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1
An expanded Notch-Delta model exhibiting long-range patterning and incorporating MicroRNA regulation
An expanded Notch-Delta model exhibiting long-range patterning and incorporating MicroRNA regulation
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An expanded Notch-Delta model exhibiting long-range patterning and incorporating MicroRNA regulation

PLoS computational biology, 2014-06, Vol.10 (6), p.e1003655-e1003655 [Peer Reviewed Journal]

COPYRIGHT 2014 Public Library of Science ;COPYRIGHT 2014 Public Library of Science ;2014 Chen et al 2014 Chen et al ;2014 Chen et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited: Chen JS, Gumbayan AM, Zeller RW, Mahaffy JM (2014) An Expanded Notch-Delta Model Exhibiting Long-Range Patterning and Incorporating MicroRNA Regulation. PLoS Comput Biol 10(6): e1003655. doi:10.1371/journal.pcbi.1003655 ;ISSN: 1553-7358 ;ISSN: 1553-734X ;EISSN: 1553-7358 ;DOI: 10.1371/journal.pcbi.1003655 ;PMID: 24945987

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2
An extended Cellular Potts Model analyzing a wound healing assay
An extended Cellular Potts Model analyzing a wound healing assay
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An extended Cellular Potts Model analyzing a wound healing assay

Computers in biology and medicine, 2015-07, Vol.62, p.33-54 [Peer Reviewed Journal]

Elsevier Ltd ;2015 Elsevier Ltd ;Copyright © 2015 Elsevier Ltd. All rights reserved. ;Copyright Elsevier Limited Jul 2015 ;ISSN: 0010-4825 ;EISSN: 1879-0534 ;DOI: 10.1016/j.compbiomed.2015.04.009 ;PMID: 25912986 ;CODEN: CBMDAW

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3
Optimal harvesting under stochastic fluctuations and critical depensation
Optimal harvesting under stochastic fluctuations and critical depensation
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Optimal harvesting under stochastic fluctuations and critical depensation

Mathematical biosciences, 1998-08, Vol.152 (1), p.63-85 [Peer Reviewed Journal]

1998 Elsevier Science Inc. ;1998 INIST-CNRS ;ISSN: 0025-5564 ;EISSN: 1879-3134 ;DOI: 10.1016/S0025-5564(98)10018-4 ;PMID: 9727297 ;CODEN: MABIAR

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4
Commentary on Ferguson, et al., “Impact of Non-pharmaceutical Interventions (NPIs) to Reduce COVID-19 Mortality and Healthcare Demand”
Commentary on Ferguson, et al., “Impact of Non-pharmaceutical Interventions (NPIs) to Reduce COVID-19 Mortality and Healthcare Demand”
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Commentary on Ferguson, et al., “Impact of Non-pharmaceutical Interventions (NPIs) to Reduce COVID-19 Mortality and Healthcare Demand”

Bulletin of mathematical biology, 2020-04, Vol.82 (4) [Peer Reviewed Journal]

The Author(s) 2020 ;ISSN: 0092-8240 ;EISSN: 1522-9602 ;DOI: 10.1007/s11538-020-00726-x

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5
Modelling the fear effect in predator–prey interactions
Modelling the fear effect in predator–prey interactions
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Modelling the fear effect in predator–prey interactions

Journal of mathematical biology, 2016-11, Vol.73 (5), p.1179-1204 [Peer Reviewed Journal]

Springer-Verlag Berlin Heidelberg 2016 ;ISSN: 0303-6812 ;EISSN: 1432-1416 ;DOI: 10.1007/s00285-016-0989-1 ;PMID: 27002514

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6
GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
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GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database

Bioinformatics, 2019-11, Vol.36 (6), p.1925-1927 [Peer Reviewed Journal]

The Author(s) 2019. Published by Oxford University Press. 2019 ;The Author(s) 2019. Published by Oxford University Press. ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btz848 ;PMID: 31730192

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7
user's guide to PDE models for chemotaxis
user's guide to PDE models for chemotaxis
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user's guide to PDE models for chemotaxis

Journal of mathematical biology, 2009, Vol.58 (1-2), p.183-217 [Peer Reviewed Journal]

Springer-Verlag 2008 ;Springer-Verlag 2009 ;ISSN: 0303-6812 ;EISSN: 1432-1416 ;DOI: 10.1007/s00285-008-0201-3 ;PMID: 18626644

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8
Kinetic models for epidemic dynamics with social heterogeneity
Kinetic models for epidemic dynamics with social heterogeneity
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Kinetic models for epidemic dynamics with social heterogeneity

Journal of mathematical biology, 2021-07, Vol.83 (1), p.4-4, Article 4 [Peer Reviewed Journal]

The Author(s) 2021 ;The Author(s) 2021. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;Distributed under a Creative Commons Attribution 4.0 International License ;ISSN: 0303-6812 ;EISSN: 1432-1416 ;DOI: 10.1007/s00285-021-01630-1 ;PMID: 34173890

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9
Algorithmic improvements to species delimitation and phylogeny estimation under the multispecies coalescent
Algorithmic improvements to species delimitation and phylogeny estimation under the multispecies coalescent
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Algorithmic improvements to species delimitation and phylogeny estimation under the multispecies coalescent

Journal of mathematical biology, 2017, Vol.74 (1-2), p.447-467 [Peer Reviewed Journal]

Springer-Verlag Berlin Heidelberg 2016 ;Journal of Mathematical Biology is a copyright of Springer, 2017. ;ISSN: 0303-6812 ;EISSN: 1432-1416 ;DOI: 10.1007/s00285-016-1034-0 ;PMID: 27287395

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10
GTDB-Tk v2: memory friendly classification with the genome taxonomy database
GTDB-Tk v2: memory friendly classification with the genome taxonomy database
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GTDB-Tk v2: memory friendly classification with the genome taxonomy database

Bioinformatics (Oxford, England), 2022-11, Vol.38 (23), p.5315-5316 [Peer Reviewed Journal]

The Author(s) 2022. Published by Oxford University Press. ;The Author(s) 2022. Published by Oxford University Press. 2022 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btac672 ;PMID: 36218463

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11
Fixation probabilities in evolutionary dynamics under weak selection
Fixation probabilities in evolutionary dynamics under weak selection
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Fixation probabilities in evolutionary dynamics under weak selection

Journal of mathematical biology, 2021-02, Vol.82 (3), p.14-14, Article 14 [Peer Reviewed Journal]

The Author(s), under exclusive licence to Springer-Verlag GmbH, DE part of Springer Nature 2021 ;The Author(s), under exclusive licence to Springer-Verlag GmbH, DE part of Springer Nature 2021. ;ISSN: 0303-6812 ;EISSN: 1432-1416 ;DOI: 10.1007/s00285-021-01568-4 ;PMID: 33534054

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12
GraphDTA: predicting drug–target binding affinity with graph neural networks
GraphDTA: predicting drug–target binding affinity with graph neural networks
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GraphDTA: predicting drug–target binding affinity with graph neural networks

Bioinformatics, 2021-05, Vol.37 (8), p.1140-1147 [Peer Reviewed Journal]

The Author(s) 2020. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com 2020 ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btaa921

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13
Control with uncertain data of socially structured compartmental epidemic models
Control with uncertain data of socially structured compartmental epidemic models
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Control with uncertain data of socially structured compartmental epidemic models

Journal of mathematical biology, 2021-06, Vol.82 (7), p.63-63, Article 63 [Peer Reviewed Journal]

The Author(s) 2021 ;The Author(s) 2021. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;ISSN: 0303-6812 ;EISSN: 1432-1416 ;DOI: 10.1007/s00285-021-01617-y ;PMID: 34023964

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14
CNSA: a data repository for archiving omics data
CNSA: a data repository for archiving omics data
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CNSA: a data repository for archiving omics data

Database : the journal of biological databases and curation, 2020, Vol.2020 [Peer Reviewed Journal]

The Author(s) 2020. Published by Oxford University Press. 2020 ;The Author(s) 2020. Published by Oxford University Press. ;ISSN: 1758-0463 ;EISSN: 1758-0463 ;DOI: 10.1093/database/baaa055 ;PMID: 32705130

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15
BioBERT: a pre-trained biomedical language representation model for biomedical text mining
BioBERT: a pre-trained biomedical language representation model for biomedical text mining
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BioBERT: a pre-trained biomedical language representation model for biomedical text mining

Bioinformatics, 2020-02, Vol.36 (4), p.1234-1240 [Peer Reviewed Journal]

The Author(s) 2019. Published by Oxford University Press. 2019 ;The Author(s) 2019. Published by Oxford University Press. ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btz682 ;PMID: 31501885

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16
Post-translational modifications in proteins: resources, tools and prediction methods
Post-translational modifications in proteins: resources, tools and prediction methods
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Post-translational modifications in proteins: resources, tools and prediction methods

Database : the journal of biological databases and curation, 2021-04, Vol.2021 [Peer Reviewed Journal]

The Author(s) 2021. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com 2021 ;ISSN: 1758-0463 ;EISSN: 1758-0463 ;DOI: 10.1093/database/baab012 ;PMID: 33826699

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17
BioGPT: generative pre-trained transformer for biomedical text generation and mining
BioGPT: generative pre-trained transformer for biomedical text generation and mining
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BioGPT: generative pre-trained transformer for biomedical text generation and mining

Briefings in bioinformatics, 2022-11, Vol.23 (6) [Peer Reviewed Journal]

The Author(s) 2022. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com. ;ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bbac409 ;PMID: 36156661

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18
Graph embedding on biomedical networks: methods, applications and evaluations
Graph embedding on biomedical networks: methods, applications and evaluations
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Graph embedding on biomedical networks: methods, applications and evaluations

Bioinformatics, 2020-02, Vol.36 (4), p.1241-1251 [Peer Reviewed Journal]

The Author(s) 2019. Published by Oxford University Press. 2019 ;The Author(s) 2019. Published by Oxford University Press. ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btz718 ;PMID: 31584634

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19
RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference
RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference
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RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

Bioinformatics, 2019-11, Vol.35 (21), p.4453-4455 [Peer Reviewed Journal]

The Author(s) 2019. Published by Oxford University Press. 2019 ;The Author(s) 2019. Published by Oxford University Press. ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btz305 ;PMID: 31070718

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20
ComBat-seq: batch effect adjustment for RNA-seq count data
ComBat-seq: batch effect adjustment for RNA-seq count data
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ComBat-seq: batch effect adjustment for RNA-seq count data

NAR genomics and bioinformatics, 2020-09, Vol.2 (3), p.lqaa078-lqaa078 [Peer Reviewed Journal]

The Author(s) 2019. Published by Oxford University Press on behalf of NAR Genomics and Bioinformatics. 2020 ;ISSN: 2631-9268 ;EISSN: 2631-9268 ;DOI: 10.1093/nargab/lqaa078 ;PMID: 33015620

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