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Nicola J. Mulder
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- affiliation: University of Cape Town, South Africa
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2020 – today
- 2024
- [j62]Anmol M. Kiran, Mariem Hanachi
, Nihad Alsayed
, Meriem Fassatoui, Ovokeraye Achinike-Oduaran, Imane Allali, Suresh Maslamoney, Ayton Meintjes, Lyndon Zass
, Jorge Da Rocha, Rym Kefi, Alia Benkahla, Kais Ghedira, Sumir Panji, Nicola J. Mulder, Faisal M. Fadlelmola
, Oussema Souiai:
The African Human Microbiome Portal: a public web portal of curated metagenomic metadata. Database J. Biol. Databases Curation 2024 (2024) - [j61]Lyndon Zass, Lamech M. Mwapagha, Adetola F. Louis-Jacques, Imane Allali, Julius Mulindwa, Anmol M. Kiran, Mariem Hanachi
, Oussama Souiai
, Nicola J. Mulder, Ovokeraye Achinike-Oduaran
:
Advancing microbiome research through standardized data and metadata collection: introducing the Microbiome Research Data Toolkit. Database J. Biol. Databases Curation 2024 (2024) - 2023
- [j60]Stephanie O. M. Dyke, Kathleen Connor, Victoria Nembaware, Nchangwi S. Munung
, Kathy Reinold, Giselle Kerry, Mamana Mbiyavanga, Lyndon Zass
, Mauricio Moldes, Samir Das, John Mike Davis, Jordi Rambla De Argila, J. Dylan Spalding, Alan C. Evans, Nicola J. Mulder
, Jason Karamchandani
:
Consent Codes: Maintaining Consent in an Ever-expanding Open Science Ecosystem. Neuroinformatics 21(1): 89-100 (2023) - [j59]Matthys G. Potgieter
, Andrew J. M. Nel, Suereta Fortuin
, Shaun Garnett, Jerome M. Wendoh, David L. Tabb
, Nicola J. Mulder
, Jonathan M. Blackburn
:
MetaNovo: An open-source pipeline for probabilistic peptide discovery in complex metaproteomic datasets. PLoS Comput. Biol. 19(6) (2023) - 2022
- [j58]Gaston K. Mazandu
, Jade Hotchkiss, Victoria Nembaware, Ambroise Wonkam
, Nicola J. Mulder
:
The Sickle Cell Disease Ontology: recent development and expansion of the universal sickle cell knowledge representation. Database J. Biol. Databases Curation 2022(2022) (2022) - [j57]Benjamin L. Moore, Patricia Carvajal López, Paballo Abel Chauke, Marco Cristancho, Victoria Dominguez Del Angel, Selene L. Fernandez-Valverde, Amel Ghouila, Piraveen Gopalasingam
, Fatma Zahra Guerfali
, Alice Matimba
, Sarah L. Morgan, Guilherme Oliveira, Verena Ras, Alejandro Reyes, Javier De Las Rivas, Nicola J. Mulder:
Correction: Ten simple rules for organizing a bioinformatics training course in low- and middle-income countries. PLoS Comput. Biol. 18(5) (2022) - 2021
- [j56]Gaston K. Mazandu, Christopher Hooper, Kenneth Opap, Funmilayo L. Makinde, Victoria Nembaware, Nicholas E. Thomford, Emile R. Chimusa
, Ambroise Wonkam, Nicola J. Mulder:
IHP-PING - generating integrated human protein-protein interaction networks on-the-fly. Briefings Bioinform. 22(4) (2021) - [j55]Funmilayo L. Makinde, Milaine S. S. Tchamga, James Jafali, Segun A. Fatumo
, Emile R. Chimusa
, Nicola J. Mulder
, Gaston K. Mazandu
:
Reviewing and assessing existing meta-analysis models and tools. Briefings Bioinform. 22(6) (2021) - [j54]Faisal M. Fadlelmola
, Kais Ghedira, Yosr Hamdi
, Mariem Hanachi
, Fouzia Radouani, Imane Allali, Anmol M. Kiran
, Lyndon Zass
, Nihad Alsayed
, Meriem Fassatoui, Chaimae Samtal
, Samah Ahmed
, Jorge Da Rocha, Souad Chaqsare, Reem M. Sallam
, Melek Chaouch
, Mohammed Farahat
, Alfred Ssekagiri
, Ziyaad Parker, Mai Adil, Michael Turkson
, Aymen Benchaalia, Alia Benkahla
, Sumir Panji, Samar Kamal Kassim
, Oussema Souiai, Nicola J. Mulder:
H3ABioNet genomic medicine and microbiome data portals hackathon proceedings. Database J. Biol. Databases Curation 2021 (2021) - [j53]Faisal M. Fadlelmola
, Lyndon Zass
, Melek Chaouch
, Chaimae Samtal
, Verena Ras
, Judit Kumuthini
, Sumir Panji
, Nicola J. Mulder
:
Data Management Plans in the genomics research revolution of Africa: Challenges and recommendations. J. Biomed. Informatics 122: 103900 (2021) - [j52]Verena Ras
, Gerrit Botha
, Shaun Aron
, Katie Lennard, Imane Allali, Shantelle Claassen-Weitz
, Kilaza Samson Mwaikono, Dane Kennedy
, Jessica R. Holmes
, Gloria Rendon, Sumir Panji, Christopher J. Fields
, Nicola J. Mulder
:
Using a multiple-delivery-mode training approach to develop local capacity and infrastructure for advanced bioinformatics in Africa. PLoS Comput. Biol. 17(2) (2021) - [j51]Benjamin L. Moore
, Patricia Carvajal López
, Paballo Abel Chauke
, Marco Cristancho
, Victoria Dominguez Del Angel
, Selene L. Fernandez-Valverde
, Amel Ghouila, Piraveen Gopalasingam
, Fatma Zahra Guerfali
, Alice Matimba
, Sarah L. Morgan, Guilherme Oliveira, Verena Ras
, Alejandro Reyes
, Javier De Las Rivas
, Nicola J. Mulder:
Ten simple rules for organizing a bioinformatics training course in low- and middle-income countries. PLoS Comput. Biol. 17(8) (2021) - [j50]Shaun Aron
, C. Victor Jongeneel
, Paballo Abel Chauke
, Melek Chaouch
, Judit Kumuthini
, Lyndon Zass
, Fouzia Radouani
, Samar Kamal Kassim
, Faisal M. Fadlelmola
, Nicola J. Mulder
:
Ten simple rules for developing bioinformatics capacity at an academic institution. PLoS Comput. Biol. 17(12) (2021) - 2020
- [j49]Ephifania Geza
, Nicola J. Mulder, Emile R. Chimusa
, Gaston K. Mazandu
:
FRANC: a unified framework for multi-way local ancestry deconvolution with high density SNP data. Briefings Bioinform. 21(5): 1837-1845 (2020)
2010 – 2019
- 2019
- [j48]Ephifania Geza
, Jacquiline W. Mugo, Nicola J. Mulder
, Ambroise Wonkam, Emile R. Chimusa
, Gaston K. Mazandu
:
A comprehensive survey of models for dissecting local ancestry deconvolution in human genome. Briefings Bioinform. 20(5): 1709-1724 (2019) - [j47]Jon Mitchell Ambler
, Shandukani Mulaudzi, Nicola J. Mulder:
GenGraph: a python module for the simple generation and manipulation of genome graphs. BMC Bioinform. 20(1): 519:1-519:8 (2019) - [j46]Judit Kumuthini
, Lyndon Zass
, Sumir Panji, Samson P. Salifu, Jonathan K. Kayondo, Victoria Nembaware, Mamana Mbiyavanga, Ajayi Olabode, Ali Kishk
, Gordon Wells, Nicola J. Mulder:
The H3ABioNet helpdesk: an online bioinformatics resource, enhancing Africa's capacity for genomics research. BMC Bioinform. 20(1): 741 (2019) - [j45]Judit Kumuthini
, Lyndon Zass
, Melek Chaouch
, Michael Thompson, Paul Olowoyo
, Mamana Mbiyavanga, Moyinoluwalogo Faniyan, Gordon Wells, Victoria Nembaware, Nicola J. Mulder, Mayowa Owolabi:
Proposed Guideline for Minimum Information Stroke Research and Clinical Data Reporting. Data Sci. J. 18: 26 (2019) - [j44]Ziyaad Parker, Suresh Maslamoney, Ayton Meintjes, Gerrit Botha, Sumir Panji, Scott Hazelhurst
, Nicola J. Mulder:
Building Infrastructure for African Human Genomic Data Management. Data Sci. J. 18: 47 (2019) - [j43]Faisal M. Fadlelmola
, Sumir Panji
, Azza E. Ahmed
, Amel Ghouila, Wisdom A. Akurugu
, Jean-Baka Domelevo Entfellner
, Oussema Souiai, Nicola J. Mulder
, H3ABioNet Consortium:
Ten simple rules for organizing a webinar series. PLoS Comput. Biol. 15(4) (2019) - [i3]John D. Van Horn
, Sumiko Abe, José Luis Ambite
, Teresa K. Attwood, Niall Beard, Louisa Bellis, Avnish Bhattrai, Alex A. T. Bui, Gully Burns, Lily Fierro, Jonathan Gordon
, Jeffrey S. Grethe
, Jeana Kamdar, Xiaoyu Lei, Kristina Lerman, Annette McGrath
, Nicola J. Mulder
, Caroline O'Driscoll, Crystal Stewart, Sonika Tyagi
:
Advancing the international data science workforce through shared training and education. F1000Research 8: 251 (2019) - 2018
- [j42]Gaston K. Mazandu
, Emile R. Chimusa
, Kayleigh Rutherford, Elsa-Gayle Zekeng, Zoe Z. Gebremariam, Maryam Y. Onifade, Nicola J. Mulder
:
Large-scale data-driven integrative framework for extracting essential targets and processes from disease-associated gene data sets. Briefings Bioinform. 19(6): 1141-1152 (2018) - [j41]Shakuntala Baichoo, Yassine Souilmi
, Sumir Panji, Gerrit Botha, Ayton Meintjes, Scott Hazelhurst
, Hocine Bendou
, Eugene de Beste
, Phelelani T. Mpangase
, Oussema Souiai, Mustafa Alghali, Long Yi, Brian D. O'Connor
, Michael R. Crusoe
, Don Armstrong, Shaun Aron
, Fourie Joubert
, Azza E. Ahmed
, Mamana Mbiyavanga, Peter van Heusden, Lerato E. Magosi, Jennie Zermeno, Liudmila S. Mainzer, Faisal M. Fadlelmola, C. Victor Jongeneel, Nicola J. Mulder:
Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics. BMC Bioinform. 19(1): 457:1-457:13 (2018) - [j40]Nicola J. Mulder
, Russell Schwartz
, Michelle D. Brazas
, Cath Brooksbank
, Bruno A. Gaëta, Sarah L. Morgan
, Mark A. Pauley
, Anne G. Rosenwald, Gabriella Rustici
, Michael L. Sierk
, Tandy J. Warnow, Lonnie R. Welch:
The development and application of bioinformatics core competencies to improve bioinformatics training and education. PLoS Comput. Biol. 14(2) (2018) - [j39]Ryman Shoko
, Justen Manasa
, Mcebisi Maphosa
, Joshua Mbanga, Reagan Mudziwapasi, Victoria Nembaware, Walter T. Sanyika, Tawanda Tinago
, Zedias Chikwambi
, Cephas Mawere, Alice Matimba
, Grace Mugumbate
, Jonathan Mufandaedza
, Nicola J. Mulder
, Hugh Patterton
:
Strategies and opportunities for promoting bioinformatics in Zimbabwe. PLoS Comput. Biol. 14(11) (2018) - [c5]Samar S. M. Elsheikh
, Emile R. Chimusa
, Nicola J. Mulder, Alessandro Crimi
:
Relating connectivity changes in brain networks to genetic information in Alzheimer patients. ISBI 2018: 1390-1393 - [c4]Samar S. M. Elsheikh
, Spyridon Bakas
, Nicola J. Mulder, Emile R. Chimusa
, Christos Davatzikos, Alessandro Crimi
:
Multi-stage Association Analysis of Glioblastoma Gene Expressions with Texture and Spatial Patterns. BrainLes@MICCAI (1) 2018: 239-250 - 2017
- [j38]Gaston K. Mazandu
, Emile R. Chimusa
, Nicola J. Mulder
:
Gene Ontology semantic similarity tools: survey on features and challenges for biological knowledge discovery. Briefings Bioinform. 18(5): 886-901 (2017) - [j37]Jacquiline W. Mugo, Ephifania Geza
, Joel Defo
, Samar S. M. Elsheikh
, Gaston K. Mazandu
, Nicola J. Mulder
, Emile R. Chimusa
:
A multi-scenario genome-wide medical population genetics simulation framework. Bioinform. 33(19): 2995-3002 (2017) - [j36]Nicola J. Mulder
, Clement A. Adebamowo
, Sally N. Adebamowo
, Oladimeji Adebayo
, Osimhiarherhuo Adeleye, Mohamed Alibi
, Shakuntala Baichoo
, Alia Benkahla, Faisal M. Fadlelmola, Hassan Ghazal
, Kais Ghedira, Alice Matimba
, Ahmed Moussa
, Zahra Mungloo-Dilmohamud
, Mayowa Owolabi
, Fouzia Radouani, Charles Rotimi, Dan J. Stein
, Oussama Souiai
:
Genomic Research Data Generation, Analysis and Sharing - Challenges in the African Setting. Data Sci. J. 16: 49 (2017) - [j35]Bruno A. Gaëta, Javier De Las Rivas
, Paul Horton, Pieter Meysman
, Nicola J. Mulder
, Paolo Romano
, Lonnie R. Welch:
Ten simple rules for forming a scientific professional society. PLoS Comput. Biol. 13(3) (2017) - [j34]C. Victor Jongeneel
, Ovokeraye Achinike-Oduaran
, Ezekiel F. Adebiyi, Marion O. Adebiyi
, Seun Adeyemi
, Bola Akanle, Shaun Aron
, Efejiro Ashano, Hocine Bendou
, Gerrit Botha, Emile R. Chimusa
, Ananyo Choudhury
, Ravikiran Donthu, Jenny Drnevich, Oluwadamilare Falola
, Christopher J. Fields
, Scott Hazelhurst
, Liesl Hendry, Itunuoluwa Isewon
, Radhika S. Khetani
, Judit Kumuthini
, Magambo Phillip Kimuda
, Lerato E. Magosi, Liudmila S. Mainzer, Suresh Maslamoney, Mamana Mbiyavanga, Ayton Meintjes, Danny Mugutso, Phelelani T. Mpangase
, Richard Munthali
, Victoria Nembaware, Andrew Ndhlovu
, Trust Odia, Adaobi Okafor, Olaleye Oladipo, Sumir Panji, Venesa Pillay, Gloria Rendon, Dhriti Sengupta
, Nicola J. Mulder
:
Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics network. PLoS Comput. Biol. 13(6) (2017) - [j33]Kim T. Gurwitz
, Shaun Aron
, Sumir Panji, Suresh Maslamoney, Pedro L. Fernandes
, David P. Judge, Amel Ghouila, Jean-Baka Domelevo Entfellner
, Fatma Z. Guerfali
, Colleen Saunders
, Ahmed Mansour Alzohairy, Samson P. Salifu
, Rehab Ahmed
, Ruben Cloete
, Jonathan K. Kayondo, Deogratius Ssemwanga, Nicola J. Mulder
, H3ABioNet Consortium:
Designing a course model for distance-based online bioinformatics training in Africa: The H3ABioNet experience. PLoS Comput. Biol. 13(10) (2017) - [i2]Rafael C. Jiménez
, Mateusz Kuzak, Monther Alhamdoosh
, Michelle Barker
, Bérénice Batut
, Mikael Borg, Salvador Capella-Gutiérrez
, Neil P. Chue Hong, Martin Cook, Manuel Corpas
, Madison Flannery, Leyla J. García
, Josep Lluis Gelpí, Simon L. Gladman, Carole A. Goble, Montserrat González Ferreiro, Alejandra N. González-Beltrán
, Philippa C. Griffin, Björn A. Grüning
, Jonas Hagberg
, Petr Holub
, Rob W. W. Hooft
, Jon C. Ison
, Daniel S. Katz
, Brane Leskosek, Federico López-Gómez
, Luis J. Oliveira, David Mellor, Rowland Mosbergen, Nicola J. Mulder
, Yasset Pérez-Riverol
, Robert Pergl, Horst Pichler, Bernard J. Pope
, Ferran Sanz
, Maria Victoria Schneider, Victoria Stodden, Radoslaw Suchecki
, Radka Svobodová Vareková
, Harry-Anton Talvik
, Ilian T. Todorov, Andrew E. Treloar
, Sonika Tyagi
, Maarten van Gompel, Daniel Vaughan
, Allegra Via, Xiaochuan Wang, Nathan S. Watson-Haigh
, Steve Crouch:
Four simple recommendations to encourage best practices in research software. F1000Research 6: 876- (2017) - 2016
- [j32]Gaston K. Mazandu
, Emile R. Chimusa
, Mamana Mbiyavanga, Nicola J. Mulder
:
A-DaGO-Fun: an adaptable Gene Ontology semantic similarity-based functional analysis tool. Bioinform. 32(3): 477-479 (2016) - [j31]Emile R. Chimusa
, Mamana Mbiyavanga, Gaston K. Mazandu
, Nicola J. Mulder
:
ancGWAS: a post genome-wide association study method for interaction, pathway and ancestry analysis in homogeneous and admixed populations. Bioinform. 32(4): 549-556 (2016) - [j30]Nicola J. Mulder
, Alan Christoffels
, Tulio de Oliveira
, Junaid Gamieldien, Scott Hazelhurst
, Fourie Joubert
, Judit Kumuthini
, Ché S. Pillay
, Jacky L. Snoep
, Özlem Tastan Bishop
, Nicki Tiffin:
The Development of Computational Biology in South Africa: Successes Achieved and Lessons Learnt. PLoS Comput. Biol. 12(2) (2016) - [j29]Lonnie R. Welch, Cath Brooksbank
, Russell Schwartz
, Sarah L. Morgan
, Bruno A. Gaëta, Alastair M. Kilpatrick
, Daniel Mietchen
, Benjamin L. Moore
, Nicola J. Mulder
, Mark A. Pauley, William R. Pearson
, Predrag Radivojac, Naomi Rosenberg, Anne G. Rosenwald, Gabriella Rustici
, Tandy J. Warnow:
Applying, Evaluating and Refining Bioinformatics Core Competencies (An Update from the Curriculum Task Force of ISCB's Education Committee). PLoS Comput. Biol. 12(5) (2016) - 2015
- [j28]Özlem Tastan Bishop
, Ezekiel F. Adebiyi, Ahmed M. Alzohairy, Dean Everett
, Kais Ghedira
, Amel Ghouila, Judit Kumuthini
, Nicola J. Mulder
, Sumir Panji, Hugh-George Patterton
:
Bioinformatics Education - Perspectives and Challenges out of Africa. Briefings Bioinform. 16(2): 355-364 (2015) - [j27]Aidan Budd, Manuel Corpas
, Michelle D. Brazas
, Jonathan C. Fuller, Jeremy Goecks, Nicola J. Mulder
, Magali Michaut
, B. F. Francis Ouellette
, Aleksandra Pawlik, Niklas Blomberg
:
A Quick Guide for Building a Successful Bioinformatics Community. PLoS Comput. Biol. 11(2) (2015) - [j26]Teresa K. Attwood
, Erik Bongcam-Rudloff, Michelle D. Brazas
, Manuel Corpas
, Pascale Gaudet
, Fran Lewitter, Nicola J. Mulder
, Patricia M. Palagi
, Maria Victoria Schneider, Celia W. G. van Gelder
:
GOBLET: The Global Organisation for Bioinformatics Learning, Education and Training. PLoS Comput. Biol. 11(4) (2015) - 2014
- [j25]Gustavo A. Salazar
, Ayton Meintjes, Gaston K. Mazandu
, Holifidy A. Rapanoël, Richard O. Akinola, Nicola J. Mulder
:
A web-based protein interaction network visualizer. BMC Bioinform. 15: 129 (2014) - [i1]Gustavo A. Salazar
, Ayton Meintjes, Nicola J. Mulder
:
PPI layouts: BioJS components for the display of Protein-Protein Interactions. F1000Research 3: 50 (2014) - 2013
- [j24]Allegra Via, Thomas Blicher, Erik Bongcam-Rudloff, Michelle D. Brazas
, Catherine Brooksbank, Aidan Budd, Javier De Las Rivas
, Jacqueline Dreyer
, Pedro L. Fernandes
, Celia W. G. van Gelder
, Joachim Jacob, Rafael C. Jiménez
, Jane E. Loveland
, Federico Morán
, Nicola J. Mulder
, Tommi H. Nyrönen
, Kristian Rother, Maria Victoria Schneider, Teresa K. Attwood
:
Best practices in bioinformatics training for life scientists. Briefings Bioinform. 14(5): 528-537 (2013) - [j23]Rafael C. Jiménez
, Juan P. Albar, Jong Bhak, Marie-Claude Blatter, Thomas Blicher, Michelle D. Brazas
, Catherine Brooksbank, Aidan Budd, Javier De Las Rivas
, Jacqueline Dreyer
, Marc A. van Driel, Michael J. Dunn, Pedro L. Fernandes
, Celia W. G. van Gelder
, Henning Hermjakob
, Vassilios Ioannidis
, David Phillip Judge, Pascal Kahlem
, Eija Korpelainen
, Hans-Joachim Kraus, Jane E. Loveland
, Christine Mayer, Jennifer McDowall, Federico Morán
, Nicola J. Mulder
, Tommi H. Nyrönen
, Kristian Rother, Gustavo A. Salazar
, Reinhard Schneider
, Allegra Via, Jose M. Villaveces, Ping Yu, Maria Victoria Schneider, Teresa K. Attwood
, Manuel Corpas
:
iAnn: an event sharing platform for the life sciences. Bioinform. 29(15): 1919-1921 (2013) - [j22]Gaston K. Mazandu
, Nicola J. Mulder
:
DaGO-Fun: tool for Gene Ontology-based functional analysis using term information content measures. BMC Bioinform. 14: 284 (2013) - [c3]Carl Barton, Costas S. Iliopoulos, Nicola J. Mulder
, Bruce W. Watson:
Identification of All Exact and Approximate Inverted Repeats in Regular and Weighted Sequences. EANN (2) 2013: 11-19 - 2012
- [j21]Gaston K. Mazandu
, Nicola J. Mulder
:
A Topology-Based Metric for Measuring Term Similarity in the Gene Ontology. Adv. Bioinformatics 2012: 975783:1-975783:17 (2012) - [j20]Sarah W. Burge
, Elizabeth Kelly, David Lonsdale, Prudence Mutowo-Meullenet
, Craig McAnulla, Alex L. Mitchell
, Amaia Sangrador-Vegas
, Siew-Yit Yong
, Nicola J. Mulder
, Sarah Hunter
:
Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Database J. Biol. Databases Curation 2012 (2012) - [j19]Sarah Hunter
, Philip Jones, Alex L. Mitchell
, Rolf Apweiler
, Teresa K. Attwood
, Alex Bateman
, Thomas Bernard
, David Binns, Peer Bork
, Sarah W. Burge
, Edouard De Castro
, Penny C. Coggill, Matthew Corbett, Ujjwal Das, Louise C. Daugherty, Lauranne Duquenne, Robert D. Finn
, Matthew Fraser
, Julian Gough, Daniel H. Haft, Nicolas Hulo, Daniel Kahn, Elizabeth Kelly, Ivica Letunic
, David Lonsdale, Rodrigo Lopez
, Martin Madera, John Maslen, Craig McAnulla, Jennifer McDowall, Conor McMenamin, Huaiyu Mi, Prudence Mutowo-Meullenet
, Nicola J. Mulder
, Darren A. Natale
, Christine A. Orengo, Sebastien Pesseat, Marco Punta
, Antony F. Quinn
, Catherine Rivoire
, Amaia Sangrador-Vegas
, Jeremy D. Selengut, Christian J. A. Sigrist
, Maxim Scheremetjew
, John G. Tate
, Manjulapramila Thimmajanarthanan, Paul D. Thomas
, Cathy H. Wu
, Corin Yeats, Siew-Yit Yong
:
InterPro in 2011: new developments in the family and domain prediction database. Nucleic Acids Res. 40(Database-Issue): 306-312 (2012) - 2011
- [j18]Gaston K. Mazandu
, Nicola J. Mulder
:
Generation and Analysis of Large-Scale Data-Driven Mycobacterium tuberculosis Functional Networks for Drug Target Identification. Adv. Bioinformatics 2011: 801478:1-801478:14 (2011) - [j17]Ludwig Geistlinger, Gergely Csaba, Robert Küffner, Nicola J. Mulder
, Ralf Zimmer
:
From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems. Bioinform. 27(13): 366-373 (2011) - [j16]Jose M. Villaveces, Rafael C. Jiménez
, Leyla J. García
, Gustavo A. Salazar
, Bernat Gel
, Nicola J. Mulder
, Maria Jesus Martin
, Alexander García Castro, Henning Hermjakob
:
Dasty3, a WEB framework for DAS. Bioinform. 27(18): 2616-2617 (2011) - [j15]Andre J. Faure, Cathal Seoighe, Nicola J. Mulder
:
Investigating the effect of paralogs on microarray gene-set analysis. BMC Bioinform. 12: 29 (2011) - [j14]Gustavo A. Salazar
, Rafael C. Jiménez
, Alexander García Castro, Henning Hermjakob
, Nicola J. Mulder
, Edwin H. Blake
:
DAS Writeback: A Collaborative Annotation System. BMC Bioinform. 12: 143 (2011)
2000 – 2009
- 2009
- [j13]Sarah Hunter
, Rolf Apweiler
, Teresa K. Attwood
, Amos Bairoch
, Alex Bateman
, David Binns, Peer Bork
, Ujjwal Das, Louise C. Daugherty
, Lauranne Duquenne, Robert D. Finn
, Julian Gough, Daniel H. Haft, Nicolas Hulo, Daniel Kahn, Elizabeth Kelly, Aurélie Laugraud, Ivica Letunic
, David Lonsdale, Rodrigo Lopez
, Martin Madera, John Maslen, Craig McAnulla, Jennifer McDowall, Jaina Mistry
, Alex L. Mitchell
, Nicola J. Mulder
, Darren A. Natale
, Christine A. Orengo, Antony F. Quinn
, Jeremy D. Selengut, Christian J. A. Sigrist
, Manjula Thimma, Paul D. Thomas
, Franck Valentin, Derek Wilson, Cathy H. Wu
, Corin Yeats:
InterPro: the integrative protein signature database. Nucleic Acids Res. 37(Database-Issue): 211-215 (2009) - 2007
- [j12]Nicola J. Mulder
, Rolf Apweiler
, Teresa K. Attwood
, Amos Bairoch
, Alex Bateman
, David Binns, Peer Bork
, Virginie Buillard, Lorenzo Cerutti, Richard R. Copley, Emmanuel Courcelle, Ujjwal Das, Louise C. Daugherty
, Mark Dibley, Robert D. Finn
, Wolfgang Fleischmann, Julian Gough, Daniel H. Haft, Nicolas Hulo, Sarah Hunter
, Daniel Kahn, Alexander Kanapin
, Anish Kejariwal, Alberto Labarga
, Petra S. Langendijk-Genevaux
, David Lonsdale, Rodrigo Lopez
, Ivica Letunic
, Martin Madera, John Maslen, Craig McAnulla, Jennifer McDowall, Jaina Mistry
, Alex L. Mitchell
, Anastasia N. Nikolskaya, Sandra E. Orchard
, Christine A. Orengo, Robert Petryszak
, Jeremy D. Selengut, Christian J. A. Sigrist
, Paul D. Thomas
, Franck Valentin, Derek Wilson, Cathy H. Wu
, Corin Yeats:
New developments in the InterPro database. Nucleic Acids Res. 35(Database-Issue): 224-228 (2007) - 2005
- [j11]Nicola J. Mulder
, Rolf Apweiler
, Teresa K. Attwood
, Amos Bairoch
, Alex Bateman
, David Binns, Paul Bradley, Peer Bork
, Phillip Bucher, Lorenzo Cerutti, Richard R. Copley, Emmanuel Courcelle, Ujjwal Das, Richard Durbin
, Wolfgang Fleischmann, Julian Gough, Daniel H. Haft, Nicola Harte, Nicolas Hulo, Daniel Kahn, Alexander Kanapin
, Maria Krestyaninova
, David Lonsdale, Rodrigo Lopez
, Ivica Letunic
, Martin Madera, John Maslen, Jennifer McDowall, Alex L. Mitchell
, Anastasia N. Nikolskaya, Sandra E. Orchard
, Marco Pagni
, Chris P. Ponting
, Emmanuel Quevillon, Jeremy D. Selengut, Christian J. A. Sigrist
, Ville Silventoinen, David J. Studholme
, Robert Vaughan
, Cathy H. Wu
:
InterPro, progress and status in 2005. Nucleic Acids Res. 33(Database-Issue): 201-205 (2005) - [j10]Emmanuel Quevillon, Ville Silventoinen, Sharmila Pillai, Nicola Harte, Nicola J. Mulder
, Rolf Apweiler
, Rodrigo Lopez
:
InterProScan: protein domains identifier. Nucleic Acids Res. 33(Web-Server-Issue): 116-120 (2005) - 2003
- [j9]Catherine Brooksbank
, Evelyn Camon, Midori A. Harris, Michele Magrane
, Maria Jesus Martin
, Nicola J. Mulder
, Claire O'Donovan
, Helen E. Parkinson
, Mary Ann Tuli
, Rolf Apweiler
, Ewan Birney
, Alvis Brazma
, Kim Henrick, Rodrigo Lopez
, Guenter Stoesser, Peter Stoehr
, Graham Cameron:
The European Bioinformatics Institute's data resources. Nucleic Acids Res. 31(1): 43-50 (2003) - [j8]Nicola J. Mulder, Rolf Apweiler
, Terri K. Attwood
, Amos Bairoch
, Daniel Barrell
, Alex Bateman
, David Binns, Margaret Biswas, Paul Bradley, Peer Bork
, Philipp Bucher, Richard R. Copley, Emmanuel Courcelle, Ujjwal Das, Richard Durbin
, Laurent Falquet, Wolfgang Fleischmann, Sam Griffiths-Jones
, Daniel H. Haft, Nicola Harte, Nicolas Hulo, Daniel Kahn, Alexander Kanapin
, Maria Krestyaninova
, Rodrigo Lopez
, Ivica Letunic
, David Lonsdale, Ville Silventoinen, Sandra E. Orchard
, Marco Pagni
, David Peyruc, Chris P. Ponting
, Jeremy D. Selengut, Florence Servant
, Christian J. A. Sigrist
, Robert Vaughan
, Evgeni M. Zdobnov
:
The InterPro Database, 2003 brings increased coverage and new features. Nucleic Acids Res. 31(1): 315-318 (2003) - [j7]Manuela Pruess, Wolfgang Fleischmann, Alexander Kanapin
, Youla Karavidopoulou
, Paul J. Kersey
, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder
, Isabelle Phan, Florence Servant
, Rolf Apweiler
:
The Proteome Analysis database: a tool for the in silico analysis of whole proteomes. Nucleic Acids Res. 31(1): 414-417 (2003) - 2002
- [j6]Nicola J. Mulder
, Rolf Apweiler
, Terri K. Attwood
, Amos Bairoch
, Alex Bateman
, David Binns, Margaret Biswas, Paul Bradley, Peer Bork
, Philipp Bucher, Richard R. Copley, Emmanuel Courcelle, Richard Durbin
, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Sam Griffiths-Jones, Daniel H. Haft, Henning Hermjakob
, Nicolas Hulo, Daniel Kahn, Alexander Kanapin
, Maria Krestyaninova, Rodrigo Lopez
, Ivica Letunic
, Sue Orchard, Marco Pagni
, David Peyruc, Chris P. Ponting
, Florence Servant
, Christian J. A. Sigrist
:
InterPro: An Integrated Documentation Resource for Protein Families, Domains and Functional Sites. Briefings Bioinform. 3(3): 225-235 (2002) - [j5]Margaret Biswas, Joseph F. O'Rourke, Evelyn Camon, Gillian Fraser, Alexander Kanapin
, Youla Karavidopoulou
, Paul J. Kersey
, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder
, Isabelle Phan, Florence Servant
, Rolf Apweiler
:
Applications of InterPro in Protein Annotation and Genome Analysis. Briefings Bioinform. 3(3): 285-295 (2002) - [j4]Alexander Kanapin
, Rolf Apweiler
, Margaret Biswas, Wolfgang Fleischmann, Youla Karavidopoulou
, Paul J. Kersey
, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder
, Thomas M. Oinn, Isabelle Phan, Florence Servant
, Evgeni M. Zdobnov
:
Interactive InterPro-based comparisons of proteins in whole genomes. Bioinform. 18(2): 374-375 (2002) - [c2]Rolf Apweiler, Margaret Biswas, Wolfgang Fleischmann, Evgenia V. Kriventseva, Nicola J. Mulder:
Automation of Protein Sequence Characterization and Its Application in Whole Proteome Analysis. Gene Regulations and Metabolism 2002: 19-47 - 2001
- [j3]Rolf Apweiler
, Terri K. Attwood
, Amos Bairoch
, Alex Bateman, Ewan Birney
, Margaret Biswas, Philipp Bucher, Lorenzo Cerutti, Florence Corpet, Michael D. R. Croning, Richard Durbin
, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Henning Hermjakob
, Nicolas Hulo, Inge Jonassen
, Daniel Kahn, Alexander Kanapin
, Youla Karavidopoulou
, Rodrigo Lopez
, Beate Marx, Nicola J. Mulder
, Thomas M. Oinn, Marco Pagni
, Florence Servant
, Christian J. A. Sigrist
, Evgeni M. Zdobnov
:
The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res. 29(1): 37-40 (2001) - [j2]Rolf Apweiler
, Margaret Biswas, Wolfgang Fleischmann, Alexander Kanapin
, Youla Karavidopoulou
, Paul J. Kersey
, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder
, Isabelle Phan, Evgeni M. Zdobnov
:
Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes. Nucleic Acids Res. 29(1): 44-48 (2001) - 2000
- [j1]Rolf Apweiler
, Terri K. Attwood
, Amos Bairoch
, Alex Bateman, Ewan Birney
, Margaret Biswas, Philipp Bucher, Lorenzo Cerutti, Florence Corpet, Michael D. R. Croning, Richard Durbin
, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Henning Hermjakob
, Nicolas Hulo, Inge Jonassen
, Daniel Kahn, Alexander Kanapin
, Youla Karavidopoulou
, Rodrigo Lopez
, Beate Marx, Nicola J. Mulder
, Thomas M. Oinn, Marco Pagni
, Florence Servant
, Christian J. A. Sigrist
, Evgeni M. Zdobnov
:
InterPro-an integrated documentation resource for protein families, domains and functional sites. Bioinform. 16(12): 1145-1150 (2000) - [c1]Margaret Biswas, Rolf Apweiler, Wolfgang Fleischmann, Alexander Kanapin, Youla Karavidopoulou, Paul J. Kersey, Evgenia V. Kriventseva, Virginie Mittard, Nicola J. Mulder, Thomas M. Oinn, Isabelle Phan, Evgeni M. Zdobnov:
Proteome Analysis: Application of InterPro and CluSTr for the Functional Classification of Proteins in Whole Genomes. German Conference on Bioinformatics 2000: 149-158
Coauthor Index
Terri K. Attwood
aka: Teresa K. Attwood
aka: Teresa K. Attwood