20142022
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Research Output 2014 2020

2020
5 Downloads (Pure)

MIBiG 2.0: a repository for biosynthetic gene clusters of known function

Kautsar, S. A., Blin, K., Shaw, S., Navarro-Muñoz, J. C., Terlouw, B. R., van der Hooft, J. J. J., van Santen, J. A., Tracanna, V., Suarez Duran, H. G., Pascal Andreu, V., Selem-Mojica, N., Alanjary, M., Robinson, S. L., Lund, G., Epstein, S. C., Sisto, A. C., Charkoudian, L. K., Collemare, J., Linington, R. G., Weber, T. & 1 others, Medema, M. H., 2020, In : Nucleic acids research. 48, p. D454–D458

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
2019
108 Downloads (Pure)

antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline

Blin, K., Shaw, S., Steinke, K., Villebro, R., Ziemert, N., Lee, S. Y., Medema, M. H. & Weber, T., 2019, In : Nucleic acids research. 87, W2, p. W81-W87 7 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
52 Downloads (Pure)

Highly efficient DSB-free base editing for streptomycetes with CRISPR-BEST

Tong, Y., Whitford, C. M., Robertsen, H. L., Blin, K., Jørgensen, T. S., Klitgaard, A. K., Gren, T., Jiang, X., Weber, T. & Lee, S. Y., 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 41, p. 20366-20375

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
242 Downloads (Pure)

Recent development of antiSMASH and other computational approaches to mine secondary metabolite biosynthetic gene clusters

Blin, K., Kim, H. U., Medema, M. H. & Weber, T., 2019, In : Briefings in Bioinformatics. 20, 4, p. 1103-1113

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File

Sequence-based classification of type II polyketide synthase biosynthetic gene clusters for antiSMASH

Villebro, R., Shaw, S., Blin, K. & Weber, T., 2019, In : Journal of Industrial Microbiology and Biotechnology. 46, 3-4, p. 469-475

Research output: Contribution to journalJournal articleResearchpeer-review

152 Downloads (Pure)

The antiSMASH database version 2: a comprehensive resource on secondary metabolite biosynthetic gene clusters

Blin, K., Pascal Andreu, V., de Los Santos, E. L. C., Del Carratore, F., Lee, S. Y., Medema, M. H. & Weber, T., 2019, In : Nucleic acids research. 47, D1, p. D625–D630

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
2018

Bioconda: sustainable and comprehensive software distribution for the life sciences

Grüning, B., Dale, R., Sjödin, A., Chapman, B. A., Rowe, J., Tomkins-Tinch, C. H., Valieris, R., Köster, J., Blin, K., Haudgaard, M., Kratz, A., Junge, A. & Knudsen, M., 2018, In : Nature Methods. 15, p. 475-476

Research output: Contribution to journalComment/debateResearchpeer-review

CRISPR-Cas9 Toolkit for Actinomycete Genome Editing

Tong, Y., Robertsen, H. L., Blin, K., Weber, T. & Lee, S. Y., 2018, Synthetic Metabolic Pathways. Vol. 1671. p. 163-184 (Methods in Molecular Biology).

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

130 Downloads (Pure)

Patscanui: an intuitive web interface for searching patterns in DNA and protein data

Blin, K., Wohlleben, W. & Weber, T., 2018, In : Nucleic acids research. 46, W1, p. W205-W208

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
2017
257 Downloads (Pure)

antiSMASH 4.0-improvements in chemistry prediction and gene cluster boundary identification

Blin, K., Wolf, T., Chevrette, M. G., Lu, X., Schwalen, C. J., Kautsar, S. A., Suarez Duran, H. G., de Los Santos, E. L. C., Kim, H. U., Nave, M., Dickschat, J. S., Mitchell, D. A., Shelest, E., Breitling, R., Takano, E., Lee, S. Y., Weber, T. & Medema, M. H., 2017, In : Nucleic acids research. 45, p. W36-W41

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
234 Downloads (Pure)

Designing sgRNAs with CRISPy web: Tips and tricks of the trade

Blin, K., Lee, S. Y. & Weber, T., 2017, In : Lab Times. 1, p. 53

Research output: Contribution to journalJournal articleResearch

Open Access
File
359 Downloads (Pure)

Dissemination of antibiotic resistance genes from antibiotic producers to pathogens

Jiang, X., Ellabaan, M. M. H., Charusanti, P., Munck, C., Blin, K., Tong, Y., Weber, T., Sommer, M. O. A. & Lee, S. Y., 2017, In : Nature Communications. 8, 15784.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
311 Downloads (Pure)

plantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters

Kautsar, S. A., Suarez Duran, H. G., Blin, K., Osbourn, A. & Medema, M. H., 2017, In : Nucleic acids research. 45, W1, p. W55-W63 9 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File

Recent development of computational resources for new antibiotics discovery

Kim, H. U., Blin, K., Lee, S. Y. & Weber, T., 2017, In : Current opinion in Microbiology. 39, p. 113-120 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

184 Downloads (Pure)

The Antibiotic Resistant Target Seeker (ARTS), an exploration engine for antibiotic cluster prioritization and novel drug target discovery

Alanjary, M., Kronmiller, B., Adamek, M., Blin, K., Weber, T., Huson, D., Philmus, B. & Ziemert, N., 2017, In : Nucleic acids research. 45, p. W42-W48

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
416 Downloads (Pure)

The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters

Blin, K., Medema, M. H., Kottmann, R., Lee, S. Y. & Weber, T., 2017, In : Nucleic acids research. 45, D1, p. D555-D559 5 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
2016
406 Downloads (Pure)

CRISPy-web: An online resource to design sgRNAs for CRISPR applications

Blin, K., Pedersen, L. E., Weber, T. & Lee, S. Y., 2016, In : Synthetic and Systems Biotechnology. 1, 2, p. 118-121 4 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File

Engineering of actinomycetes using CRISPR/Cas9 technologies

Weber, T., Tong, Y., Blin, K. & Lee, S. Y., 2016, In : Planta Medica. 81, S01, 1 p.

Research output: Contribution to journalConference abstract in journalResearchpeer-review

539 Downloads (Pure)

Ten Simple Rules for Taking Advantage of Git and GitHub

Perez-Riverol, Y., Gatto, L., Wang, R., Sachsenberg, T., Uszkoreit, J., Leprevost, F. D. V., Fufezan, C., Ternent, T., Eglen, S. J., Katz, D. S., Pollard, T. J., Konovalov, A., Flight, R. M., Blin, K. & Vizcaíno, J. A., 2016, In : P L o S Computational Biology (Online). 12, 7, 11 p., e1004947.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
2015
586 Downloads (Pure)

antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters

Weber, T., Blin, K., Duddela, S., Krug, D., Kim, H. U., Bruccoleri, R., Lee, S. Y., Fischbach, M. A., Müller, R. & Wohlleben, W., 2015, In : Nucleic acids research. 43, W1, p. W237-W243 7 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
297 Downloads (Pure)

Minimum Information about a Biosynthetic Gene cluster

Medema, M. H., Kottmann, R., Yilmaz, P., Cummings, M., Biggins, J. B., Blin, K., de Bruijn, I., Kim, H. U., Nielsen, J. & Weber, T., 2015, In : Nature Chemical Biology. 11, 9, p. 625-631 7 p.

Research output: Contribution to journalComment/debateResearchpeer-review

Open Access
File
2014

Genome Mining for antibiotics biosynthesis pathways with antiSMASH 3

Weber, T., Kim, H. U., Blin, K., Takano, E., Breitling, R. & Medema, M., 2014, Abstract Book - DTU Sustain Conference 2014. Kgs. Lyngby: Technical University of Denmark, 1 p.

Research output: Chapter in Book/Report/Conference proceedingConference abstract in proceedingsResearchpeer-review