المؤلفون: Stroet, M. (Martin), Caron, B. (Bertrand), Engler, M.S. (Martin), Woning, J.M. (Jimi) van der, Kauffmann, A. (Aude), van Dijk, M. (Marc), El-Kebir, M. (Mohammed), Visscher, K.M. (Koen), Holownia, J. (Josef), Macfarlane, C. (Callum), Bennion, B.J. (Brian), Gelpi-Dominguez, S. (Svetlana), Lightstone, F.C. (Felice), Storm, T. (Tijs) van der, Geerke, D.P., Mark, A.E. (Alan), Klau, G.W. (Gunnar)

المصدر: Journal of Computer-Aided Molecular Design vol. 37, pp. 357-371

مصطلحات الفهرس: Automated topology builder, Dendrimer, Drugs, Force fields, Molecular fragments, Molecular simulation, Partial charges, info:eu-repo/semantics/article

URL: https://ir.cwi.nl/pub/33242

المؤلفون: Marschall, T. (Tanja), Marz, M. (Manja), Abeel, T. (Thomas), Dijkstra, L. (Louis), Dutilh, B.E. (Bas), Ghaffaari, A. (Ali), Kersey, P. (Paul), Kloosterman, W.P. (Wigard), Mäkinen, V. (Veli), Novak, A.M. (Adam M.), Paten, B. (Benedict), Porubsky, D. (David), Rivals, E. (Eric), Alkan, C. (Can), Baaijens, J.A. (Jasmijn A.), Bakker, P.I.W. (Paul) de, Boeva, V. (Valentina), Bonnal, R.J.P. (Raoul J.P.), Chiaromonte, F. (Francesca), Chikhi, R. (Rayan), Ciccarelli, F.D. (Francesca D.), Cijvat, R. (Robin), Datema, E. (Erwin), Duijn, C.M. (Cornelia) van, Eichler, E.E. (Evan), Ernst, C. (Corinna), Eskin, E. (E.), Garrison, E. (Erik), El-Kebir, M. (Mohammed), Klau, G.W. (Gunnar W.), Korbel, J.O. (Jan), Lameijer, E.-W. (Eric-Wubbo), Langmead, B. (Benjamin), Martin, M. (Marcel), Medvedev, P. (Paul), Mu, J.C. (John C.), Neerincx, P.B.T. (Pieter B T), Ouwens, K. (Klaasjan), Peterlongo, P. (Pierre), Pisanti, N. (Nadia), Rahmann, S. (S.), Raphael, B.J. (Benjamin J.), Reinert, K. (Knut), Ridder, D. (Dick) de, de Ridder, J. (Jeroen), Schlesner, M. (Matthias), Schulz-Trieglaff, O. (Ole), Sanders, A.D. (Ashley D.), Sheikhizadeh, S. (Siavash), Shneider, C. (Carl), Smit, S. (Sandra), Valenzuela, D. (Daniel), Wang, J. (Jiayin), Wessels, L. (Lodewyk), Zhang, Y. (Ying), Guryev, V. (Victor), Vandin, F. (Fabio), Ye, K. (Kai), Schönhuth, A. (Alexander)

المصدر: Briefings in Bioinformatics vol. 19 no. 1, pp. 118-135

مصطلحات موضوعية: Data structures, Haplotypes, Pan-genome, Read mapping, Sequence graph

وصف الملف: application/pdf

Relation: http://repub.eur.nl/pub/112706; urn:hdl:1765/112706

الاتاحة: http://repub.eur.nl/pub/112706
https://doi.org/10.1093/bib/bbw089

المؤلفون: Branco dos Santos, F., Olivier, B.G., Boele, J., Smessaert, V., De Rop, P., Krumpochova, P., Klau, G.W., Giera, M., Dehottay, P., Teusink, B., Goffin, P.

المصدر: Branco dos Santos , F , Olivier , B G , Boele , J , Smessaert , V , De Rop , P , Krumpochova , P , Klau , G W , Giera , M , Dehottay , P , Teusink , B & Goffin , P 2017 , ' Probing the genome-scale metabolic landscape of Bordetella pertussis , the causative agent of whooping cough ' , Applied and Environmental Microbiology , vol. 83 , no. 21 , e01528-17 . https://doi.org/10.1128/AEM.01528-17

وصف الملف: application/pdf

Relation: https://dare.uva.nl/personal/pure/en/publications/probing-the-genomescale-metabolic-landscape-of-bordetella-pertussis-the-causative-agent-of-whooping-cough(04655d6b-9995-448f-a714-69cd5589ab50).html

الاتاحة: https://dare.uva.nl/personal/pure/en/publications/probing-the-genomescale-metabolic-landscape-of-bordetella-pertussis-the-causative-agent-of-whooping-cough(04655d6b-9995-448f-a714-69cd5589ab50).html
https://doi.org/10.1128/AEM.01528-17
https://hdl.handle.net/11245.1/04655d6b-9995-448f-a714-69cd5589ab50
https://pure.uva.nl/ws/files/63006451/AEM.01528_17.pdf

المؤلفون: Dinkla, K., El-Kebir, M., Bucur, C.-I., Siderius, M., Smit, M.J., Westenberg, M.A., Klau, G.W.

المصدر: Dinkla , K , El-Kebir , M , Bucur , C-I , Siderius , M , Smit , M J , Westenberg , M A & Klau , G W 2013 , eXamine : a Cytoscape app for exploring annotated modules in networks . arXiv.org , s.n.

وصف الملف: application/pdf

Relation: https://research.tue.nl/en/publications/c3267fbc-88e0-4b2e-a4f0-7bda5ca31880

الاتاحة: https://research.tue.nl/en/publications/c3267fbc-88e0-4b2e-a4f0-7bda5ca31880
https://pure.tue.nl/ws/files/4014692/2209108541953.pdf

المؤلفون: El-Kebir, M., Heringa, J., Klau, G.W.

المصدر: El-Kebir , M , Heringa , J & Klau , G W 2015 , ' Natalie 2.0: Sparse Global Network Alignment as a Special Case of Quadratic Assignment ' , Algorithms , vol. 8 , no. 4 , pp. 1035-1051 . https://doi.org/10.3390/a8041035

الاتاحة: https://research.vu.nl/en/publications/74d95fe3-a37c-4f26-a778-e34fbb10cf05
https://doi.org/10.3390/a8041035
https://hdl.handle.net/1871.1/74d95fe3-a37c-4f26-a778-e34fbb10cf05

المؤلفون: Canzar, S., Andreotti, S., Weese, D., Reinert, K., Klau, G.W.

المصدر: Canzar , S , Andreotti , S , Weese , D , Reinert , K & Klau , G W 2015 , ' CIDANE: Comprehensive isoform discovery and abundance estimation ' , Lecture Notes in Computer Science , vol. 9029 , pp. 60-61 . https://doi.org/10.1007/978-3-319-16706-0_8

الاتاحة: https://research.vu.nl/en/publications/cf194d02-e606-420b-9fc4-83e7e362011c
https://doi.org/10.1007/978-3-319-16706-0_8
https://hdl.handle.net/1871.1/cf194d02-e606-420b-9fc4-83e7e362011c

المؤلفون: Boyanova, D., Nilla, S., Klau, G.W., Dandekar, T., Müller, T., Dittrich, M.

المصدر: Boyanova , D , Nilla , S , Klau , G W , Dandekar , T , Müller , T & Dittrich , M 2014 , ' Functional module search in protein networks based on semantic similarity improves the analydsis of proteomics data ' , Molecular and Cellular Proteomics , vol. 13 , pp. 1877-1889 . https://doi.org/10.1074/mcp.M113.032839

الاتاحة: https://research.vu.nl/en/publications/d30b3ba2-a0c4-4992-b99e-b17e9c78d59d
https://doi.org/10.1074/mcp.M113.032839
https://hdl.handle.net/1871.1/d30b3ba2-a0c4-4992-b99e-b17e9c78d59d

المؤلفون: El-Kebir, M., Brandt, B.W., Heringa, J., Klau, G.W.

المصدر: El-Kebir , M , Brandt , B W , Heringa , J & Klau , G W 2014 , ' NatalieQ: A web server for protein-protein interaction network querying ' , BMC Systems Biology , vol. 8 , pp. 40 . https://doi.org/10.1186/1752-0509-8-40

وصف الملف: application/pdf

Relation: https://dare.uva.nl/personal/pure/en/publications/natalieq-a-web-server-for-proteinprotein-interaction-network-querying(22b42cb1-6be4-41b1-8992-9f541ce58b7d).html

الاتاحة: https://dare.uva.nl/personal/pure/en/publications/natalieq-a-web-server-for-proteinprotein-interaction-network-querying(22b42cb1-6be4-41b1-8992-9f541ce58b7d).html
https://doi.org/10.1186/1752-0509-8-40
https://pure.uva.nl/ws/files/2132715/147870_429319.pdf

المؤلفون: Dinkla, K., El-Kebir, M., Bucur, C.I., Siderius, M., Smit, M.J., Westenberg, M.A., Klau, G.W.

المصدر: Dinkla , K , El-Kebir , M , Bucur , C I , Siderius , M , Smit , M J , Westenberg , M A & Klau , G W 2014 , ' eXamine: Exploring annotated modules in networks ' , BMC Bioinformatics , vol. 15 , no. 201 . https://doi.org/10.1186/1471-2105-15-201

الاتاحة: https://research.vu.nl/en/publications/992d89f2-2b2a-477c-90cd-7e59fc4db53d
https://doi.org/10.1186/1471-2105-15-201
https://hdl.handle.net/1871.1/992d89f2-2b2a-477c-90cd-7e59fc4db53d

المؤلفون: Wohlers, I., Malod-Dognin, N., Andonov, R., Klau, G.W.

المصدر: Wohlers , I , Malod-Dognin , N , Andonov , R & Klau , G W 2013 , ' CSA: Comprehensive comparison of pairwise protein structure alignments ' , Nucleic Acids Research , vol. 40 , pp. 303-309 . https://doi.org/10.1093/nar/gks362

وصف الملف: application/pdf

الاتاحة: https://research.vu.nl/en/publications/13109b22-9239-40f4-80a5-e08130e7c019
https://doi.org/10.1093/nar/gks362
https://research.vu.nl/ws/files/3099429/303423.pdf

المؤلفون: Hagen, F., Ceresini, P.C., Polacheck, I., Ma, H., van Nieuwerburgh, F., Gabaldón, T., Kagan, S., Pursall, E.R., Hoogveld, H.L., van Iersel, L.J.J., Klau, G.W., Kelk, S.M., Bartlett, K.H., Stougie, L., Voelz, K., Pryszcz, L.P., Castañeda, E., Lazera, M., Mey, W., Deforce, D., Meis, J.F., May, R.C., Klaassen, C.H.W., Boekhout, T.

المصدر: Hagen , F , Ceresini , P C , Polacheck , I , Ma , H , van Nieuwerburgh , F , Gabaldón , T , Kagan , S , Pursall , E R , Hoogveld , H L , van Iersel , L J J , Klau , G W , Kelk , S M , Bartlett , K H , Stougie , L , Voelz , K , Pryszcz , L P , Castañeda , E , Lazera , M , Mey , W , Deforce , D , Meis , J F , May , R ....

الاتاحة: https://research.vu.nl/en/publications/08b345c3-4375-4138-9ba9-5ecf08d8eddc
https://doi.org/10.1371/journal.pone.0071148
https://hdl.handle.net/1871.1/08b345c3-4375-4138-9ba9-5ecf08d8eddc

المؤلفون: Staiger, C., Cadot, S., Györffy, B., Wessels, L.F.A., Klau, G.W.

المصدر: Staiger , C , Cadot , S , Györffy , B , Wessels , L F A & Klau , G W 2013 , ' Current composite-feature classification methods do not outperform simple single-genes classifiers in breast cancer prognosis ' , Frontiers in Genetics , vol. 4 , no. 289 . https://doi.org/10.3389/fgene.2013.00289

مصطلحات موضوعية: /dk/atira/pure/sustainabledevelopmentgoals/good_health_and_well_being, name=SDG 3 - Good Health and Well-being

الاتاحة: https://research.vu.nl/en/publications/cb3655ab-8fb0-4802-89d3-669aad1e7c93
https://doi.org/10.3389/fgene.2013.00289
https://hdl.handle.net/1871.1/cb3655ab-8fb0-4802-89d3-669aad1e7c93

المؤلفون: El-Kebir, M., Marschall, T., Wohlers, I., Patterson, M.D., Heringa, J., Schönhuth, A., Klau, G.W.

المصدر: El-Kebir , M , Marschall , T , Wohlers , I , Patterson , M D , Heringa , J , Schönhuth , A & Klau , G W 2013 , ' Mapping proteins in the presence of paralogs using units of coevolution ' , BMC Bioinformatics , vol. 14 , no. Suppl. 15 , pp. S18 . https://doi.org/10.1186/1471-2105-14-S15-S18

Relation: https://research.vu.nl/en/publications/0373abe5-5d63-4294-b4c1-600cccdb834a

الاتاحة: https://research.vu.nl/en/publications/0373abe5-5d63-4294-b4c1-600cccdb834a
https://doi.org/10.1186/1471-2105-14-S15-S18
https://hdl.handle.net/1871.1/0373abe5-5d63-4294-b4c1-600cccdb834a

المؤلفون: Beisser, D., Grohme, M., Kopka, J., Frohme, M., Schill, R.O., Hengherr, S., Dandekar, T., Klau, G.W., Dittrich, M., Müller, T.

المصدر: Beisser , D , Grohme , M , Kopka , J , Frohme , M , Schill , R O , Hengherr , S , Dandekar , T , Klau , G W , Dittrich , M & Müller , T 2012 , ' Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum ' , BMC Systems Biology , vol. 6 , no. 72 . https://doi.org/10.1186/1752-0509-6-72

مصطلحات موضوعية: /dk/atira/pure/sustainabledevelopmentgoals/clean_water_and_sanitation, name=SDG 6 - Clean Water and Sanitation

وصف الملف: application/pdf

الاتاحة: https://research.vu.nl/en/publications/d7fbd1cb-61ed-4283-9d8f-cfc4fc9d9582
https://doi.org/10.1186/1752-0509-6-72
https://research.vu.nl/ws/files/695766/303425.pdf

المؤلفون: Backes, C., Rurainski, A., Klau, G.W., Müller, O., Stöckel, D., Gerasch, A., Küntzer, J., Maisel, D., Ludwig, N., Hein, M., Keller, A., Burtscher, H., Kaufmann, M., Meese, E., Lenhof, H.-P.

المصدر: Backes , C , Rurainski , A , Klau , G W , Müller , O , Stöckel , D , Gerasch , A , Küntzer , J , Maisel , D , Ludwig , N , Hein , M , Keller , A , Burtscher , H , Kaufmann , M , Meese , E & Lenhof , H-P 2012 , ' An integer linear programming approach for finding deregulated subgraphs in regulatory networks ' , Nucleic Acids Research , vol. 40 , no. 6 , pp. 1-13 . https://doi.org/10.1093/nar/gkr1227

مصطلحات موضوعية: /dk/atira/pure/sustainabledevelopmentgoals/good_health_and_well_being, name=SDG 3 - Good Health and Well-being

الاتاحة: https://research.vu.nl/en/publications/d33ed939-91ee-4e31-ab6c-7e2b3979c934
https://doi.org/10.1093/nar/gkr1227
https://hdl.handle.net/1871.1/d33ed939-91ee-4e31-ab6c-7e2b3979c934

المؤلفون: Staiger, C., Cadot, S., Kooter, R., Dittrich, M., Müller, T., Klau, G.W., Wessels, L.F.A.

المصدر: Staiger , C , Cadot , S , Kooter , R , Dittrich , M , Müller , T , Klau , G W & Wessels , L F A 2012 , ' A critical evaluation of network and pathway based classifiers for outcome prediction in breast cancer ' , PLoS ONE , vol. 7 , no. 4 , pp. e34796 . https://doi.org/10.1371/journal.pone.0034796

مصطلحات موضوعية: /dk/atira/pure/sustainabledevelopmentgoals/good_health_and_well_being, name=SDG 3 - Good Health and Well-being

وصف الملف: application/pdf

الاتاحة: https://research.vu.nl/en/publications/ed889401-cbed-4e27-90ad-c6f22907ab7d
https://doi.org/10.1371/journal.pone.0034796
https://research.vu.nl/ws/files/718787/303427.pdf

المؤلفون: El-Kebir, M., Heringa, J., Klau, G.W.

المساهمون: Loog, Marco, Wessels, Lodewyk, Reinders, Marcel J.T., de Ridder, Dick

المصدر: El-Kebir , M , Heringa , J & Klau , G W 2011 , Lagrangian Relaxation Applied to Sparse Global Network Alignment . in M Loog , L Wessels , M J T Reinders & D de Ridder (eds) , Pattern Recognition in Bioinformatics : 6th IAPR International Conference on PRIB 2011, Delft, The Netherlands, November 2-4, 2011, Proceedings . Lecture Notes in Computer Science , vol. 7036 , Springer , Berlin , pp. 225-236 , Proceedings 6th IAPR International Conference on Pattern Recognition in Bioinformatics (PRIB 2011) , 2/11/11 . https://doi.org/10.1007/978-3-642-24855-9_20

وصف الملف: application/pdf

Relation: urn:ISBN:9783642248542

الاتاحة: https://research.vu.nl/en/publications/ffa520a4-4f91-408d-8a01-9b547d6ce6cb
https://doi.org/10.1007/978-3-642-24855-9_20
https://research.vu.nl/ws/files/80444081/274855.pdf

المؤلفون: Engler, M.S. (Martin), Caron, B. (Bertrand), Veen, L. (Lourens), Geerke, D.P., Mark, A.E. (Alan), Klau, G.W. (Gunnar)

المساهمون: Parida, L. (Laxmi), Ukkonen, E. (Esko)

مصطلحات موضوعية: multiple-choice knapsack, integer linear programming, pseudo-polynomial dynamic programming, partial charge assignment, molecular dynamics simulations

وصف الملف: application/pdf

Relation: https://ir.cwi.nl/pub/27904; urn:ISBN:978-3-95977-082-8

الاتاحة: https://ir.cwi.nl/pub/27904
https://doi.org/10.4230/LIPIcs.WABI.2018.16

المؤلفون: Engler, M.S. (Martin), Caron, B. (Bertrand), Veen, L. (Lourens), Geerke, D.P., Mark, A.E. (Alan), Klau, G.W. (Gunnar)

المصدر: Algorithms for Molecular Biology vol. 14, pp. 1:1-1:10

مصطلحات موضوعية: Integer Linear Programming, Molecular dynamics simulations, Multiple-choice knapsack, Partial charge assignment, Pseudo-polynomial Dynamic Programming

وصف الملف: application/pdf

Relation: https://ir.cwi.nl/pub/28553

الاتاحة: https://ir.cwi.nl/pub/28553
https://doi.org/10.1186/s13015-019-0138-7

المؤلفون: Zaccaria, S. (Simone), El-Kebir, M. (Mohammed), Klau, G.W. (Gunnar), Raphael, B.J. (Benjamin)

Relation: https://ir.cwi.nl/pub/25770

الاتاحة: https://ir.cwi.nl/pub/25770
https://doi.org/10.1007/978-3-319-56970-3_20