Publications - Revision history

Soiland-Reyes: isbn

2022-08-25T14:56:15Z

isbn

← Older revision		Revision as of 14:56, 25 August 2022
Line 6:		Line 6:
	# Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean (2020): <br /> '''BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations''' [version 1; peer review: 2 approved]. <br /> ''F1000Research'' '''9''':1144 https://doi.org/10.12688/f1000research.25902.1		# Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean (2020): <br /> '''BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations''' [version 1; peer review: 2 approved]. <br /> ''F1000Research'' '''9''':1144 https://doi.org/10.12688/f1000research.25902.1
	# Naila Gulzar, Jonathon Keeney, Jack B. Baker, Ondrej Klempir, Geoffrey Hannigan, Danny A. Bitton, Julia M Maritz, Charles Hadley S. King IV, Janisha A. Patel, Paul Duncan, Raja Mazumder (2021): <br /> '''BioCompute Objects to communicate a viral detection pipeline with potential for use in a regulatory environment'''. <br /> ''bioRxiv'' https://doi.org/10.1101/2021.10.19.465010		# Naila Gulzar, Jonathon Keeney, Jack B. Baker, Ondrej Klempir, Geoffrey Hannigan, Danny A. Bitton, Julia M Maritz, Charles Hadley S. King IV, Janisha A. Patel, Paul Duncan, Raja Mazumder (2021): <br /> '''BioCompute Objects to communicate a viral detection pipeline with potential for use in a regulatory environment'''. <br /> ''bioRxiv'' https://doi.org/10.1101/2021.10.19.465010
	# Raja Mazumder, Vahan Simonyan (eds), IEEE P2791 BioCompute Working Group (BCOWG) (2020): <br /> '''IEEE Standard for Bioinformatics Analyses Generated by High-Throughput Sequencing (HTS) to Facilitate Communication'''. <br /> ''IEEE Std'' 2791-2020. IEEE SA Standards Board. https://doi.org/10.1109/IEEESTD.2020.9094416 [[https://www.research.manchester.ac.uk/portal/en/publications/ieee-standard-for-bioinformatics-analyses-generated-by-highthroughput-sequencing-hts-to-facilitate-communication(936de52b-ac53-4f0e-9927-77fd7073e88d).html preprint]]		# Raja Mazumder, Vahan Simonyan (eds), IEEE P2791 BioCompute Working Group (BCOWG) (2020): <br /> '''IEEE Standard for Bioinformatics Analyses Generated by High-Throughput Sequencing (HTS) to Facilitate Communication'''. <br /> ''IEEE Std'' 2791-2020. IEEE SA Standards Board. <nowiki>ISBN 9781504464666</nowiki> https://doi.org/10.1109/IEEESTD.2020.9094416 [[https://www.research.manchester.ac.uk/portal/en/publications/ieee-standard-for-bioinformatics-analyses-generated-by-highthroughput-sequencing-hts-to-facilitate-communication(936de52b-ac53-4f0e-9927-77fd7073e88d).html preprint]]

Soiland-Reyes: Include IEEE 2791 specs

2022-08-25T14:55:35Z

Include IEEE 2791 specs

← Older revision		Revision as of 14:55, 25 August 2022
Line 6:		Line 6:
	# Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean (2020): <br /> '''BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations''' [version 1; peer review: 2 approved]. <br /> ''F1000Research'' '''9''':1144 https://doi.org/10.12688/f1000research.25902.1		# Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean (2020): <br /> '''BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations''' [version 1; peer review: 2 approved]. <br /> ''F1000Research'' '''9''':1144 https://doi.org/10.12688/f1000research.25902.1
	# Naila Gulzar, Jonathon Keeney, Jack B. Baker, Ondrej Klempir, Geoffrey Hannigan, Danny A. Bitton, Julia M Maritz, Charles Hadley S. King IV, Janisha A. Patel, Paul Duncan, Raja Mazumder (2021): <br /> '''BioCompute Objects to communicate a viral detection pipeline with potential for use in a regulatory environment'''. <br /> ''bioRxiv'' https://doi.org/10.1101/2021.10.19.465010		# Naila Gulzar, Jonathon Keeney, Jack B. Baker, Ondrej Klempir, Geoffrey Hannigan, Danny A. Bitton, Julia M Maritz, Charles Hadley S. King IV, Janisha A. Patel, Paul Duncan, Raja Mazumder (2021): <br /> '''BioCompute Objects to communicate a viral detection pipeline with potential for use in a regulatory environment'''. <br /> ''bioRxiv'' https://doi.org/10.1101/2021.10.19.465010
			# Raja Mazumder, Vahan Simonyan (eds), IEEE P2791 BioCompute Working Group (BCOWG) (2020): <br /> '''IEEE Standard for Bioinformatics Analyses Generated by High-Throughput Sequencing (HTS) to Facilitate Communication'''. <br /> ''IEEE Std'' 2791-2020. IEEE SA Standards Board. https://doi.org/10.1109/IEEESTD.2020.9094416 [[https://www.research.manchester.ac.uk/portal/en/publications/ieee-standard-for-bioinformatics-analyses-generated-by-highthroughput-sequencing-hts-to-facilitate-communication(936de52b-ac53-4f0e-9927-77fd7073e88d).html preprint]]

Soiland-Reyes: Soiland-Reyes moved page Publication to Publications: Plural s

2022-08-25T14:51:29Z

Soiland-Reyes moved page Publication to Publications: Plural s

← Older revision

Revision as of 14:51, 25 August 2022

Soiland-Reyes: linebreaks

2022-08-25T14:51:08Z

linebreaks

← Older revision		Revision as of 14:51, 25 August 2022
Line 1:		Line 1:
	# Charles Hadley S King 4th, Jonathon Keeney, Nuria Guimera, Souvik Das, Michiel Weber, Brian Fochtman, Mark O Walderhaug, Sneh Talwar, Janisha A Patel, Raja Mazumder, Eric F Donaldson (2022): '''Communicating regulatory high-throughput sequencing data using BioCompute Objects'''. ''Drug Discovery Today'' '''27'''(4). PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912] https://doi.org/10.1016/j.drudis.2022.01.007		# Charles Hadley S King 4th, Jonathon Keeney, Nuria Guimera, Souvik Das, Michiel Weber, Brian Fochtman, Mark O Walderhaug, Sneh Talwar, Janisha A Patel, Raja Mazumder, Eric F Donaldson (2022): <br />'''Communicating regulatory high-throughput sequencing data using BioCompute Objects'''. <br />''Drug Discovery Today'' '''27'''(4). PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912] https://doi.org/10.1016/j.drudis.2022.01.007
	# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble (2022): '''Packaging research artefacts with RO-Crate'''. ''Data Science'' '''5'''(2) https://doi.org/10.3233/DS-210053.		# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble (2022): <br />'''Packaging research artefacts with RO-Crate'''. <br /> ''Data Science'' '''5'''(2) https://doi.org/10.3233/DS-210053.
	# Janisha A Patel, Dennis A Dean, Charles Hadley King, Nan Xiao, Soner Koc, Ekaterina Minina, Anton Golikov, Phillip Brooks, Robel Kahsay, Rahi Navelkar, Manisha Ray, Dave Roberson, Chris Armstrong, Raja Mazumder, Jonathon Keeney (2021): '''Bioinformatics tools developed to support BioCompute Objects'''. ''Database'' 2021:baab008 PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373] https://doi.org/10.1093/database/baab008		# Janisha A Patel, Dennis A Dean, Charles Hadley King, Nan Xiao, Soner Koc, Ekaterina Minina, Anton Golikov, Phillip Brooks, Robel Kahsay, Rahi Navelkar, Manisha Ray, Dave Roberson, Chris Armstrong, Raja Mazumder, Jonathon Keeney (2021): <br /> '''Bioinformatics tools developed to support BioCompute Objects'''. <br /> ''Database'' 2021:baab008 PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373] https://doi.org/10.1093/database/baab008
	# Gil Alterovitz, Dennis Dean, Carole Goble, Michael R. Crusoe, Stian Soiland-Reyes, Amanda Bell, Anais Hayes, Anita Suresh, Anjan Purkayastha, Charles H. King, Dan Taylor, Elaine Johanson, Elaine E. Thompson, Eric Donaldson, Hiroki Morizono, Hsinyi Tsang, Jeet K. Vora, Jeremy Goecks, Jianchao Yao, Jonas S. Almeida, Jonathon Keeney, KanakaDurga Addepalli, Konstantinos Krampis, Krista M. Smith, Lydia Guo, Mark Walderhaug, Marco Schito, Matthew Ezewudo, Nuria Guimera, Paul Walsh, Robel Kahsay, Srikanth Gottipati, Timothy C. Rodwell, Toby Bloom, Yuching Lai, Vahan Simonyan, Raja Mazumder (2018): '''Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results'''. ''PLOS Biology'' '''16'''(12):e3000099. https://doi.org/10.1371/journal.pbio.3000099		# Gil Alterovitz, Dennis Dean, Carole Goble, Michael R. Crusoe, Stian Soiland-Reyes, Amanda Bell, Anais Hayes, Anita Suresh, Anjan Purkayastha, Charles H. King, Dan Taylor, Elaine Johanson, Elaine E. Thompson, Eric Donaldson, Hiroki Morizono, Hsinyi Tsang, Jeet K. Vora, Jeremy Goecks, Jianchao Yao, Jonas S. Almeida, Jonathon Keeney, KanakaDurga Addepalli, Konstantinos Krampis, Krista M. Smith, Lydia Guo, Mark Walderhaug, Marco Schito, Matthew Ezewudo, Nuria Guimera, Paul Walsh, Robel Kahsay, Srikanth Gottipati, Timothy C. Rodwell, Toby Bloom, Yuching Lai, Vahan Simonyan, Raja Mazumder (2018): <br /> '''Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results'''. <br /> ''PLOS Biology'' '''16'''(12):e3000099. https://doi.org/10.1371/journal.pbio.3000099
	# Vahan Simonyan, Jeremy Goecks and Raja Mazumder (2017): '''BioCompute objects—a step towards evaluation and validation of bio-medical scientific computations'''. ''PDA Journal of Pharmaceutical Science and Technology'' '''71'''(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626] https://doi.org/10.5731/pdajpst.2016.006734		# Vahan Simonyan, Jeremy Goecks and Raja Mazumder (2017): <br /> '''BioCompute objects—a step towards evaluation and validation of bio-medical scientific computations'''. <br /> ''PDA Journal of Pharmaceutical Science and Technology'' '''71'''(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626] https://doi.org/10.5731/pdajpst.2016.006734
	# Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean (2020): '''BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations''' [version 1; peer review: 2 approved]~~'''~~.~~'''~~ ''F1000Research'' '''9''':1144 https://doi.org/10.12688/f1000research.25902.1		# Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean (2020): <br /> '''BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations''' [version 1; peer review: 2 approved]. <br /> ''F1000Research'' '''9''':1144 https://doi.org/10.12688/f1000research.25902.1
	# Gulzar N, Keeney J, Baker JB, Klempir O, Hannigan G, Bitton DA, Maritz JM, King ~~CHS~~, Patel JA, Duncan P, Mazumder R (2021): '''BioCompute Objects to communicate a viral detection pipeline with potential for use in a regulatory environment'''. ''bioRxiv'' https://doi.org/10.1101/2021.10.19.465010		# Naila Gulzar, Jonathon Keeney, Jack B. Baker, Ondrej Klempir, Geoffrey Hannigan, Danny A. Bitton, Julia M Maritz, Charles Hadley S. King IV, Janisha A. Patel, Paul Duncan, Raja Mazumder (2021): <br /> '''BioCompute Objects to communicate a viral detection pipeline with potential for use in a regulatory environment'''. <br /> ''bioRxiv'' https://doi.org/10.1101/2021.10.19.465010

Soiland-Reyes: additional publication

2022-08-25T14:47:32Z

additional publication

← Older revision		Revision as of 14:47, 25 August 2022
Line 1:		Line 1:
	# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, ~~Donaldson EF~~ (2022): '''Communicating regulatory high-throughput sequencing data using BioCompute Objects'''. ''Drug Discovery Today'' '''27'''(4). PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912] https://doi.org/10.1016/j.drudis.2022.01.007		# Charles Hadley S King 4th, Jonathon Keeney, Nuria Guimera, Souvik Das, Michiel Weber, Brian Fochtman, Mark O Walderhaug, Sneh Talwar, Janisha A Patel, Raja Mazumder, Eric F Donaldson (2022): '''Communicating regulatory high-throughput sequencing data using BioCompute Objects'''. ''Drug Discovery Today'' '''27'''(4). PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912] https://doi.org/10.1016/j.drudis.2022.01.007
	# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble (2022): '''Packaging research artefacts with RO-Crate'''. ''Data Science'' '''5'''(2) https://doi.org/10.3233/DS-210053.		# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble (2022): '''Packaging research artefacts with RO-Crate'''. ''Data Science'' '''5'''(2) https://doi.org/10.3233/DS-210053.
	# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. (2021): '''Bioinformatics tools developed to support BioCompute Objects'''. ''Database'' 2021:baab008 PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373] https://doi.org/10.1093/database/baab008		# Janisha A Patel, Dennis A Dean, Charles Hadley King, Nan Xiao, Soner Koc, Ekaterina Minina, Anton Golikov, Phillip Brooks, Robel Kahsay, Rahi Navelkar, Manisha Ray, Dave Roberson, Chris Armstrong, Raja Mazumder, Jonathon Keeney (2021): '''Bioinformatics tools developed to support BioCompute Objects'''. ''Database'' 2021:baab008 PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373] https://doi.org/10.1093/database/baab008
	# Alterovitz G, Dean ~~D A~~, Goble C, Crusoe ~~M R~~, Soiland-Reyes S, Bell A, Hayes A, ~~King~~, C H S, Taylor D, Johanson E, Thompson ~~E E~~, Donaldson E, Morizono H, Tsang ~~H S~~, Goecks J, Yao J, Almeida ~~J S~~, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. (2018): '''Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results'''. ''PLOS Biology'' '''16'''(12):e3000099. https://doi.org/10.1371/journal.pbio.3000099		# Gil Alterovitz, Dennis Dean, Carole Goble, Michael R. Crusoe, Stian Soiland-Reyes, Amanda Bell, Anais Hayes, Anita Suresh, Anjan Purkayastha, Charles H. King, Dan Taylor, Elaine Johanson, Elaine E. Thompson, Eric Donaldson, Hiroki Morizono, Hsinyi Tsang, Jeet K. Vora, Jeremy Goecks, Jianchao Yao, Jonas S. Almeida, Jonathon Keeney, KanakaDurga Addepalli, Konstantinos Krampis, Krista M. Smith, Lydia Guo, Mark Walderhaug, Marco Schito, Matthew Ezewudo, Nuria Guimera, Paul Walsh, Robel Kahsay, Srikanth Gottipati, Timothy C. Rodwell, Toby Bloom, Yuching Lai, Vahan Simonyan, Raja Mazumder (2018): '''Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results'''. ''PLOS Biology'' '''16'''(12):e3000099. https://doi.org/10.1371/journal.pbio.3000099
	# Simonyan V, Goecks J, Mazumder R. (2017): '''BioCompute ~~objects - a~~ step towards evaluation and validation of bio-medical scientific computations'''. ''PDA Journal of Pharmaceutical Science and Technology'' '''71'''(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626] https://doi.org/10.5731/pdajpst.2016.006734		# Vahan Simonyan, Jeremy Goecks and Raja Mazumder (2017): '''BioCompute objects—a step towards evaluation and validation of bio-medical scientific computations'''. ''PDA Journal of Pharmaceutical Science and Technology'' '''71'''(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626] https://doi.org/10.5731/pdajpst.2016.006734
			# Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean (2020): '''BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations''' [version 1; peer review: 2 approved]'''.''' ''F1000Research'' '''9''':1144 https://doi.org/10.12688/f1000research.25902.1
			# Gulzar N, Keeney J, Baker JB, Klempir O, Hannigan G, Bitton DA, Maritz JM, King CHS, Patel JA, Duncan P, Mazumder R (2021): '''BioCompute Objects to communicate a viral detection pipeline with potential for use in a regulatory environment'''. ''bioRxiv'' https://doi.org/10.1101/2021.10.19.465010

Soiland-Reyes: consistent formatting and more journal info

2022-08-25T14:17:18Z

consistent formatting and more journal info

← Older revision		Revision as of 14:17, 25 August 2022
Line 1:		Line 1:
	# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF (2022): Communicating regulatory high-throughput sequencing data using BioCompute Objects. ''Drug ~~Discov~~ Today'' PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912] https://doi.org/10.1016/j.drudis.2022.01.007		# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF (2022): '''Communicating regulatory high-throughput sequencing data using BioCompute Objects'''. ''Drug Discovery Today'' '''27'''(4). PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912] https://doi.org/10.1016/j.drudis.2022.01.007
	# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. ''Data Science'' '''5'''(2)~~, 2022;~~ https://doi.org/10.3233/DS-210053.		# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble (2022): '''Packaging research artefacts with RO-Crate'''. ''Data Science'' '''5'''(2) https://doi.org/10.3233/DS-210053.
	# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database ~~(Oxford).~~2021 ~~March 31;~~ PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373] https://doi.org/10.1093/database/baab008		# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. (2021): '''Bioinformatics tools developed to support BioCompute Objects'''. ''Database'' 2021:baab008 PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373] https://doi.org/10.1093/database/baab008
	# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. (2018): Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. ''PLOS Biology'' '''16'''(12):e3000099. https://doi.org/10.1371/journal.pbio.3000099		# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. (2018): '''Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results'''. ''PLOS Biology'' '''16'''(12):e3000099. https://doi.org/10.1371/journal.pbio.3000099
	# Simonyan V, Goecks J, Mazumder R. (2017): BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. ''PDA ~~J Pharm Sci Technol.~~'' '''71'''(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626] https://doi.org/10.5731/pdajpst.2016.006734		# Simonyan V, Goecks J, Mazumder R. (2017): '''BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations'''. ''PDA Journal of Pharmaceutical Science and Technology'' '''71'''(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626] https://doi.org/10.5731/pdajpst.2016.006734

Soiland-Reyes: DOIs and formatting

2022-08-25T14:11:53Z

DOIs and formatting

← Older revision		Revision as of 14:11, 25 August 2022
Line 1:		Line 1:
	# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today~~. 2022 Jan 22;~~ PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912].		# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF (2022): Communicating regulatory high-throughput sequencing data using BioCompute Objects. ''Drug Discov Today'' PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912] https://doi.org/10.1016/j.drudis.2022.01.007
	# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. Data Science, 2022; https://doi.org/10.3233/DS-210053.		# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. ''Data Science'' '''5'''(2), 2022; https://doi.org/10.3233/DS-210053.
	# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database (Oxford).2021 March 31; PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373].		# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database (Oxford).2021 March 31; PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373] https://doi.org/10.1093/database/baab008
	# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. PLOS Biology; 16(12): e3000099~~.2018~~. https://doi.org/10.1371/journal.pbio.3000099		# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. (2018): Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. ''PLOS Biology'' '''16'''(12):e3000099. https://doi.org/10.1371/journal.pbio.3000099
	# Simonyan V, Goecks J, Mazumder R. BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. PDA J Pharm Sci Technol. ~~2017;~~71(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626].		# Simonyan V, Goecks J, Mazumder R. (2017): BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. ''PDA J Pharm Sci Technol.'' '''71'''(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626] https://doi.org/10.5731/pdajpst.2016.006734

Twang9 at 21:07, 15 August 2022

2022-08-15T21:07:37Z

← Older revision		Revision as of 21:07, 15 August 2022
Line 1:		Line 1:
	# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today. 2022 Jan 22; PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912].		# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today. 2022 Jan 22; PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912].
	# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. Data Science, 2022; https://doi.org/10.3233/DS-210053.		# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. Data Science, 2022; https://doi.org/10.3233/DS-210053.
	# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database (Oxford).2021 March 31; PMID:33784373.		# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database (Oxford).2021 March 31; PMID:[https://pubmed.ncbi.nlm.nih.gov/33784373/ 33784373].
	# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. PLOS Biology; 16(12): e3000099.2018. https://doi.org/10.1371/journal.pbio.3000099		# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. PLOS Biology; 16(12): e3000099.2018. https://doi.org/10.1371/journal.pbio.3000099
	# Simonyan V, Goecks J, Mazumder R. BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. PDA J Pharm Sci Technol. 2017;71(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626].		# Simonyan V, Goecks J, Mazumder R. BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. PDA J Pharm Sci Technol. 2017;71(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626].

Twang9 at 21:07, 15 August 2022

2022-08-15T21:07:00Z

← Older revision		Revision as of 21:07, 15 August 2022
Line 1:		Line 1:
	# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today. 2022 Jan 22; PMID: 35077912.		# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today. 2022 Jan 22; PMID: [https://pubmed.ncbi.nlm.nih.gov/35077912/ 35077912].
	# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. Data Science, 2022; https://doi.org/10.3233/DS-210053.		# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. Data Science, 2022; https://doi.org/10.3233/DS-210053.
	# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database (Oxford).2021 March 31; PMID:33784373.		# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database (Oxford).2021 March 31; PMID:33784373.
	# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. PLOS Biology; 16(12): e3000099.2018. https://doi.org/10.1371/journal.pbio.3000099		# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. PLOS Biology; 16(12): e3000099.2018. https://doi.org/10.1371/journal.pbio.3000099
	# Simonyan V, Goecks J, Mazumder R. BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. PDA J Pharm Sci Technol. 2017;71(2):136-146 PMID:27974626.		# Simonyan V, Goecks J, Mazumder R. BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. PDA J Pharm Sci Technol. 2017;71(2):136-146 PMID:[https://pubmed.ncbi.nlm.nih.gov/27974626/ 27974626].

Twang9: Created page with "# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today. 2022 Jan 22; PMID: 35077912. # Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovi..."

2022-08-15T21:06:09Z

Created page with "# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today. 2022 Jan 22; PMID: 35077912. # Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovi..."

New page

# King CH, Keeney J, Guimera N, Das S, Weber M, Fochtman B, Walderhaug MO, Talwar S, Patel JA, Mazumder R, Donaldson EF. Communicating regulatory high-throughput sequencing data using BioCompute Objects. Drug Discov Today. 2022 Jan 22; PMID: 35077912.
# Stian Soiland-Reyes, Peter Sefton, Mercè Crosas, Leyla Jael Castro, Frederik Coppens, José M. Fernández, Daniel Garijo, Björn Grüning, Marco La Rosa, Simone Leo, Eoghan Ó Carragáin, Marc Portier, Ana Trisovic, RO-Crate Community, Paul Groth, Carole Goble. Packaging research artefacts with RO-Crate. Data Science, 2022; https://doi.org/10.3233/DS-210053.
# Patel JA, Dean DA, King CH, Xiao N, Koc S, Minina E, Golikov A, Brooks P, Kahsay R, Navelkar R, Ray M, Roberson D, Armstrong C, Mazumder R, Keeney J. Bioinformatics tools developed to support BioCompute Objects. Database (Oxford).2021 March 31; PMID:33784373.
# Alterovitz G, Dean D A, Goble C, Crusoe M R, Soiland-Reyes S, Bell A, Hayes A, King, C H S, Taylor D, Johanson E, Thompson E E, Donaldson E, Morizono H, Tsang H S, Goecks J, Yao J, Almeida J S, Krampis K, Guo L, Walderhaug M, Walsh P, Kahsay R, Gottipati S, Bloom T, Lai Y, Simonyan V, Mazumder R. Enabling Precision Medicine via standard communication of HTS provenance, analysis, and results. PLOS Biology; 16(12): e3000099.2018. https://doi.org/10.1371/journal.pbio.3000099
# Simonyan V, Goecks J, Mazumder R. BioCompute objects - a step towards evaluation and validation of bio-medical scientific computations. PDA J Pharm Sci Technol. 2017;71(2):136-146 PMID:27974626.