent,Sayoni Das,Natalie L. Dawson,David A. Lee,Jonathan G. Lees,Ian Sillitoe,Prajwal Bhat,Tamás Nepusz,Alfonso E. Romero,Rajkumar Sasidharan,Haixuan Yang,Alberto Paccanaro,Jesse Gillis,Adriana E. Sedeño Cortés,Paul Pavlidis,Shou Feng,Juan Miguel Cejuela,Tatyana Goldberg,Tobias Hamp,Lothar Richter,Asaf Salamov,Toni Gabaldón,Marina Marcet-Houben,Fran Supek,Qingtian Gong,Wei Ning,Yuanpeng Zhou,Weidong Tian,Marco Falda,Paolo Fontana,Enrico Lavezzo,Stefano Toppo,Carlo Ferrari,Manuel Giollo,Damiano Piovesan,Silvio C. E. Tosatto,Angela del Pozo,José M. Fernández,Paolo Maietta,Alfonso Valencia,Michael L. Tress,Alfredo Benso,Stefano Di Carlo,Gianfranco Politano,Alessandro Savino,Hafeez Ur Rehman,Matteo Re,Marco Mesiti,Giorgio Valentini,Joachim W. Bargsten,Aalt D. J. van Dijk,Branislava Gemovic,Sanja Glisic,Vladmir Perovic,Veljko Veljkovic,Nevena Veljkovic,Danillo C. Almeida e. Silva,Ricardo Z. N. Vêncio,Malvika Sharan,Jörg Vogel,Lakesh Kansakar,Shanshan Zhang,Slobodan Vucetic,Zheng Wang,Michael J.E. Sternberg,Mark N. Wass,Rachael P. Huntley,Maria Jesus Martin,Claire O'Donovan,Peter N. Robinson,Yves Moreau,Anna Tramontano,Patricia C. Babbitt,Steven E. Brenner,Michal Linial,Christine A. Orengo,Burkhard Rost,Casey S. Greene,Sean D. Mooney,Iddo Friedberg,Predrag Radivojac +146 more
TL;DR: The second critical assessment of functional annotation (CAFA) conducted, a timed challenge to assess computational methods that automatically assign protein function, revealed that the definition of top-performing algorithms is ontology specific, that different performance metrics can be used to probe the nature of accurate predictions, and the relative diversity of predictions in the biological process and human phenotype ontologies.
Journal ArticleDOI
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Yuxiang Jiang,Tal Ronnen Oron,Wyatt T. Clark,Asma R. Bankapur,Daniel D'Andrea,Rosalba Lepore,Christopher S. Funk,Indika Kahanda,Karin Verspoor,Asa Ben-Hur,Emily Koo,Duncan Penfold-Brown,Dennis Shasha,Noah Youngs,Richard Bonneau,Alexandra Lin,Sayed M. E. Sahraeian,Pier Luigi Martelli,Giuseppe Profiti,Rita Casadio,Renzhi Cao,Zhaolong Zhong,Jianlin Cheng,Adrian M. Altenhoff,Nives Škunca,Christophe Dessimoz,Tunca Doğan,Kai Hakala,Suwisa Kaewphan,Farrokh Mehryary,Tapio Salakoski,Filip Ginter,Hai Fang,Ben Smithers,Matt E. Oates,Julian Gough,Petri Törönen,Patrik Koskinen,Liisa Holm,Ching-Tai Chen,Wen-Lian Hsu,Kevin Bryson,Domenico Cozzetto,Federico Minneci,David T. Jones,Samuel Chapman,Ishita K. Khan,Daisuke Kihara,Dan Ofer,Nadav Rappoport,Amos Stern,Elena Cibrian-Uhalte,Paul Denny,Rebecca E. Foulger,Reija Hieta,Duncan Legge,Ruth C. Lovering,Michele Magrane,Anna N. Melidoni,Prudence Mutowo-Meullenet,Klemens Pichler,Aleksandra Shypitsyna,Biao Li,Pooya Zakeri,Sarah ElShal,Léon-Charles Tranchevent,Sayoni Das,Natalie L. Dawson,David A. Lee,Jonathan G. Lees,Ian Sillitoe,Prajwal Bhat,Tamás Nepusz,Alfonso E. Romero,Rajkumar Sasidharan,Haixuan Yang,Alberto Paccanaro,Jesse Gillis,Adriana E. Sedeno-Cortes,Paul Pavlidis,Shou Feng,Juan Miguel Cejuela,Tatyana Goldberg,Tobias Hamp,Lothar Richter,Asaf Salamov,Toni Gabaldón,Marina Marcet-Houben,Fran Supek,Qingtian Gong,Wei Ning,Yuanpeng Zhou,Weidong Tian,Marco Falda,Paolo Fontana,Enrico Lavezzo,Stefano Toppo,Carlo Ferrari,Manuel Giollo,Damiano Piovesan,Silvio C. E. Tosatto,Angela del Pozo,José M. Fernández,Paolo Maietta,Alfonso Valencia,Michael L. Tress,Alfredo Benso,Stefano Di Carlo,Gianfranco Politano,Alessandro Savino,Hafeez Ur Rehman,Matteo Re,Marco Mesiti,Giorgio Valentini,Joachim W. Bargsten,Aalt D. J. van Dijk,Branislava Gemovic,Sanja Glisic,Vladmir Perovic,Veljko Veljkovic,Nevena Veljkovic,Danillo C Almeida-E-Silva,Ricardo Z. N. Vêncio,Malvika Sharan,Jörg Vogel,Lakesh Kansakar,Shanshan Zhang,Slobodan Vucetic,Zheng Wang,Michael J.E. Sternberg,Mark N. Wass,Rachael P. Huntley,Maria Jesus Martin,Claire O'Donovan,Peter N. Robinson,Yves Moreau,Anna Tramontano,Patricia C. Babbitt,Steven E. Brenner,Michal Linial,Christine A. Orengo,Burkhard Rost,Casey S. Greene,Sean D. Mooney,Iddo Friedberg,Predrag Radivojac +145 more
TL;DR: The second Critical Assessment of Functional Annotation (CAFA) challenge as mentioned in this paper was the first attempt to assess computational methods that automatically assign protein function. And the results of CAFA2 showed that computational function prediction is improving.
Proceedings Article
Semi-supervised learning for integration of aerosol predictions from multiple satellite instruments
TL;DR: The proposed method for learning how to aggregate AOD estimations from multiple satellite instruments into a more accurate estimation is semi-supervised, as it is able to learn from a small number of labeled data, where labels come from a few accurate and expensive ground-based instruments and a large number of unlabeled data.
Journal ArticleDOI
Semi-supervised combination of experts for aerosol optical depth estimation ☆
TL;DR: A semi-supervised method for learning how to aggregate estimations from multiple satellite instruments into a more accurate estimate of Aerosol Optical Depth, where labels come from a small number of accurate and expensive ground-based instruments is presented.