| # | Document title | Authors | Year | Source | Cited by |
| 1 | The RAVEN Toolbox and Its Use for Generating a Genome-scale Metabolic Model for Penicillium chrysogenum | Agren R., Liu L., Shoaie S., Vongsangnak W., Nookaew I., Nielsen J. | 2013 | PLoS Computational Biology
9(3) | 266 |
| 2 | De novo sequencing, assembly and analysis of the genome of the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D, a model for modern industrial biotechnology | Nijkamp J.F., Nijkamp J.F., van den Broek M., van den Broek M., Datema E., Datema E., Datema E., de Kok S., de Kok S., de Kok S., Bosman L., Bosman L., Luttik M.A., Luttik M.A., Daran-Lapujade P., Daran-Lapujade P., Vongsangnak W., Vongsangnak W., Nielsen J., Heijne W.H.M., Klaassen P., Paddon C.J., Platt D., Kötter P., van Ham R.C., van Ham R.C., van Ham R.C., Reinders M.J.T., Reinders M.J.T., Reinders M.J.T., Pronk J.T., Pronk J.T., de Ridder D., de Ridder D., de Ridder D., de Ridder D., Daran J.M., Daran J.M., Daran J.M. | 2012 | Microbial Cell Factories
11 | 191 |
| 3 | Biomedical text mining and its applications in cancer research | Zhu F., Patumcharoenpol P., Zhang C., Yang Y., Chan J., Meechai A., Vongsangnak W., Shen B., Shen B. | 2013 | Journal of Biomedical Informatics
46(2),pp. 200-211 | 156 |
| 4 | Performance comparison and evaluation of software tools for microRNA deep-sequencing data analysis | Li Y., Zhang Z., Liu F., Vongsangnak W., Jing Q., Jing Q., Shen B. | 2012 | Nucleic Acids Research
40(10),pp. 4298-4305 | 122 |
| 5 | Unravelling evolutionary strategies of yeast for improving galactose utilization through integrated systems level analysis | Hong K., Hong K., Vongsangnak W., Vongsangnak W., Vemuri G., Nielsen J., Nielsen J. | 2011 | Proceedings of the National Academy of Sciences of the United States of America
108(29),pp. 12179-12184 | 120 |
| 6 | Towards efficient extraction of notoginseng saponins from cultured cells of Panax notoginseng | Vongsangnak W., Vongsangnak W., Gua J., Chauvatcharin S., Zhong J.J. | 2004 | Biochemical Engineering Journal
18(2),pp. 115-120 | 100 |
| 7 | A trispecies Aspergillus microarray: Comparative transcriptomics of three Aspergillus species | Andersen M., Vongsangnak W., Panagiotou G., Salazar M., Lehmann L., Nielsen J. | 2008 | Proceedings of the National Academy of Sciences of the United States of America
105(11),pp. 4387-4392 | 98 |
| 8 | BioMet Toolbox: Genome-wide analysis of metabolism | Cvijovic M., Olivares-Hernandez R., Agren R., Dahr N., Vongsangnak W., Nookaew I., Patil K., Nielsen J. | 2010 | Nucleic Acids Research
38(SUPPL. 2) | 88 |
| 9 | Improved annotation through genome-scale metabolic modeling of Aspergillus oryzae | Vongsangnak W., Vongsangnak W., Olsen P., Hansen K., Krogsgaard S., Nielsen J., Nielsen J. | 2008 | BMC Genomics
9 | 68 |
| 10 | Whole genome sequencing of Saccharomyces cerevisiae: From genotype to phenotype for improved metabolic engineering applications | Otero J., Otero J., Otero J., Vongsangnak W., Vongsangnak W., Vongsangnak W., Asadollahi M., Asadollahi M., Asadollahi M., Olivares-Hernandes R., Olivares-Hernandes R., Maury J., Maury J., Farinelli L., Barlocher L., Østerås M., Schalk M., Clark A., Nielsen J., Nielsen J. | 2010 | BMC Genomics
11(1) | 58 |
| 11 | Evaluation and comparison of multiple aligners for next-generation sequencing data analysis | Shang J., Shang J., Zhu F., Vongsangnak W., Tang Y., Zhang W., Shen B. | 2014 | BioMed Research International
2014 | 44 |
| 12 | Heterologous production of polyunsaturated fatty acids in Saccharomyces cerevisiae causes a global transcriptional response resulting in reduced proteasomal activity and increased oxidative stress | Ruenwai R., Neiss A., Laoteng K., Vongsangnak W., Dalfard A.B., Dalfard A.B., Cheevadhanarak S., Petranovic D., Nielsen J. | 2011 | Biotechnology Journal
6(3),pp. 343-356 | 39 |
| 13 | Uncovering transcriptional regulation of glycerol metabolism in Aspergilli through genome-wide gene expression data analysis | Salazar M., Vongsangnak W., Panagiotou G., Andersen M., Nielsen J. | 2009 | Molecular Genetics and Genomics
282(6),pp. 571-586 | 31 |
| 14 | Genome-wide analysis of maltose utilization and regulation in aspergilli | Vongsangnak W., Salazar M., Hansen K., Nielsen J. | 2009 | Microbiology
155(12),pp. 3893-3902 | 31 |
| 15 | Genome-scale analysis of the metabolic networks of oleaginous Zygomycete fungi | Vongsangnak W., Ruenwai R., Tang X., Hu X., Zhang H., Shen B., Song Y., Laoteng K. | 2013 | Gene
521(1),pp. 180-190 | 30 |
| 16 | Revealing the beneficial effect of protease supplementation to high gravity beer fermentations using "-omics" techniques | Piddocke M., Fazio A., Vongsangnak W., Vongsangnak W., Wong M., Heldt-Hansen H., Workman C., Nielsen J., Olsson L., Olsson L. | 2011 | Microbial Cell Factories
10 | 27 |
| 17 | Annotation and analysis of malic enzyme genes encoding for multiple isoforms in the fungus Mucor circinelloides CBS 277.49 | Vongsangnak W., Zhang Y., Chen W., Ratledge C., Ratledge C., Song Y. | 2012 | Biotechnology Letters
34(5),pp. 941-947 | 24 |
| 18 | Increased Lipid Accumulation in Mucor circinelloides by Overexpression of Mitochondrial Citrate Transporter Genes | Yang J., Li S., Kabir Khan M., Garre V., Vongsangnak W., Song Y. | 2019 | Industrial and Engineering Chemistry Research
58(6),pp. 2125-2134 | 22 |
| 19 | Genome-scale metabolic modeling of Mucor circinelloides and comparative analysis with other oleaginous species | Vongsangnak W., Vongsangnak W., Klanchui A., Tawornsamretkit I., Tatiyaborwornchai W., Laoteng K., Meechai A. | 2016 | Gene
583(2),pp. 121-129 | 21 |
| 20 | Integrative analysis reveals disease-associated genes and biomarkers for prostate cancer progression | Li Y., Vongsangnak W., Chen L., Shen B. | 2014 | BMC Medical Genomics
7(SUPPL.1) | 20 |
| 21 | Genome-scale metabolic network of Cordyceps militaris useful for comparative analysis of entomopathogenic fungi | Vongsangnak W., Raethong N., Mujchariyakul W., Nguyen N., Leong H., Laoteng K. | 2017 | Gene
626,pp. 132-139 | 20 |
| 22 | Informatics for metabolomics | Kusonmano K., Vongsangnak W., Chumnanpuen P. | 2016 | Advances in Experimental Medicine and Biology
939,pp. 91-115 | 19 |
| 23 | Molecular mechanism of Forkhead box M1 inhibition by thiostrepton in breast cancer cells | Kongsema M., Kongsema M., Wongkhieo S., Khongkow M., Lam E., Boonnoy P., Boonnoy P., Vongsangnak W., Wong-Ekkabut J., Wong-Ekkabut J. | 2019 | Oncology Reports
42(3),pp. 953-962 | 19 |
| 24 | Protective effect of lactobacillus reuteri KUB-AC5 against salmonella enteritidis challenge in chickens | Nakphaichit M., Sobanbua S., Siemuang S., Vongsangnak W., Nakayama J., Nitisinprasert S. | 2019 | Beneficial Microbes
10(1),pp. 43-54 | 19 |
| 25 | Uncovering global metabolic response to cordycepin production in Cordyceps militaris through transcriptome and genome-scale network-driven analysis | Raethong N., Laoteng K., Vongsangnak W. | 2018 | Scientific Reports
8(1) | 18 |
| 26 | Genome-scale metabolic representation of Amycolatopsis balhimycina | Vongsangnak W., Vongsangnak W., Vongsangnak W., Figueiredo L., Figueiredo L., Figueiredo L., Förster J., Weber T., Thykaer J., Stegmann E., Wohlleben W., Nielsen J., Nielsen J. | 2012 | Biotechnology and Bioengineering
109(7),pp. 1798-1807 | 16 |
| 27 | Post genome-wide association studies functional characterization of prostate cancer risk loci | Jiang J., Cui W., Vongsangnak W., Hu G., Shen B. | 2013 | BMC Genomics
14(SUPP 8) | 16 |
| 28 | Optimizing cultivation of Cordyceps militaris for fast growth and cordycepin overproduction using rational design of synthetic media | Raethong N., Wang H., Wang H., Nielsen J., Nielsen J., Vongsangnak W., Vongsangnak W. | 2020 | Computational and Structural Biotechnology Journal
18,pp. 1-8 | 15 |
| 29 | Time course gene expression profiling of yeast spore germination reveals a network of transcription factors orchestrating the global response | Geijer C., Pirkov I., Vongsangnak W., Vongsangnak W., Ericsson A., Nielsen J., Krantz M., Krantz M., Hohmann S. | 2012 | BMC Genomics
13(1) | 14 |
| 30 | Comparisons of Prostate Cancer Inhibitors Abiraterone and TOK-001 Binding with CYP17A1 through Molecular Dynamics | Xiao F., Yang M., Xu Y., Vongsangnak W. | 2015 | Computational and Structural Biotechnology Journal
13,pp. 520-527 | 12 |
| 31 | Transcriptome analysis reveals candidate genes involved in luciferin metabolism in Luciola aquatilis (Coleoptera: Lampyridae) | Vongsangnak W., Chumnanpuen P., Sriboonlert A. | 2016 | PeerJ
2016(10) | 12 |
| 32 | Integrated analysis of the global transcriptional response to α-amylase over-production by Aspergillus oryzae | Vongsangnak W., Hansen K., Nielsen J. | 2011 | Biotechnology and Bioengineering
108(5),pp. 1130-1139 | 11 |
| 33 | Alternative metabolic routes in channeling xylose to cordycepin production of Cordyceps militaris identified by comparative transcriptome analysis | Wongsa B., Raethong N., Chumnanpuen P., Wong-ekkabut J., Laoteng K., Vongsangnak W. | 2020 | Genomics
112(1),pp. 629-636 | 10 |
| 34 | Dissecting metabolic behavior of lipid over-producing strain of Mucor circinelloides through genome-scale metabolic network and multi-level data integration | Vongsangnak W., Kingkaw A., Yang J., Song Y., Laoteng K. | 2018 | Gene
670,pp. 87-97 | 9 |
| 35 | Protein–protein interface and disease: Perspective from biomolecular networks | Hu G., Xiao F., Li Y., Li Y., Vongsangnak W. | 2017 | Advances in Biochemical Engineering/Biotechnology
160,pp. 57-74 | 8 |
| 36 | An integrated text mining framework for metabolic interaction network reconstruction | Patumcharoenpol P., Patumcharoenpol P., Doungpan N., Meechai A., Shen B., Chan J.H., Vongsangnak W., Vongsangnak W. | 2016 | PeerJ
2016(3) | 8 |
| 37 | Systems biology and metabolic engineering of Arthrospira cell factories | Klanchui A., Vorapreeda T., Vongsangnak W., Khannapho C., Cheevadhanarak S., Meechai A. | 2012 | Computational and Structural Biotechnology Journal
3(4),pp. e201210015 | 8 |
| 38 | Comparative genome analysis reveals metabolic traits associated with probiotics properties in Lactobacillus reuteri KUB-AC5 | Jatuponwiphat T., Namrak T., Supataragul A., Nitisinprasert S., Nakphaichit M., Vongsangnak W. | 2019 | Gene Reports
17 | 7 |
| 39 | Cyanobacterial biofuels: Strategies and developments on network and modeling | Klanchui A., Raethong N., Prommeenate P., Vongsangnak W., Meechai A. | 2017 | Advances in Biochemical Engineering/Biotechnology
160,pp. 75-102 | 6 |
| 40 | Probing Carbon Utilization of Cordyceps militaris by Sugar Transportome and Protein Structural Analysis | Sirithep K., Sirithep K., Xiao F., Raethong N., Zhang Y., Laoteng K., Hu G., Vongsangnak W., Vongsangnak W. | 2020 | Cells
9(2) | 6 |
| 41 | Metabolic responses of carotenoid and cordycepin biosynthetic pathways in cordyceps militaris under light-programming exposure through genome-wide transcriptional analysis | Thananusak R., Laoteng K., Raethong N., Zhang Y., Vongsangnak W. | 2020 | Biology
9(9),pp. 1-14 | 5 |
| 42 | Reconstruction of insect hormone pathways in an aquatic firefly, Sclerotia aquatilis (Coleoptera: Lampyridae), using RNA-seq | Chanchay P., Vongsangnak W., Thancharoen A., Sriboonlert A. | 2019 | PeerJ
2019(8) | 5 |
| 43 | Identification of potential candidate genes involved in the sex determination cascade in an aquatic firefly, Sclerotia aquatilis (Coleoptera, Lampyridae) | Nguantad S., Chumnanpuen P., Thancharoen A., Vongsangnak W., Sriboonlert A. | 2020 | Genomics
112(3),pp. 2590-2602 | 5 |
| 44 | Impacts of killing process on the nutrient content, product stability and in vitro digestibility of black soldier fly (Hermetia illucens) larvae meals | Zhen Y., Chundang P., Zhang Y., Wang M., Vongsangnak W., Pruksakorn C., Kovitvadhi A. | 2020 | Applied Sciences (Switzerland)
10(17) | 5 |
| 45 | Comparative metabolic capabilities for Micrococcus luteus NCTC 2665, the "Fleming" strain, and actinobacteria | Rokem J., Vongsangnak W., Vongsangnak W., Nielsen J. | 2011 | Biotechnology and Bioengineering
108(11),pp. 2770-2775 | 5 |
| 46 | Analysis of genome-wide coexpression and coevolution of Aspergillus oryzae and Aspergillus niger | Vongsangnak W., Nookaew I., Salazar M., Nielsen J. | 2010 | OMICS A Journal of Integrative Biology
14(2),pp. 165-175 | 4 |
| 47 | Analysis of the infant gut microbiome reveals metabolic functional roles associated with healthy infants and infants with atopic dermatitis using metaproteomics | Kingkaw A., Nakphaichit M., Suratannon N., Nitisinprasert S., Wongoutong C., Chatchatee P., Krobthong S., Charoenlappanit S., Roytrakul S., Vongsangnak W. | 2020 | PeerJ
8 | 3 |
| 48 | MetGEMs Toolbox: Metagenome-scale models as integrative toolbox for uncovering metabolic functions and routes of human gut microbiome | Patumcharoenpol P., Nakphaichit M., Panagiotou G., Panagiotou G., Panagiotou G., Senavonge A., Suratannon N., Vongsangnak W. | 2021 | PLoS Computational Biology
17(1 December) | 3 |
| 49 | In silicoandin vitrodesign of cordycepin encapsulation in liposomes for colon cancer treatment | Khuntawee W., Khuntawee W., Amornloetwattana R., Amornloetwattana R., Vongsangnak W., Namdee K., Yata T., Karttunen M., Wong-Ekkabut J., Wong-Ekkabut J. | 2021 | RSC Advances
11(15),pp. 8475-8484 | 3 |
| 50 | Analysis of human gut microbiome: Taxonomy and metabolic functions in thai adults | Raethong N., Nakphaichit M., Suratannon N., Sathitkowitchai W., Sathitkowitchai W., Weerapakorn W., Keawsompong S., Vongsangnak W. | 2021 | Genes
12(3),pp. 1-13 | 3 |
| 51 | Screening and identification of SipC-interacting proteins in Salmonella enteritidis using Gal4 yeast two-hybrid system in duck | Zhang Y., Gu T., Chen Y., Zhu G., Vongsangnak W., Xu Q., Chen G. | 2019 | PeerJ
2019(9) | 3 |
| 52 | Probing Genome-Scale Model Reveals Metabolic Capability and Essential Nutrients for Growth of Probiotic Limosilactobacillus reuteri KUB-AC5 | Namrak T., Raethong N., Raethong N., Jatuponwiphat T., Nitisinprasert S., Vongsangnak W., Nakphaichit M. | 2022 | Biology
11(2) | 3 |
| 53 | Identification of Differentially Expressed Non-coding RNA Networks With Potential Immunoregulatory Roles During Salmonella Enteritidis Infection in Ducks | Zhang Y., Dong X., Hou L., Cao Z., Zhu G., Vongsangnak W., Xu Q., Chen G. | 2021 | Frontiers in Veterinary Science
8 | 2 |
| 54 | Metabolic traits specific for lipid-overproducing strain of Mucor circinelloides WJ11 identified by genome-scale modeling approach | Na Ayudhya N.I., Laoteng K., Song Y., Meechai A., Vongsangnak W. | 2019 | PeerJ
7 | 2 |
| 55 | Systems biology methods and developments of filamentous fungi in relation to the production of food ingredients | Vongsangnak W., Nielsen J. | 2013 | Microbial Production of Food Ingredients, Enzymes and Nutraceuticals
,pp. 19-41 | 2 |
| 56 | Translational biomedical informatics and computational systems medicine | Zhao Z., Zhao Z., Shen B., Lu X., Vongsangnak W. | 2013 | BioMed Research International
2013 | 2 |
| 57 | Bibliome mining platform and application for building metabolic interaction network | Patumcharoenpol P., Patumcharoenpol P., Chan J., Meechai A., Shen B., Vongsangnak W. | 2012 | Procedia Computer Science
11,pp. 55-62 | 2 |
| 58 | Iron-associated protein interaction networks reveal the key functional modules related to survival and virulence of Pasteurella multocida | Jatuponwiphat T., Chumnanpuen P., Othman S., E-kobon T., Vongsangnak W. | 2019 | Microbial Pathogenesis
127,pp. 257-266 | 2 |
| 59 | Sequence- and Structure-Based Functional Annotation and Assessment of Metabolic Transporters in Aspergillus oryzae: A Representative Case Study | Raethong N., Wong-Ekkabut J., Laoteng K., Vongsangnak W. | 2016 | BioMed Research International
2016 | 2 |
| 60 | Its2 sequencing and targeted meta-proteomics of infant gut mycobiome reveal the functional role of rhodotorula sp. During atopic dermatitis manifestation | Mok K., Suratanon N., Roytrakul S., Charoenlappanit S., Patumcharoenpol P., Chatchatee P., Vongsangnak W., Nakphaichit M. | 2021 | Journal of Fungi
7(9) | 2 |
| 61 | Integrative growth physiology and transcriptome profiling of probiotic limosilactobacillus reuteri kub-ac5 | Jatuponwiphat T., Namrak T., Nitisinprasert S., Nakphaichit M., Vongsangnak W. | 2021 | PeerJ
9 | 2 |
| 62 | Construction of Light-Responsive Gene Regulatory Network for Growth, Development and Secondary Metabolite Production in Cordyceps militaris | In-On A., Thananusak R., Ruengjitchatchawalya M., Vongsangnak W., Laomettachit T. | 2022 | Biology
11(1) | 1 |
| 63 | In silico analysis of mucor circinelloides genome-scale model for enhancing lipid production | Klanchui A., Vongsangnak W., Laoteng K., Meechai A. | 2016 | ACM International Conference Proceeding Series
,pp. 14-18 | 1 |
| 64 | Preliminary study: Proteomic profiling uncovers potential proteins for biomonitoring equine melanocytic neoplasm | Tesena P., Tesena P., Kingkaw A., Vongsangnak W., Pitikarn S., Phaonakrop N., Roytrakul S., Kovitvadhi A. | 2021 | Animals
11(7) | 1 |
| 65 | Dual Transcriptomic Analyses Unveil Host–Pathogen Interactions Between Salmonella enterica Serovar Enteritidis and Laying Ducks (Anas platyrhynchos) | Zhang Y., Song L., Hou L., Cao Z., Vongsangnak W., Zhu G., Xu Q., Chen G. | 2021 | Frontiers in Microbiology
12 | 1 |
| 66 | Faecal Proteomics and Functional Analysis of Equine Melanocytic Neoplasm in Grey Horses | Tesena P., Tesena P., Kingkaw A., Phaonakrop N., Roytrakul S., Limudomporn P., Vongsangnak W., Kovitvadhi A. | 2022 | Veterinary Sciences
9(2) | 0 |
| 67 | Weighted gene co-expression network analysis identifies potential regulators in response to Salmonella Enteritidis challenge in the reproductive tract of laying ducks | ZHANG Y., LUO S.w., HOU L.e., GU T.t., ZHU G.q., VONGSANGNAK W., XU Q., CHEN G.h. | 2022 | Journal of Integrative Agriculture
21(8),pp. 2384-2398 | 0 |
| 68 | Comparative genomics-based probiotic relevance of Limosilactobacillus fermentum KUB-D18 | Phujumpa P., Muangham S., Jatuponwiphat T., Koffas M., Nakphaichit M., Vongsangnak W. | 2022 | Gene
840 | 0 |
| 69 | Chondroitin Sulfate and Its Derivatives: A Review of Microbial and Other Production Methods | Awofiranye A.E., Hudson J., Tithi A.D., Linhardt R.J., Vongsangnak W., Koffas M.A.G., Koffas M.A.G. | 2022 | Fermentation
8(7) | 0 |
| 70 | Parallel screening and cheminformatics modeling of flavonoid activated aptasensors | Xiu Y., Xiu Y., Xiu Y., Zhang N., Prabhakaran P., Jang S., Yuan Q., Breneman C.M., Jung G.Y., Vongsangnak W., Koffas M.A.G., Koffas M.A.G. | 2022 | Synthetic and Systems Biotechnology
7(4),pp. 1148-1158 | 0 |
| 71 | Enhancing Genome-Scale Model by Integrative Exometabolome and Transcriptome: Unveiling Carbon Assimilation towards Sphingolipid Biosynthetic Capability of Cordyceps militaris | Cheawchanlertfa P., Chitcharoen S., Chitcharoen S., Raethong N., Liu Q., Chumnanpuen P., Soommat P., Song Y., Song Y., Koffas M., Laoteng K., Vongsangnak W. | 2022 | Journal of Fungi
8(8) | 0 |
| 72 | Whole genome analysis and elucidation of docosahexaenoic acid (DHA) biosynthetic pathway in Aurantiochytrium sp. SW1 | Prabhakaran P., Prabhakaran P., Raethong N., Nazir Y., Nazir Y., Halim H., Yang W., Vongsangnak W., Abdul Hamid A., Song Y. | 2022 | Gene
846 | 0 |
| 73 | The development of molecular genetics concept test for senior high school students using Rasch analysis | Sari I.J., Sari I.J., Pongsophon P., Vongsangnak W., Pimthong P., Pitiporntapin S. | 2022 | International Journal of Evaluation and Research in Education
11(4),pp. 1687-1695 | 0 |
| 74 | The salmonella effector Hcp modulates infection response, and affects salmonella adhesion and egg contamination incidences in ducks | Song L., Wu J., Weng K., Yao F., Vongsangnak W., Zhu G., Chen G., Zhang Y., Xu Q. | 2022 | Frontiers in Cellular and Infection Microbiology
12 | 0 |
| 75 | Comparative gene clusters analysis of Cordyceps militaris and related entomopathogenic fungi | Vongsangnak W., Mujchariyakul W., Wizaza C., Patumcharoenpol P., Kittichotirat W. | 2018 | ACM International Conference Proceeding Series
| 0 |
| 76 | Preface to selected papers from the 6th International Conference on Computational Systems-Biology and Bioinformatics (CSBio2015) | Kittichotirat W., Engchuan W., Vongsangnak W., Meechai A. | 2016 | Journal of Bioinformatics and Computational Biology
14(1) | 0 |
| 77 | In silico analysis of plant and animal transposable elements | Huang M.L., Wattanachaisaereekul S., Han Y.J., Vongsangnak W. | 2014 | International Journal of Bioinformatics Research and Applications
10(3),pp. 297-306 | 0 |