Protist.guru: A Comparative Transcriptomics Database for Protists
Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the micro...
Ausführliche Beschreibung
Gespeichert in:
| Autor*in: |
Villanueva, Erielle Marie Fajardo [verfasserIn] Lim, Peng Ken [verfasserIn] Lim, Jolyn Jia Jia [verfasserIn] Lim, Shan Chun [verfasserIn] Lau, Pei Yi [verfasserIn] Koh, Kenny Ting Sween [verfasserIn] Tan, Emmanuel [verfasserIn] Kairon, Ryanjit Singh [verfasserIn] See, Wei An [verfasserIn] Liao, Jian Xiang [verfasserIn] Hee, Ker Min [verfasserIn] Vijay, Varsheni [verfasserIn] Maitra, Ishani [verfasserIn] Boon, Chong Jun [verfasserIn] Fo, Kevin [verfasserIn] Wang, Yee Tat [verfasserIn] Jaya, Ryan [verfasserIn] Hew, Li Anne [verfasserIn] Lim, Yong Yee [verfasserIn] Lee, Wei Quan [verfasserIn] Lee, Zhi Qi [verfasserIn] Foo, Herman [verfasserIn] dos Santos, Adriana Lopes [verfasserIn] Mutwil, Marek [verfasserIn] |
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| Format: |
E-Artikel |
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| Sprache: |
Englisch |
| Erschienen: |
2022 |
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| Schlagwörter: |
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| Übergeordnetes Werk: |
Enthalten in: Journal of molecular biology - Amsterdam [u.a.] : Elsevier, 1959, 434 |
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| Übergeordnetes Werk: |
volume:434 |
| DOI / URN: |
10.1016/j.jmb.2022.167502 |
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| Katalog-ID: |
ELV007980248 |
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| 100 | 1 | |a Villanueva, Erielle Marie Fajardo |e verfasserin |4 aut | |
| 245 | 1 | 0 | |a Protist.guru: A Comparative Transcriptomics Database for Protists |
| 264 | 1 | |c 2022 | |
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| 520 | |a Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. | ||
| 650 | 4 | |a protist | |
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| 650 | 4 | |a co-expression | |
| 650 | 4 | |a function | |
| 650 | 4 | |a comparative | |
| 700 | 1 | |a Lim, Peng Ken |e verfasserin |4 aut | |
| 700 | 1 | |a Lim, Jolyn Jia Jia |e verfasserin |4 aut | |
| 700 | 1 | |a Lim, Shan Chun |e verfasserin |4 aut | |
| 700 | 1 | |a Lau, Pei Yi |e verfasserin |4 aut | |
| 700 | 1 | |a Koh, Kenny Ting Sween |e verfasserin |4 aut | |
| 700 | 1 | |a Tan, Emmanuel |e verfasserin |4 aut | |
| 700 | 1 | |a Kairon, Ryanjit Singh |e verfasserin |4 aut | |
| 700 | 1 | |a See, Wei An |e verfasserin |4 aut | |
| 700 | 1 | |a Liao, Jian Xiang |e verfasserin |4 aut | |
| 700 | 1 | |a Hee, Ker Min |e verfasserin |4 aut | |
| 700 | 1 | |a Vijay, Varsheni |e verfasserin |4 aut | |
| 700 | 1 | |a Maitra, Ishani |e verfasserin |4 aut | |
| 700 | 1 | |a Boon, Chong Jun |e verfasserin |4 aut | |
| 700 | 1 | |a Fo, Kevin |e verfasserin |4 aut | |
| 700 | 1 | |a Wang, Yee Tat |e verfasserin |4 aut | |
| 700 | 1 | |a Jaya, Ryan |e verfasserin |4 aut | |
| 700 | 1 | |a Hew, Li Anne |e verfasserin |4 aut | |
| 700 | 1 | |a Lim, Yong Yee |e verfasserin |4 aut | |
| 700 | 1 | |a Lee, Wei Quan |e verfasserin |4 aut | |
| 700 | 1 | |a Lee, Zhi Qi |e verfasserin |4 aut | |
| 700 | 1 | |a Foo, Herman |e verfasserin |4 aut | |
| 700 | 1 | |a dos Santos, Adriana Lopes |e verfasserin |4 aut | |
| 700 | 1 | |a Mutwil, Marek |e verfasserin |4 aut | |
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10.1016/j.jmb.2022.167502 doi (DE-627)ELV007980248 (ELSEVIER)S0022-2836(22)00076-6 DE-627 ger DE-627 rda eng 570 610 DE-600 42.13 bkl Villanueva, Erielle Marie Fajardo verfasserin aut Protist.guru: A Comparative Transcriptomics Database for Protists 2022 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. protist expression co-expression function comparative Lim, Peng Ken verfasserin aut Lim, Jolyn Jia Jia verfasserin aut Lim, Shan Chun verfasserin aut Lau, Pei Yi verfasserin aut Koh, Kenny Ting Sween verfasserin aut Tan, Emmanuel verfasserin aut Kairon, Ryanjit Singh verfasserin aut See, Wei An verfasserin aut Liao, Jian Xiang verfasserin aut Hee, Ker Min verfasserin aut Vijay, Varsheni verfasserin aut Maitra, Ishani verfasserin aut Boon, Chong Jun verfasserin aut Fo, Kevin verfasserin aut Wang, Yee Tat verfasserin aut Jaya, Ryan verfasserin aut Hew, Li Anne verfasserin aut Lim, Yong Yee verfasserin aut Lee, Wei Quan verfasserin aut Lee, Zhi Qi verfasserin aut Foo, Herman verfasserin aut dos Santos, Adriana Lopes verfasserin aut Mutwil, Marek verfasserin aut Enthalten in Journal of molecular biology Amsterdam [u.a.] : Elsevier, 1959 434 Online-Ressource (DE-627)222605472 (DE-600)1355192-9 (DE-576)094059837 1089-8638 nnns volume:434 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 42.13 Molekularbiologie AR 434 |
| spelling |
10.1016/j.jmb.2022.167502 doi (DE-627)ELV007980248 (ELSEVIER)S0022-2836(22)00076-6 DE-627 ger DE-627 rda eng 570 610 DE-600 42.13 bkl Villanueva, Erielle Marie Fajardo verfasserin aut Protist.guru: A Comparative Transcriptomics Database for Protists 2022 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. protist expression co-expression function comparative Lim, Peng Ken verfasserin aut Lim, Jolyn Jia Jia verfasserin aut Lim, Shan Chun verfasserin aut Lau, Pei Yi verfasserin aut Koh, Kenny Ting Sween verfasserin aut Tan, Emmanuel verfasserin aut Kairon, Ryanjit Singh verfasserin aut See, Wei An verfasserin aut Liao, Jian Xiang verfasserin aut Hee, Ker Min verfasserin aut Vijay, Varsheni verfasserin aut Maitra, Ishani verfasserin aut Boon, Chong Jun verfasserin aut Fo, Kevin verfasserin aut Wang, Yee Tat verfasserin aut Jaya, Ryan verfasserin aut Hew, Li Anne verfasserin aut Lim, Yong Yee verfasserin aut Lee, Wei Quan verfasserin aut Lee, Zhi Qi verfasserin aut Foo, Herman verfasserin aut dos Santos, Adriana Lopes verfasserin aut Mutwil, Marek verfasserin aut Enthalten in Journal of molecular biology Amsterdam [u.a.] : Elsevier, 1959 434 Online-Ressource (DE-627)222605472 (DE-600)1355192-9 (DE-576)094059837 1089-8638 nnns volume:434 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 42.13 Molekularbiologie AR 434 |
| allfields_unstemmed |
10.1016/j.jmb.2022.167502 doi (DE-627)ELV007980248 (ELSEVIER)S0022-2836(22)00076-6 DE-627 ger DE-627 rda eng 570 610 DE-600 42.13 bkl Villanueva, Erielle Marie Fajardo verfasserin aut Protist.guru: A Comparative Transcriptomics Database for Protists 2022 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. protist expression co-expression function comparative Lim, Peng Ken verfasserin aut Lim, Jolyn Jia Jia verfasserin aut Lim, Shan Chun verfasserin aut Lau, Pei Yi verfasserin aut Koh, Kenny Ting Sween verfasserin aut Tan, Emmanuel verfasserin aut Kairon, Ryanjit Singh verfasserin aut See, Wei An verfasserin aut Liao, Jian Xiang verfasserin aut Hee, Ker Min verfasserin aut Vijay, Varsheni verfasserin aut Maitra, Ishani verfasserin aut Boon, Chong Jun verfasserin aut Fo, Kevin verfasserin aut Wang, Yee Tat verfasserin aut Jaya, Ryan verfasserin aut Hew, Li Anne verfasserin aut Lim, Yong Yee verfasserin aut Lee, Wei Quan verfasserin aut Lee, Zhi Qi verfasserin aut Foo, Herman verfasserin aut dos Santos, Adriana Lopes verfasserin aut Mutwil, Marek verfasserin aut Enthalten in Journal of molecular biology Amsterdam [u.a.] : Elsevier, 1959 434 Online-Ressource (DE-627)222605472 (DE-600)1355192-9 (DE-576)094059837 1089-8638 nnns volume:434 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 42.13 Molekularbiologie AR 434 |
| allfieldsGer |
10.1016/j.jmb.2022.167502 doi (DE-627)ELV007980248 (ELSEVIER)S0022-2836(22)00076-6 DE-627 ger DE-627 rda eng 570 610 DE-600 42.13 bkl Villanueva, Erielle Marie Fajardo verfasserin aut Protist.guru: A Comparative Transcriptomics Database for Protists 2022 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. protist expression co-expression function comparative Lim, Peng Ken verfasserin aut Lim, Jolyn Jia Jia verfasserin aut Lim, Shan Chun verfasserin aut Lau, Pei Yi verfasserin aut Koh, Kenny Ting Sween verfasserin aut Tan, Emmanuel verfasserin aut Kairon, Ryanjit Singh verfasserin aut See, Wei An verfasserin aut Liao, Jian Xiang verfasserin aut Hee, Ker Min verfasserin aut Vijay, Varsheni verfasserin aut Maitra, Ishani verfasserin aut Boon, Chong Jun verfasserin aut Fo, Kevin verfasserin aut Wang, Yee Tat verfasserin aut Jaya, Ryan verfasserin aut Hew, Li Anne verfasserin aut Lim, Yong Yee verfasserin aut Lee, Wei Quan verfasserin aut Lee, Zhi Qi verfasserin aut Foo, Herman verfasserin aut dos Santos, Adriana Lopes verfasserin aut Mutwil, Marek verfasserin aut Enthalten in Journal of molecular biology Amsterdam [u.a.] : Elsevier, 1959 434 Online-Ressource (DE-627)222605472 (DE-600)1355192-9 (DE-576)094059837 1089-8638 nnns volume:434 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 42.13 Molekularbiologie AR 434 |
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10.1016/j.jmb.2022.167502 doi (DE-627)ELV007980248 (ELSEVIER)S0022-2836(22)00076-6 DE-627 ger DE-627 rda eng 570 610 DE-600 42.13 bkl Villanueva, Erielle Marie Fajardo verfasserin aut Protist.guru: A Comparative Transcriptomics Database for Protists 2022 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. protist expression co-expression function comparative Lim, Peng Ken verfasserin aut Lim, Jolyn Jia Jia verfasserin aut Lim, Shan Chun verfasserin aut Lau, Pei Yi verfasserin aut Koh, Kenny Ting Sween verfasserin aut Tan, Emmanuel verfasserin aut Kairon, Ryanjit Singh verfasserin aut See, Wei An verfasserin aut Liao, Jian Xiang verfasserin aut Hee, Ker Min verfasserin aut Vijay, Varsheni verfasserin aut Maitra, Ishani verfasserin aut Boon, Chong Jun verfasserin aut Fo, Kevin verfasserin aut Wang, Yee Tat verfasserin aut Jaya, Ryan verfasserin aut Hew, Li Anne verfasserin aut Lim, Yong Yee verfasserin aut Lee, Wei Quan verfasserin aut Lee, Zhi Qi verfasserin aut Foo, Herman verfasserin aut dos Santos, Adriana Lopes verfasserin aut Mutwil, Marek verfasserin aut Enthalten in Journal of molecular biology Amsterdam [u.a.] : Elsevier, 1959 434 Online-Ressource (DE-627)222605472 (DE-600)1355192-9 (DE-576)094059837 1089-8638 nnns volume:434 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 42.13 Molekularbiologie AR 434 |
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Villanueva, Erielle Marie Fajardo @@aut@@ Lim, Peng Ken @@aut@@ Lim, Jolyn Jia Jia @@aut@@ Lim, Shan Chun @@aut@@ Lau, Pei Yi @@aut@@ Koh, Kenny Ting Sween @@aut@@ Tan, Emmanuel @@aut@@ Kairon, Ryanjit Singh @@aut@@ See, Wei An @@aut@@ Liao, Jian Xiang @@aut@@ Hee, Ker Min @@aut@@ Vijay, Varsheni @@aut@@ Maitra, Ishani @@aut@@ Boon, Chong Jun @@aut@@ Fo, Kevin @@aut@@ Wang, Yee Tat @@aut@@ Jaya, Ryan @@aut@@ Hew, Li Anne @@aut@@ Lim, Yong Yee @@aut@@ Lee, Wei Quan @@aut@@ Lee, Zhi Qi @@aut@@ Foo, Herman @@aut@@ dos Santos, Adriana Lopes @@aut@@ Mutwil, Marek @@aut@@ |
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Villanueva, Erielle Marie Fajardo Lim, Peng Ken Lim, Jolyn Jia Jia Lim, Shan Chun Lau, Pei Yi Koh, Kenny Ting Sween Tan, Emmanuel Kairon, Ryanjit Singh See, Wei An Liao, Jian Xiang Hee, Ker Min Vijay, Varsheni Maitra, Ishani Boon, Chong Jun Fo, Kevin Wang, Yee Tat Jaya, Ryan Hew, Li Anne Lim, Yong Yee Lee, Wei Quan Lee, Zhi Qi Foo, Herman dos Santos, Adriana Lopes Mutwil, Marek |
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protist.guru: a comparative transcriptomics database for protists |
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Protist.guru: A Comparative Transcriptomics Database for Protists |
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Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. |
| abstractGer |
Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. |
| abstract_unstemmed |
Summary: During the last few decades, the study of microbial ecology has been enabled by molecular and genomic data. DNA sequencing has revealed the surprising extent of microbial diversity and how microbial processes run global ecosystems. However, significant gaps in our understanding of the microbial world remain, and one example is that microbial eukaryotes, or protists, are still largely neglected. To address this gap, we used gene expression data from 17 protist species to create protist.guru: an online database equipped with tools for identifying co-expressed genes, gene families, and co-expression clusters enriched for specific biological functions. Here, we show how our database can be used to reveal genes involved in essential pathways, such as the synthesis of secondary carotenoids in Haematococcus lacustris. We expect protist.guru to serve as a valuable resource for protistologists, as well as a catalyst for discoveries and new insights into the biological processes of microbial eukaryotes.Availability: The database and co-expression networks are freely available from http://protist.guru/. The expression matrices and sample annotations are found in the supplementary data. |
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Protist.guru: A Comparative Transcriptomics Database for Protists |
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Lim, Peng Ken Lim, Jolyn Jia Jia Lim, Shan Chun Lau, Pei Yi Koh, Kenny Ting Sween Tan, Emmanuel Kairon, Ryanjit Singh See, Wei An Liao, Jian Xiang Hee, Ker Min Vijay, Varsheni Maitra, Ishani Boon, Chong Jun Fo, Kevin Wang, Yee Tat Jaya, Ryan Hew, Li Anne Lim, Yong Yee Lee, Wei Quan Lee, Zhi Qi Foo, Herman dos Santos, Adriana Lopes Mutwil, Marek |
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