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1
A brief history of bioinformatics
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A brief history of bioinformatics

Briefings in bioinformatics, 2019-11, Vol.20 (6), p.1981-1996 [Peer Reviewed Journal]

The Author(s) 2018. Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com 2018 ;The Author(s) 2018. Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com. ;Distributed under a Creative Commons Attribution 4.0 International License ;ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bby063 ;PMID: 30084940

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2
AutoAnnotate: A Cytoscape app for summarizing networks with semantic annotations [version 1; peer review: 2 approved]
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AutoAnnotate: A Cytoscape app for summarizing networks with semantic annotations [version 1; peer review: 2 approved]

F1000 research, 2016, Vol.5, p.1717-1717 [Peer Reviewed Journal]

Copyright: © 2016 Kucera M et al. ;Copyright: © 2016 Kucera M et al. This work is licensed under the Creative Commons Attribution License (https://creativecommons.org/licenses/by/3.0/) (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;Copyright: © 2016 Kucera M et al. 2016 ;ISSN: 2046-1402 ;EISSN: 2046-1402 ;DOI: 10.12688/f1000research.9090.1 ;PMID: 27830058

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3
Identification of hub genes in colorectal cancer based on weighted gene co-expression network analysis and clinical data from The Cancer Genome Atlas
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Identification of hub genes in colorectal cancer based on weighted gene co-expression network analysis and clinical data from The Cancer Genome Atlas

Bioscience reports, 2021-07, Vol.41 (7) [Peer Reviewed Journal]

2021 The Author(s). 2021 ;ISSN: 0144-8463 ;EISSN: 1573-4935 ;DOI: 10.1042/BSR20211280 ;PMID: 34308980 ;PMID: 34259324

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4
Correction: Modifying the false discovery rate procedure based on the information theory under arbitrary correlation structure and its performance in high-dimensional genomic data
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Correction: Modifying the false discovery rate procedure based on the information theory under arbitrary correlation structure and its performance in high-dimensional genomic data

BMC bioinformatics, 2024-02, Vol.25 (1), p.83-83 [Peer Reviewed Journal]

COPYRIGHT 2024 BioMed Central Ltd. ;2024. This work is licensed 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: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-024-05696-8 ;PMID: 38395790

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5
High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development
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High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development

Nature genetics, 2017-07, Vol.49 (7), p.1099-1106 [Peer Reviewed Journal]

COPYRIGHT 2017 Nature Publishing Group ;COPYRIGHT 2017 Nature Publishing Group ;Copyright Nature Publishing Group Jul 2017 ;Attribution ;Wageningen University & Research ;ISSN: 1061-4036 ;EISSN: 1546-1718 ;DOI: 10.1038/ng.3886 ;PMID: 28581499

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6
Ensemble of correlation, parenclitic and synolitic graphs as a tool to detect universal changes in complex biological systems
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Ensemble of correlation, parenclitic and synolitic graphs as a tool to detect universal changes in complex biological systems

2021 Elsevier Ltd. All rights reserved. This manuscript is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International Licence http://creativecommons.org/licenses/by-nc-nd/4.0/ http://creativecommons.org/licenses/by-nc-nd/4.0 ;ISSN: 1571-0645 ;EISSN: 1873-1457 ;DOI: 10.1016/j.plrev.2021.05.009

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7
Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses
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Comparative genomics of the nonlegume Parasponia reveals insights into evolution of nitrogen-fixing rhizobium symbioses

Proceedings of the National Academy of Sciences - PNAS, 2018-05, Vol.115 (20), p.E4700-E4709 [Peer Reviewed Journal]

Volumes 1–89 and 106–114, copyright as a collective work only; author(s) retains copyright to individual articles ;Copyright © 2018 the Author(s). Published by PNAS. ;Copyright National Academy of Sciences May 15, 2018 ;Copyright © 2018 the Author(s). Published by PNAS. 2018 ;Wageningen University & Research ;ISSN: 0027-8424 ;EISSN: 1091-6490 ;DOI: 10.1073/pnas.1721395115 ;PMID: 29717040

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8
Bringing bioinformatics to the scientific masses
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Bringing bioinformatics to the scientific masses

EMBO reports, 2018-06, Vol.19 (6), p.n/a [Peer Reviewed Journal]

2018 The Author ;2018 EMBO ;ISSN: 1469-221X ;EISSN: 1469-3178 ;DOI: 10.15252/embr.201846262

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9
ANALYTICAL DEVELOPMENT STRATEGY FOR DOPAMINERGIC NEURON PRECURSOR CELL REPLACEMENT THERAPY FOR PARKINSON'S DISEASE
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ANALYTICAL DEVELOPMENT STRATEGY FOR DOPAMINERGIC NEURON PRECURSOR CELL REPLACEMENT THERAPY FOR PARKINSON'S DISEASE

Cytotherapy (Oxford, England), 2024-06, Vol.26 (6), p.S225-S225 [Peer Reviewed Journal]

2024 ;ISSN: 1465-3249 ;EISSN: 1477-2566 ;DOI: 10.1016/j.jcyt.2024.03.457

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10
Correction: MGcount: a total RNA-seq quantification tool to address multi-mapping and multi-overlapping alignments ambiguity in non-coding transcripts
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Correction: MGcount: a total RNA-seq quantification tool to address multi-mapping and multi-overlapping alignments ambiguity in non-coding transcripts

BMC bioinformatics, 2022-06, Vol.23 (1), p.209-209, Article 209 [Peer Reviewed Journal]

COPYRIGHT 2022 BioMed Central Ltd. ;2022. This work is licensed 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. ;The Author(s) 2022 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-022-04725-8 ;PMID: 35650556

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11
Correction: Unraveling Kinase Activation Dynamics Using Kinase-Substrate Relationships from Temporal Large-Scale Phosphoproteomics Studies
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Correction: Unraveling Kinase Activation Dynamics Using Kinase-Substrate Relationships from Temporal Large-Scale Phosphoproteomics Studies

PloS one, 2017-09, Vol.12 (9), p.e0185871-e0185871 [Peer Reviewed Journal]

COPYRIGHT 2017 Public Library of Science ;COPYRIGHT 2017 Public Library of Science ;2017 Domanova et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;2017 Domanova et al 2017 Domanova et al ;ISSN: 1932-6203 ;EISSN: 1932-6203 ;DOI: 10.1371/journal.pone.0185871 ;PMID: 28957418

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12
raxmlGUI 2.0: A graphical interface and toolkit for phylogenetic analyses using RAxML
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raxmlGUI 2.0: A graphical interface and toolkit for phylogenetic analyses using RAxML

Methods in ecology and evolution, 2021-02, Vol.12 (2), p.373 [Peer Reviewed Journal]

ISSN: 2041-210X ;EISSN: 2041-210X ;DOI: 10.1111/2041-210X.13512

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13
SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems
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SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems

Bioinformatics (Oxford, England), 2021-11, Vol.37 (21), p.3702-3706 [Peer Reviewed Journal]

Distributed under a Creative Commons Attribution 4.0 International License ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btab229

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14
Increased Collagen Turnover Is a Feature of Fibromuscular Dysplasia and Associated With Hypertrophic Radial Remodeling: A Pilot, Urine Proteomic Study
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Increased Collagen Turnover Is a Feature of Fibromuscular Dysplasia and Associated With Hypertrophic Radial Remodeling: A Pilot, Urine Proteomic Study

Hypertension (Dallas, Tex. 1979), 2021-11 [Peer Reviewed Journal]

Distributed under a Creative Commons Attribution 4.0 International License ;ISSN: 0194-911X ;EISSN: 1524-4563

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15
m6aViewer: software for the detection, analysis, and visualization of N6-methyladenosine peaks from m6A-seq/ME-RIP sequencing data
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m6aViewer: software for the detection, analysis, and visualization of N6-methyladenosine peaks from m6A-seq/ME-RIP sequencing data

RNA (Cambridge), 2017-10, Vol.23 (10), p.1493-1501 [Peer Reviewed Journal]

2017 ;ISSN: 1355-8382 ;EISSN: 1469-9001 ;DOI: 10.1261/rna.058206.116 ;PMID: 28724534

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16
Abstract 2442 Finding the mRNA sequence of Methylcitrate synthase in Sclerotinia Homoeocarpa using Bioinformatics
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Abstract 2442 Finding the mRNA sequence of Methylcitrate synthase in Sclerotinia Homoeocarpa using Bioinformatics

The Journal of biological chemistry, 2024-03, Vol.300 (3) [Peer Reviewed Journal]

2024 The American Society for Biochemistry and Molecular Biology, Inc. ;ISSN: 0021-9258 ;EISSN: 1083-351X ;DOI: 10.1016/j.jbc.2024.106304

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17
SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems
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Article
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SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems

Bioinformatics (Oxford, England), 2021-06, Vol.37 (21), p.3702-3706 [Peer Reviewed Journal]

Distributed under a Creative Commons Attribution 4.0 International License ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btab229

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18
Simulations of pH-effects on kallikrein activity predict compromised skin barrier and predisposition to irritations and dryness characteristic of atopic dermatitis (poster abstract)
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Simulations of pH-effects on kallikrein activity predict compromised skin barrier and predisposition to irritations and dryness characteristic of atopic dermatitis (poster abstract)

Journal of investigative dermatology, 2021-10, Vol.141 (10) [Peer Reviewed Journal]

Distributed under a Creative Commons Attribution 4.0 International License ;ISSN: 0022-202X ;EISSN: 1523-1747 ;DOI: 10.1016/j.jid.2021.08.136

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19
Recent Therapeutic Advancements Using Bioinformatics and Chemoinformatics Approaches
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Recent Therapeutic Advancements Using Bioinformatics and Chemoinformatics Approaches

Current topics in medicinal chemistry, 2018, Vol.18 (20), p.1717-1718 [Peer Reviewed Journal]

Copyright Bentham Science Aug 2018 ;ISSN: 1568-0266 ;EISSN: 1873-4294 ;DOI: 10.2174/156802661820181231102849

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20
Fast and Accurate Protein False Discovery Rates on Large-Scale Proteomics Data Sets with Percolator 3.0
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Fast and Accurate Protein False Discovery Rates on Large-Scale Proteomics Data Sets with Percolator 3.0

Journal of the American Society for Mass Spectrometry, 2016-11, Vol.27 (11), p.1719-1727 [Peer Reviewed Journal]

The Author(s) 2016 ;Journal of The American Society for Mass Spectrometry is a copyright of Springer, (2016). All Rights Reserved. ;ISSN: 1044-0305 ;ISSN: 1879-1123 ;EISSN: 1879-1123 ;DOI: 10.1007/s13361-016-1460-7 ;PMID: 27572102

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