Research Output per year
Publications 2007 2019
2019
DrugComb: an integrative cancer drug combination data portal
Zagidullin, B., Aldahdooh, J. M. F., Zheng, S., Wang, W., Wang, Y., Saad, J., Malyutina, A., Jafari, M., Tanoli, Z-R., Pessia, A. & Tang, J., 8 May 2019, In : Nucleic Acids Research.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
Drug combination sensitivity scoring facilitates the discovery of synergistic and efficacious drug combinations in cancer
Malyutina, A., Majumder, M. M., Wang, W., Pessia, A., Heckman, C. A. & Tang, J., 20 May 2019, In : PLoS Computational Biology. 15, 5, p. e1006752Research output: Contribution to journal › Article › Scientific › peer-review
Making Sense of the Epigenome Using Data Integration Approaches
Cazaly, E., Saad, J., Wang, W., Heckman, C., Ollikainen, M. & Tang, J., 19 Feb 2019, In : Frontiers in Pharmacology. 10, 15 p., 126.Research output: Contribution to journal › Review Article › Scientific › peer-review
Open Access
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Π-cyc: A Reference-free SNP Discovery Application using Parallel Graph Search
Younsi, R., Tang, J. & Holm, L. U. T., 29 Jan 2019, (Unpublished) In : arXiv.org .Research output: Contribution to journal › Article › General public
File
2018
Discovery of novel drug sensitivities in T-PLL by high-throughput ex vivo drug testing and mutation profiling
Andersson, E. I., Pützer, S., Yadav, B., Dufva, O., Khan, S., He, L., Sellner, L., Schrader, A., Crispatzu, G., Oleś, M., Zhang, H., Adnan-Awad, S., Lagström, S., Bellanger, D., Mpindi, J. P., Eldfors, S., Pemovska, T., Pietarinen, P., Lauhio, A., Tomska, K. & 19 others, 2018, In : Leukemia. 32, 3, p. 774-787 14 p.Research output: Contribution to journal › Article › Scientific › peer-review
Drug Target Commons: A Community Effort to Build a Consensus Knowledge Base for Drug-Target Interactions
Tang, J., Tanoli, Z-R., Ravikumar, B., Alam, Z., Rebane, A., Vähä-Koskela, M., Peddinti, G., van Adrichem, A. J., Wakkinen, J., Jaiswal, A., Karjalainen, E., Gautam, P., He, L., Parri, E., Khan, S., Gupta, A., Ali, M., Yetukuri, L., Gustavsson, A-L., Seashore-Ludlow, B. & 6 others, 15 Feb 2018, In : Cell chemical biology. 25, 2, p. 224-+ 8 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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Drug Target Commons 2.0: a community platform for systematic analysis of drug target interaction profiles
Tanoli, Z., Alam, Z., Vähä-Koskela, M., Ravikumar, B., Malyutina, A., Jaiswal, A., Tang, J., Wennerberg, K. & Aittokallio, T., 13 Sep 2018, In : Database-The journal of biological databases and curation. 13 p., 083.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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Eltrombopag Promotes Megakaryocyte Survival and Signaling in the Presence of Specific Cytotoxic Agents
Javarappa, K. K., Tsallos, D., Zagidullin, B., Saad, J., Tang, J., Ramos, P. M., Pallaud, C. & Heckman, C. A., 3 Dec 2018.Research output: Conference materials › Abstract › Research
Eltrombopag Promotes Megakaryocyte Survival and Signaling in the Presence of Specific Cytotoxic Agents
Javarappa, K. K., Tsallos, D., Zagidullin, B., Saad, J., Tang, J., Ramos, P. M., Pallaud, C. & Heckman, C. A., 2018, In : Blood. 132Research output: Contribution to journal › Meeting Abstract › Research › peer-review
Integrative bioinformatics of functional and genomic profiles for cancer systems medicine
Jaiswal, A., 2018, Helsinki: Helsingin yliopisto. 80 p.Research output: Thesis › Doctoral Thesis › Collection of Articles
Loss-of-function mutations with circadian rhythm regulator Per1/Per2 lead to premature ovarian insufficiency\
Zheng, Y., Liu, C., Li, Y., Jiang, H., Yang, P., Tang, J., Xu, Y., Wang, H. & He, Y., 1 Nov 2018, In : Biology of Reproduction. 100, 4, p. 1066-1072 7 p.Research output: Contribution to journal › Article › Scientific › peer-review
Methods for High-throughput Drug Combination Screening and Synergy Scoring
He, L., Kulesskiy, E., Saarela, J. S., Turunen, L. L., Wennerberg, J. K., Aittokallio, T. A. & Tang, J., 2018, Cancer Systems Biology. von Stechow, L. (ed.). New York: Humana Press, p. 351-398 48 p. (Methods in molecular biology; no. 1711).Research output: Chapter in Book/Report/Conference proceeding › Chapter › Scientific › peer-review
Multi-Parametric Single Cell Profiling Defines Distinct Drug Responses in Healthy Hematological Cell Lineages That Are Retained in Corresponding Malignant Cell Types
Majumder, MM., Leppä, A-M., Hellesøy, M., Dowling, P., Malyutina, A., Bazou, D., Andersson, E. I., Parsons, A., Tang, J., Kallioniemi, O-P., Mustjoki, S. M., O'Gorman, P., Wennerberg, J. K., Porkka, K. V. K., Gjertsen, B-T. & Heckman, C. A., 2018, In : Blood. 132Research output: Contribution to journal › Meeting Abstract › Research › peer-review
Open Access
Patient-Customized Drug Combination Prediction and Testing for T-cell Prolymphocytic Leukemia Patients
He, L., Tang, J., Andersson, E. I., Timonen, S., Koschmieder, S., Wennerberg, K., Mustjoki, S. & Aittokallio, T., 1 May 2018, In : Cancer Research. 78, 9, p. 2407-2418 12 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
File
Precision Treatment of Acute Myeloid Leukemia: Predictive Response Biomarkers for BET inhibitor JQ1
Saad, J., 27 Sep 2018, 63 p.Research output: Thesis › Master's thesis › Theses
Open Access
2017
A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines
Gönen, M., Weir, B. A., Cowley, G. S., Vazquez, F., Guan, Y., Jaiswal, A., Karasuyama, M., Uzunangelov, V., Wang, T., Tsherniak, A., Howell, S., Marbach, D., Hoff, B., Norman, T. C., Airola, A., Bivol, A., Bunte, K., Carlin, D., Chopra, S., Deran, A. & 26 others, 22 Nov 2017, In : Cell Systems. 5, 5, p. 485-+ 16 p.Research output: Contribution to journal › Article › Scientific › peer-review
Informatics Approaches for Predicting, Understanding, and Testing Cancer Drug Combinations
Tang, J., 2017, Kinase Signaling Networks. Tan, A-C. & Huang, P. H. (eds.). 1st ed. ed. New York: Humana Press, p. 485-506 22 p. ( Methods in Molecular Biology; vol. 1636).Research output: Chapter in Book/Report/Conference proceeding › Chapter › Scientific › peer-review
JAK1/2 and BCL2 inhibitors synergize to counteract bone marrow stromal cell-induced protection of AML
Karjalainen, R., Pemovska, T., Popa, M., Liu, M., Javarappa, K. K., Majumder, M. M., Yadav, B., Tamborero, D., Tang, J., Bychkov, D., Kontro, M., Parsons, A., Suvela, M., Safont, M. M., Porkka, K., Aittokallio, T., Kallioniemi, O., McCormack, E., Gjertsen, B. T., Wennerberg, K. & 2 others, 10 Aug 2017, In : Blood. 130, 6, p. 789-802 14 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
Seed-effect modeling improves the consistency of genome-wide loss-of-function screens and identifies synthetic lethal vulnerabilities in cancer cells
Jaiswal, A., Peddinti, G., Akimov, Y., Wennerberg, K., Kuznetsov, S., Tang, J. & Aittokallio, T., 1 Jun 2017, In : Genome medicine. 9, 15 p., 51.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
File
SynergyFinder: a web application for analyzing drug combination dose-response matrix data
Ianevski, A., He, L., Aittokallio, T. & Tang, J., 1 Aug 2017, In : Bioinformatics. 33, 15, p. 2413-2415 3 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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Systematic drug sensitivity testing reveals synergistic growth inhibition by dasatinib or mTOR inhibitors with paclitaxel in ovarian granulosa cell tumor cells
Haltia, U-M., Andersson, N., Yadav, B., Farkkila, A., Kulesskiy, E., Kankainen, M., Tang, J., Butzow, R., Riska, A., Leminen, A., Heikinheimo, M., Kallioniemi, O., Unkila-Kallio, L., Wennerberg, K., Aittokallio, T. & Anttonen, M., Mar 2017, In : Gynecologic Oncology. 144, 3, p. 621-630 10 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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The inconvenience of data of convenience: computational research beyond post-mortem analyses
Azencott, C-A., Aittokallio, T., Roy, S., Norman, T., Friend, S., Stolovitzky, G., Goldenberg, A., DREAM Idea Challenge Consortium & Tang, J., Oct 2017, In : Nature methods. 14, 10, p. 937-938 2 p.Research output: Contribution to journal › Article › Scientific
Treatment of novel IL17A inhibitor in glioblastoma implementing 3rd generation co-culture cell line and patient-derived tumor model
Khan, M. S. S., Asif, M., Basheer, M. K. A., Kang, C. W., Al-Suede, F. S., Ein, O. C., Tang, J., Majid, A. S. A. & Majid, A. M. S. A., 15 May 2017, In : European Journal of Pharmacology. 803, p. 24-38 15 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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2016
Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis
Sieberts, S. K., Zhu, F., Garcia-Garcia, J., Stahl, E., Pratap, A., Pandey, G., Pappas, D., Aguilar, D., Anton, B., Bonet, J., Eksi, R., Fornes, O., Guney, E., Li, H., Marin, M. A., Panwar, B., Planas-Iglesias, J., Poglayen, D., Cui, J., Falcao, A. O. & 31 others, Aug 2016, In : Nature Communications. 7, 9 p., 12460.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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2015
A Bayesian Predictive Model for Clustering Data of Mixed Discrete and Continuous Type
Blomstedt, P., Tang, J., Xiong, J., Granlund, C. & Corander, J., Mar 2015, In : IEEE Transactions on Pattern Analysis and Machine Intelligence. 37, 3, p. 489-498 10 p.Research output: Contribution to journal › Article › Scientific › peer-review
From drug response profiling to target addiction scoring in cancer cell models
Yadav, B., Gopalacharyulu, P., Pemovska, T., Khan, S. A., Szwajda, A., Tang, J., Wennerberg, K. & Aittokallio, T., Oct 2015, In : Disease Models & Mechanisms. 8, 10, p. 1255-1264 10 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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Network pharmacology applications to map the unexplored target space and therapeutic potential of natural products
Kibble, M., Saarinen, N., Tang, J., Wennerberg, K., Makela, S. & Aittokallio, T., 2015, In : Natural Product Reports. 32, 8, p. 1249-1266 18 p.Research output: Contribution to journal › Review Article › Scientific › peer-review
Searching for Drug Synergy in Complex Dose–Response Landscapes Using an Interaction Potency Model
Yadav, B., Wennerberg, K., Aittokallio, T. & Tang, J., 2015, In : Computational and Structural Biotechnology Journal. 13, p. 504 - 513 10 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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Systematic Mapping of Kinase Addiction Combinations in Breast Cancer Cells by Integrating Drug Sensitivity and Selectivity Profiles
Szwajda, A., Gautam, P., Karhinen, L., Jha, S. K., Saarela, J., Shakyawar, S., Turunen, L., Yadav, B., Tang, J., Wennerberg, K. & Aittokallio, T., 20 Aug 2015, In : Chemistry & Biology. 22, 8, p. 1144-1155 12 p.Research output: Contribution to journal › Article › Scientific › peer-review
TIMMA-R: an R package for predicting synergistic multi-targeted drug combinations in cancer cell lines or patient-derived samples
He, L., Wennerberg, K., Aittokallio, T. & Tang, J., 1 Jun 2015, In : Bioinformatics. 31, 11, p. 1866-1868 3 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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Toward more realistic drug-target interaction predictions
Pahikkala, T., Airola, A., Pietila, S., Shakyawar, S., Szwajda, A., Tang, J. & Aittokallio, T., Mar 2015, In : Briefings in Bioinformatics. 16, 2, p. 325-337 13 p.Research output: Contribution to journal › Article › Scientific › peer-review
What is synergy? The Saariselka agreement revisited
Tang, J., Wennerberg, K. & Aittokallio, T., 1 Sep 2015, In : Frontiers in Pharmacology. 6, 5 p., 181.Research output: Contribution to journal › Review Article › Scientific › peer-review
Open Access
File
2014
Making Sense of Large-Scale Kinase Inhibitor Bioactivity Data Sets: A Comparative and Integrative Analysis
Tang, J., Szwajda, A., Shakyawar, S., Xu, T., Hintsanen, P., Wennerberg, K. & Aittokallio, T., Mar 2014, In : Journal of Chemical Information and Modeling. 54, 3, p. 735-743 9 p.Research output: Contribution to journal › Article › Scientific › peer-review
Network Pharmacology Strategies Toward Multi-Target Anticancer Therapies: From Computational Models to Experimental Design Principles
Tang, J. & Aittokallio, T., Jan 2014, In : Current Pharmaceutical Design. 20, 1, p. 23-36 14 p.Research output: Contribution to journal › Article › Scientific › peer-review
2013
Genomic, Transcriptomic, and Lipidomic Profiling Highlights the Role of Inflammation in Individuals With Low High-density Lipoprotein Cholesterol
Laurila, P-P., Surakka, I., Sarin, A-P., Yetukuri, L., Hyotylainen, T., Söderlund, S., Naukkarinen, J., Tang, J., Kettunen, J., Mirel, D. B., Soronen, J., Lehtimaki, T., Ruokonen, A., Ehnholm, C., Eriksson, J. G., Salomaa, V., Jula, A., Raitakari, O. T., Jarvelin, M-R., Palotie, A. & 5 others, Apr 2013, In : Arteriosclerosis, Thrombosis, and Vascular Biology. 33, 4, p. 847-U510 39 p.Research output: Contribution to journal › Article › Scientific › peer-review
Target Inhibition Networks: Predicting Selective Combinations of Druggable Targets to Block Cancer Survival Pathways
Tang, J., Karhinen, L., Xu, T., Szwajda, A., Yadav, B., Wennerberg, K. & Aittokallio, T., Sep 2013, In : PLoS Computational Biology. 9, 9, p. Article Number: e1003226 16 p.Research output: Contribution to journal › Article › Scientific › peer-review
2012
Phospholipids and insulin resistance in psychosis: a lipidomics study of twin pairs discordant for schizophrenia
Oresic, M., Seppänen-Laakso, T., Sun, D., Tang, J., Therman, S., Viehman, R., Mustonen, U., van Erp, T. G. M., Hyötyläinen, T., Thompson, P., Toga, A. W., Huttunen, M. O., Suvisaari, J., Kaprio, J., Lönnqvist, J. & Cannon, T. D., 2012, In : Genome medicine. 4, 1, 11 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open Access
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2011
Association of Lipidome Remodeling in the Adipocyte Membrane with Acquired Obesity in Humans
Pietiläinen, K. H., Rog, T., Seppanen-Laakso, T., Virtue, S., Gopalacharyulu, P., Tang, J., Rodriguez-Cuenca, S., Maciejewski, A., Naukkarinen, J., Ruskeepaa, A-L., Niemela, P. S., Yetukuri, L., Tan, C. Y., Velagapudi, V., Castillo, S., Nygren, H., Hyotylainen, T., Rissanen, A., Kaprio, J., Yki-Järvinen, H. & 3 others, 2011, In : PLoS Biology. 9, 6, p. - 14 p.Research output: Contribution to journal › Article › Scientific › peer-review
Metabolome in schizophrenia and other psychotic disorders: a general population study.
Orešič, M., Tang, J., Seppänen-Laakso, T., Mattila, I., Saarni, S. E. M., Saarni, S. I., Lönnqvist, J., Sysiaho, M., Hyotylainen, T., Perala, J. & Suvisaari, J., 2011, In : Genome medicine. 3, 19, 14 p.Research output: Contribution to journal › Article › Scientific › peer-review
2009
Bayesian clustering of fuzzy feature vectors using a quasi-likelihood approach
Marttinen, P., Tang, J., De Baets, B., Dawyndt, P. & Corander, J., 2009, In : IEEE Transactions on Pattern Analysis and Machine Intelligence. 31, 1, p. 74-85 12 p.Research output: Contribution to journal › Article › Scientific › peer-review
Hyper-Recombination, Diversity, and Antibiotic Resistance in Pneumococcus
Hanage, W. P., Fraser, C., Tang, J., Connor, T. R. & Corander, J., 2009, In : Science. 324, 5933, p. 1454-1457 4 p.Research output: Contribution to journal › Article › Scientific › peer-review
Identifying currents in the gene pool for bacterial populations using an integrative approach
Tang, J., Hanage, W., Fraser, C. & Corander, J., 2009, In : PLoS Computational Biology. 5, 8, p. e1000455 18 p.Research output: Contribution to journal › Article › Scientific › peer-review
Integrating post-genomic approaches as a strategy to advance our understanding of health and disease
Tang, J., Tan, C., Oresic, M. & Vidal-Puig, A., 2009, In : Genome medicine. 1, 3, p. 35 1 p.Research output: Contribution to journal › Article › Scientific › peer-review
2008
Enhanced Bayesian modelling in BAPS software for learning genetic structures of populations
Corander, J., Marttinen, P., Siren, J. & Tang, J., 2008, In : BMC Bioinformatics. 9, 14 p.Research output: Contribution to journal › Article › Scientific › peer-review
2007
Bayesian analysis of population structure based on linked molecular information
Corander, J. & Tang, J., 2007, In : Mathematical Biosciences. 205, 1, p. 19-31 13 p.Research output: Contribution to journal › Article › Scientific › peer-review
T-BAPS: A bayesian statistical tool for comparison of microbial communities using terminal-restriction fragment length polymorphism (T-RFLP) data
Tang, J., Tao, J., Urakawa, H. & Corander, J., 2007, In : Statistical applications in genetics and molecular biology. 6, 1, p. Article 30 20 p.Research output: Contribution to journal › Article › Scientific › peer-review