Publications

Journal Articles

• Wang DD., Katoch M., Jabari S., Blümcke I., Blumenthal DB., Lu DH., Coras R., Wang YJ., Shi J., Zhou WJ., Kobow K., Piao YS.:
  Correction to: The specific DNA methylation landscape in focal cortical dysplasia ILAE type 3D (Acta Neuropathologica Communications, (2023), 11, 1, (129), 10.1186/s40478-023-01618-6)
  In: Acta Neuropathologica Communications 12 (2024), Article No.: 49
  ISSN: 2051-5960
  DOI: 10.1186/s40478-024-01752-9
• Sarkar S., Wu T., Harwood M., Silva AC.:
  A Transfer Learning-Based Framework for Classifying Lymph Node Metastasis in Prostate Cancer Patients
  In: Biomedicines 12 (2024), Article No.: 2345
  ISSN: 2227-9059
  DOI: 10.3390/biomedicines12102345
• Hoffmann M., Poschenrieder JM., Incudini M., Baier S., Fritz A., Maier A., Hartung M., Hoffmann C., Trummer N., Adamowicz K., Picciani M., Scheibling E., Harl MV., Lesch I., Frey H., Kayser S., Wissenberg P., Schwartz L., Hafner L., Acharya A., Hackl L., Grabert G., Lee SG., Cho G., Cloward ME., Jankowski J., Lee HK., Tsoy O., Wenke N., Pedersen AG., Bønnelykke K., Mandarino A., Melograna F., Schulz L., Climente-González H., Wilhelm M., Iapichino L., Wienbrandt L., Ellinghaus D., Van Steen K., Grossi M., Furth PA., Hennighausen L., Di Pierro A., Baumbach J., Kacprowski T., List M., Blumenthal DB.:
  Network medicine-based epistasis detection in complex diseases: Ready for quantum computing
  In: Nucleic Acids Research 52 (2024), p. 10144-10160
  ISSN: 0305-1048
  DOI: 10.1093/nar/gkae697
• Giurgiu M., Wittstruck N., Rodriguez-Fos E., González RC., Brückner L., Krienelke-Szymansky A., Helmsauer K., Hartebrodt A., Euskirchen P., Koche RP., Haase K., Reinert K., Henssen AG.:
  Reconstructing extrachromosomal DNA structural heterogeneity from long-read sequencing data using Decoil
  In: Genome Research 34 (2024), p. 1355-1364
  ISSN: 1088-9051
  DOI: 10.1101/gr.279123.124
• Bernett J., Blumenthal DB., Grimm DG., Haselbeck F., Joeres R., Kalinina OV., List M.:
  Guiding questions to avoid data leakage in biological machine learning applications
  In: Nature Methods 21 (2024), p. 1444-1453
  ISSN: 1548-7091
  DOI: 10.1038/s41592-024-02362-y
• Maier A., Hartung M., Abovsky M., Adamowicz K., Bader GD., Baier S., Blumenthal DB., Chen J., Elkjaer ML., Garcia-Hernandez C., Helmy M., Hoffmann M., Jurisica I., Kotlyar M., Lazareva O., Levi H., List M., Lobentanzer S., Loscalzo J., Malod-Dognin N., Manz Q., Matschinske J., Mee M., Oubounyt M., Pastrello C., Pico AR., Pillich RT., Poschenrieder JM., Pratt D., Pržulj N., Sadegh S., Saez-Rodriguez J., Sarkar S., Shaked G., Shamir R., Trummer N., Turhan U., Wang RS., Zolotareva O., Baumbach J.:
  Drugst.One - a plug-and-play solution for online systems medicine and network-based drug repurposing
  In: Nucleic Acids Research 52 (2024), p. W481-W488
  ISSN: 0305-1048
  DOI: 10.1093/nar/gkae388
• Bernett J., Blumenthal DB., List M.:
  Cracking the black box of deep sequence-based protein-protein interaction prediction
  In: Briefings in Bioinformatics 25 (2024), Article No.: bbae076
  ISSN: 1467-5463
  DOI: 10.1093/bib/bbae076
• Kersting J., Lazareva O., Louadi Z., Baumbach J., Blumenthal DB., List M.:
  DysRegNet: Patient-specific and confounder-aware dysregulated network inference towards precision therapeutics
  In: British Journal of Pharmacology (2024)
  ISSN: 0007-1188
  DOI: 10.1111/bph.17395
  URL: https://bpspubs.onlinelibrary.wiley.com/doi/10.1111/bph.17395
• Khnaisser C., Hamrouni H., Blumenthal DB., Dignös A., Gamper J.:
  Efficiently Labeling and Retrieving Temporal Anomalies in Relational Databases
  In: Information Systems Frontiers (2024)
  ISSN: 1387-3326
  DOI: 10.1007/s10796-024-10495-w
• Blumenthal DB., Lucchetta M., Kleist L., Fekete SP., List M., Schaefer MH.:
  Emergence of power law distributions in protein-protein interaction networks through study bias
  In: eLife 13 (2024), Article No.: e99951
  ISSN: 2050-084X
  DOI: 10.7554/eLife.99951
• Hartebrodt A., Röttger R., Blumenthal DB.:
  Federated singular value decomposition for high-dimensional data
  In: Data Mining and Knowledge Discovery 38 (2024), p. 938 - 975
  ISSN: 1573-756X
  DOI: 10.1007/s10618-023-00983-z
• Galindez G., List M., Baumbach J., Völker U., Mäder U., Blumenthal DB., Kacprowski T.:
  Inference of differential gene regulatory networks using boosted differential trees
  In: Bioinformatics Advances 4 (2024), Article No.: vbae034
  ISSN: 2635-0041
  DOI: 10.1093/bioadv/vbae034
• Sarkar S., Möller A., Hartebrodt A., Erdmann M., Ostalecki C., Baur A., Blumenthal DB.:
  Spatial cell graph analysis reveals skin tissue organization characteristic for cutaneous T cell lymphoma
  In: npj Systems Biology and Applications 10 (2024), Article No.: 143
  ISSN: 2056-7189
  DOI: 10.1038/s41540-024-00474-x
• Menche C., Schuhwerk H., Armstark I., Gupta P., Fuchs K., van Roey R., Mosa MH., Hartebrodt A., Hajjaj Y., Clavel Ezquerra A., Selvaraju MK., Geppert CI., Bärthel S., Saur D., Greten FR., Brabletz S., Blumenthal DB., Weigert A., Brabletz T., Farin HF., Stemmler MP.:
  ZEB1-mediated fibroblast polarization controls inflammation and sensitivity to immunotherapy in colorectal cancer
  In: EMBO Reports (2024)
  ISSN: 1469-221X
  DOI: 10.1038/s44319-024-00186-7

Conference Contributions

• Sirocchi C., Suffian M., Sabbatini F., Bogliolo A., Montagna S.:
  Evaluating Machine Learning Models against Clinical Protocols for Enhanced Interpretability and Continuity of Care
  First Workshop on Explainable Artificial Intelligence for the Medical Domain (EXPLIMED 2024) (Santiago de Compostela, 20/10/2024 - 20/10/2024)
  In: Gianluca Zaza, Gabriella Casalino, Giovanna Castellano (ed.): Proceedings of the First Workshop on Explainable Artificial Intelligence for the Medical Domain (EXPLIMED 2024) co-located with 27th European Conference on Artificial Intelligence (ECAI 2024), Aachen: 2024
  Open Access: https://ceur-ws.org/Vol-3831/paper15.pdf
  URL: https://ceur-ws.org/Vol-3831/paper15.pdf
• Sirocchi C., Montagna S.:
  Integrating Symbolic Knowledge and Machine Learning in Healthcare
  8th International Joint Conference on Rules and Reasoning (Bucharest, 16/09/2024 - 18/09/2024)
  In: Anisa Rula, Emanuel Sallinger, Ognjen Savkovic, Ioana Georgiana Ciuciu, Ioan Toma, Josiane Xavier Parreira, Radu Prodan, Hui Song, Ahmet Soylu (ed.): Companion Proceedings of the 8th International Joint Conference on Rules and Reasoning co-located with 20th Reasoning Web Summer School (RW 2024) as part of Declarative AI 2024, Aachen: 2024
  Open Access: https://ceur-ws.org/Vol-3816/paper45.pdf
  URL: https://ceur-ws.org/Vol-3816/paper45.pdf
• Montagna S., Sirocchi C.:
  Hybrid Personal Medical Digital Assistant Agents
  25th Workshop "From Objects to Agents", WOA 2024 (Bard, 08/07/2024 - 10/07/2024)
  In: Marco Alderighi, Matteo Baldoni, Cristina Baroglio, Roberto Micalizio, Stefano Tedeschi (ed.): Hybrid Personal Medical Digital Assistant Agents, Aachen: 2024
  Open Access: https://ceur-ws.org/Vol-3735/paper_05.pdf
  URL: https://ceur-ws.org/Vol-3735/paper_05.pdf
• Sabbatini F., Sirocchi C., Calegari R.:
  Symbolic Knowledge Comparison: Metrics and Methodologies for Multi-Agent Systems
  25th Workshop “From Objects to Agents” WOA (Bard, 08/07/2024 - 10/07/2024)
  In: Marco Alderighi, Matteo Baldoni, Cristina Baroglio, Roberto Micalizio, Stefano Tedeschi (ed.): Proceedings of the 25th Workshop "From Objects to Agents", Aachen: 2024
  Open Access: https://ceur-ws.org/Vol-3735/paper_17.pdf
  URL: https://ceur-ws.org/Vol-3735/paper_17.pdf
• Giurgiu M., Wittstruck N., Rodriguez-Fos E., González RC., Brückner L., Krienelke-Szymansky A., Helmsauer K., Hartebrodt A., Euskirchen P., Koche RP., Haase K., Reinert K., Henssen AG.:
  Decoil: Reconstructing Extrachromosomal DNA Structural Heterogeneity from Long-Read Sequencing Data
  28th International Conference on Research in Computational Molecular Biology, RECOMB 2024 (Cambridge, MA, 29/04/2024 - 02/05/2024)
  In: Jian Ma (ed.): Research in Computational Molecular Biology. 28th Annual International Conference, RECOMB 2024, Cambridge, MA, USA, April 29–May 2, 2024, Proceedings, Cham: 2024
  DOI: 10.1007/978-1-0716-3989-4_41
• Maier A., Rafiei M., Anastasi E., Zolotareva O., Skelton J., Elkjaer ML., Casas AI., Nogales C., Schmidt HHHW., Kacprowski T., Blumenthal DB., Wipat A., Sadegh S., Baumbach J.:
  NeDRex-Web: An Interactive Web Tool for Drug Repurposing by Exploring Heterogeneous Molecular Networks
  2024 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2024
  DOI: 10.1109/BIBM62325.2024.10822390

Journal Articles

• Gärttner S., Frank F., Woller F., Meier A., Ray N.:
  Estimating relative diffusion from 3D micro-CT images using CNNs
  In: Artificial Intelligence in Geosciences 4 (2023), p. 199-208
  ISSN: 2666-5441
  DOI: 10.1016/j.aiig.2023.11.001
• Sadegh S., Skelton J., Anastasi E., Maier A., Adamowicz K., Möller A., Kriege NM., Kronberg J., Haller T., Kacprowski T., Wipat A., Baumbach J., Blumenthal DB.:
  Lacking mechanistic disease definitions and corresponding association data hamper progress in network medicine and beyond
  In: Nature Communications 14 (2023), Article No.: 1662
  ISSN: 2041-1723
  DOI: 10.1038/s41467-023-37349-4
• Wang DD., Katoch M., Jabari S., Blümcke I., Blumenthal DB., Lu DH., Coras R., Wang YJ., Shi J., Zhou WJ., Kobow K., Piao YS.:
  The specific DNA methylation landscape in focal cortical dysplasia ILAE type 3D
  In: Acta Neuropathologica Communications 11 (2023), Article No.: 129
  ISSN: 2051-5960
  DOI: 10.1186/s40478-023-01618-6
• Sarkar S., Lucchetta M., Maier A., Abdrabbou MMM., Baumbach J., List M., Schaefer MH., Blumenthal DB.:
  Online bias-aware disease module mining with ROBUST-Web
  In: Bioinformatics 35 (2023), Article No.: btad345
  ISSN: 1367-4803
  DOI: 10.1093/bioinformatics/btad345
• Hoffmann M., Trummer N., Schwartz L., Jankowski J., Lee HK., Willruth LL., Lazareva O., Yuan K., Baumgarten N., Schmidt F., Baumbach J., Schulz MH., Blumenthal DB., Hennighausen L., List M.:
  TF-Prioritizer: a Java pipeline to prioritize condition-specific transcription factors
  In: GigaScience 12 (2023), Article No.: giad026
  ISSN: 2047-217X
  DOI: 10.1093/gigascience/giad026
• Sarkar S., Min K., Ikram W., Tatton RW., Riaz IB., Silva AC., Bryce AH., Moore C., Ho TH., Sonpavde G., Abdul-Muhsin HM., Singh P., Wu T.:
  Performing Automatic Identification and Staging of Urothelial Carcinoma in Bladder Cancer Patients Using a Hybrid Deep-Machine Learning Approach
  In: Cancers 15 (2023), Article No.: 1673
  ISSN: 2072-6694
  DOI: 10.3390/cancers15061673
• Ketteler A., Blumenthal DB.:
  Demographic confounders distort inference of gene regulatory and gene co-expression networks in cancer
  In: Briefings in Bioinformatics 24 (2023), Article No.: bbad413
  ISSN: 1467-5463
  DOI: 10.1093/bib/bbad413
• Gerlach L., Blumenthal DB.:
  On the role of network topology in German-Jewish recommendation letter networks in the early twentieth century
  In: Applied Network Science 8 (2023), Article No.: 24
  ISSN: 2364-8228
  DOI: 10.1007/s41109-023-00550-x
• Hartebrodt A., Röttger R.:
  Privacy of Federated QR Decomposition Using Additive Secure Multiparty Computation
  In: IEEE Transactions on Information Forensics and Security 18 (2023), p. 5122-5132
  ISSN: 1556-6013
  DOI: 10.1109/TIFS.2023.3301710
• Boria N., Kiederle J., Yger F., Blumenthal DB.:
  The edge-preservation similarity for comparing rooted, unordered, node-labeled trees
  In: Pattern Recognition Letters 167 (2023), p. 189-195
  ISSN: 0167-8655
  DOI: 10.1016/j.patrec.2023.02.017

Journal Articles

• Adamowicz K., Maier A., Baumbach J., Blumenthal DB.:
  Online in silico validation of disease and gene sets, clusterings or subnetworks with DIGEST
  In: Briefings in Bioinformatics (2022)
  ISSN: 1467-5463
  DOI: 10.1093/bib/bbac247
  URL: https://academic.oup.com/bib/advance-article/doi/10.1093/bib/bbac247/6618231?guestAccessKey=e1b9455f-ac28-4d46-af6d-c51b3b98cc8d
• Blumenthal DB., Bougleux S., Dignoes A., Gamper J.:
  Enumerating dissimilar minimum cost perfect and error-correcting bipartite matchings for robust data matching
  In: Information Sciences 596 (2022), p. 202-221
  ISSN: 0020-0255
  DOI: 10.1016/j.ins.2022.03.017
• Torkzadehmahani R., Nasirigerdeh R., Blumenthal DB., Kacprowski T., List M., Matschinske J., Spaeth J., Wenke NK., Baumbach J.:
  Privacy-Preserving Artificial Intelligence Techniques in Biomedicine
  In: Methods of Information in Medicine (2022)
  ISSN: 0026-1270
  DOI: 10.1055/s-0041-1740630
• Bernett J., Krupke D., Sadegh S., Baumbach J., Fekete SP., Kacprowski T., List M., Blumenthal DB.:
  Robust disease module mining via enumeration of diverse prize-collecting Steiner trees
  In: Bioinformatics 38 (2022), p. 1600-1606
  ISSN: 1367-4803
  DOI: 10.1093/bioinformatics/btab876
  URL: https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btab876/6497106?guestAccessKey=27c2a19b-11b5-4c3c-88d5-f1131e3809a9

Conference Contributions

• Khnaisser C., Hamrouni H., Blumenthal DB., Dignoes A., Gamper J.:
  Querying Temporal Anomalies in Healthcare Information Systems and Beyond
  26th European Conference on Advances in Databases and Information Systems (ADBIS 2022) (Turin, 05/09/2022 - 08/09/2022)
  In: Chiusano S, Cerquitelli T, Wrembel R (ed.): Advances in Databases and Information Systems (ADBIS 2022), Cham: 2022
  DOI: 10.1007/978-3-031-15740-0_16

Journal Articles

• Zolotareva O., Nasirigerdeh R., Matschinske J., Torkzadehmahani R., Bakhtiari M., Frisch T., Spaeth J., Blumenthal DB., Abbasinejad A., Tieri P., Kaissis G., Rueckert D., Wenke NK., List M., Baumbach J.:
  Flimma: a federated and privacy-aware tool for differential gene expression analysis
  In: Genome Biology 22 (2021), Article No.: 338
  ISSN: 1474-760X
  DOI: 10.1186/s13059-021-02553-2
• Sadegh S., Skelton J., Anastasi E., Bernett J., Blumenthal DB., Galindez G., Salgado-Albarran M., Lazareva O., Flanagan K., Cockell S., Nogales C., Casas AI., Schmidt HHHW., Baumbach J., Wipat A., Kacprowski T.:
  Network medicine for disease module identification and drug repurposing with the NeDRex platform
  In: Nature Communications 12 (2021), Article No.: 6848
  ISSN: 2041-1723
  DOI: 10.1038/s41467-021-27138-2
• Lazareva O., Baumbach J., List M., Blumenthal DB.:
  On the limits of active module identification
  In: Briefings in Bioinformatics 22 (2021), Article No.: bbab066
  ISSN: 1467-5463
  DOI: 10.1093/bib/bbab066
  URL: https://academic.oup.com/bib/advance-article/doi/10.1093/bib/bbab066/6189770?guestAccessKey=1be406a0-6b26-4e15-b32b-505c1ea2b279
• Blumenthal DB., Boria N., Bougleux S., Brun L., Gamper J., Gaüzère B.:
  Scalable generalized median graph estimation and its manifold use in bioinformatics, clustering, classification, and indexing
  In: Information Systems 100 (2021), Article No.: 101766
  ISSN: 0306-4379
  DOI: 10.1016/j.is.2021.101766
• Matschinske J., Benis A., Alcaraz N., Golebiewski M., Grimm DG., Heumos L., Kacprowski T., Lazareva O., List M., Louadi Z., Pauling JK., Pfeifer N., Röttger R., Schwämmle V., Sturm G., Traverso A., Van Steen K., de Freitas MV., Villalba Silva GC., Wee L., Wenke NK., Zanin M., Zolotareva O., Baumbach J., Blumenthal DB.:
  The AIMe registry for artificial intelligence in biomedical research
  In: Nature Methods 18 (2021), p. 1128 - 1131
  ISSN: 1548-7091
  DOI: 10.1038/s41592-021-01241-0
  URL: https://rdcu.be/cv5H7
• Blumenthal DB., Gamper J., Bougleux S., Brun L.:
  Upper Bounding Graph Edit Distance Based on Rings and Machine Learning
  In: International Journal of Pattern Recognition and Artificial Intelligence (2021), Article No.: 2151008
  ISSN: 0218-0014
  DOI: 10.1142/S0218001421510083

Conference Contributions

• Nasirigerdeh R., Torkzadehmahani R., Baumbach J., Blumenthal DB.:
  On the Privacy of Federated Pipelines
  The 44th International ACM SIGIR Conference on Research and Development in Information Retrieval (SIGIR '21) (Virtual Event, 11/07/2021 - 15/07/2021)
  In: Proceedings of the 44th International ACM SIGIR Conference on Research and Development in Information Retrieval (SIGIR '21), New York, NY, USA: 2021
  DOI: 10.1145/3404835.3462996
• Hartebrodt A., Nasirigerdeh R., Blumenthal DB., Röttger R.:
  Federated Principal Component Analysis for Genome-Wide Association Studies
  21st IEEE International Conference on Data Mining (ICDM) (Auckland, New Zealand, 07/12/2021 - 10/12/2021)
  In: 21st IEEE International Conference on Data Mining (ICDM) 2021
  DOI: 10.1109/ICDM51629.2021.00127
• Bause F., Blumenthal DB., Schubert E., Kriege NM.:
  Metric Indexing for Graph Similarity Search
  14th International Conference on Similarity Search and Applications (SISAP 2021) (Dortmund, 29/09/2021 - 01/10/2021)
  In: Reyes N, Connor R, Kriege N, Kazempour D, Bartolini I, Schubert E, Chen J (ed.): Proceedings of the 14th International Conference on Similarity Search and Applications (SISAP 2021), Cham: 2021
  DOI: 10.1007/978-3-030-89657-7_24
• Gnecco L., Boria N., Bougleux S., Yger F., Blumenthal DB.:
  The Minimum Edit Arborescence Problem and Its Use in Compressing Graph Collections
  14th International Conference on Similarity Search and Applications (SISAP 2021) (Dortmund, 29/09/2021 - 01/10/2021)
  In: Reyes N, Connor R, Kriege N, Kazempour D, Bartolini I, Schubert E, Chen J (ed.): Proceedings of the 14th International Conference on Similarity Search and Applications (SISAP 2021), Cham: 2021
  DOI: 10.1007/978-3-030-89657-7_25

Journal Articles

• Sadegh S., Matschinske J., Blumenthal DB., Galindez G., Kacprowski T., List M., Nasirigerdeh R., Oubounyt M., Pichlmair A., Rose TD., Salgado-Albarran M., Spaeth J., Stukalov A., Wenke NK., Yuan K., Pauling JK., Baumbach J.:
  Exploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing
  In: Nature Communications 11 (2020), Article No.: 3518
  ISSN: 2041-1723
  DOI: 10.1038/s41467-020-17189-2
• Matschinske J., Salgado-Albarran M., Sadegh S., Bongiovanni D., Baumbach J., Blumenthal DB.:
  Individuating Possibly Repurposable Drugs and Drug Targets for COVID-19 Treatment through Hypothesis-Driven Systems Medicine Using CoVex
  In: Assay and Drug Development Technologies 18 (2020), p. 348-355
  ISSN: 1540-658X
  DOI: 10.1089/adt.2020.1010
• Blumenthal DB., Viola L., List M., Baumbach J., Tieri P., Kacprowski T.:
  EpiGEN: An epistasis simulation pipeline
  In: Bioinformatics 36 (2020), p. 4957-4959
  ISSN: 1367-4803
  DOI: 10.1093/bioinformatics/btaa245
  URL: https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btaa245/5820008?guestAccessKey=2385c5f1-6587-4065-b2f2-1039765fa5b6
• Helmer S., Blumenthal DB., Paschen K.:
  What is meaningful research and how should we measure it?
  In: Scientometrics 125 (2020), p. 153-169
  ISSN: 0138-9130
  DOI: 10.1007/s11192-020-03649-5
• Lazareva O., Canzar S., Yuan K., Baumbach J., Blumenthal DB., Tieri P., Kacprowski T., List M.:
  BiCoN: Network-constrained biclustering of patients and omics data
  In: Bioinformatics 37 (2020), p. 2398 - 2404
  ISSN: 1367-4803
  DOI: 10.1093/bioinformatics/btaa1076
  URL: https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btaa1076/6050718?guestAccessKey=e2e9cb2b-ac3d-44a6-abc7-2b92ae15d34c
• Blumenthal DB., Baumbach J., Hoffmann M., Kacprowski T., List M.:
  A framework for modeling epistatic interaction
  In: Bioinformatics 37 (2020), p. 1708 - 1716
  ISSN: 1367-4803
  DOI: 10.1093/bioinformatics/btaa990
  URL: https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btaa990/6012351?guestAccessKey=4683fb7f-7afc-4b9c-b0d5-3d0085904eb4
• Bougleux S., Gauzere B., Blumenthal DB., Brun L.:
  Fast linear sum assignment with error-correction and no cost constraints
  In: Pattern Recognition Letters 134 (2020), p. 37-45
  ISSN: 0167-8655
  DOI: 10.1016/j.patrec.2018.03.032
• Blumenthal DB., Gamper J.:
  On the exact computation of the graph edit distance
  In: Pattern Recognition Letters 134 (2020), p. 46-57
  ISSN: 0167-8655
  DOI: 10.1016/j.patrec.2018.05.002
• Blumenthal DB., Boria N., Gamper J., Bougleux S., Brun L.:
  Comparing heuristics for graph edit distance computation
  In: Vldb Journal 29 (2020), p. 419-458
  ISSN: 1066-8888
  DOI: 10.1007/s00778-019-00544-1
• Chondrogiannis T., Bouros P., Gamper J., Leser U., Blumenthal DB.:
  Finding k-shortest paths with limited overlap
  In: Vldb Journal (2020)
  ISSN: 1066-8888
  DOI: 10.1007/s00778-020-00604-x
• Boria N., Blumenthal DB., Bougleux S., Brun L.:
  Improved local search for graph edit distance
  In: Pattern Recognition Letters 129 (2020), p. 19-25
  ISSN: 0167-8655
  DOI: 10.1016/j.patrec.2019.10.028

Journal Articles

• Blumenthal DB., Gamper J.:
  Improved lower bounds for graph edit distance
  In: IEEE Transactions on Knowledge and Data Engineering 30 (2018), p. 503-516
  ISSN: 1041-4347
  DOI: 10.1109/TKDE.2017.2772243

Conference Contributions

• Blumenthal DB., Daller E., Bougleux S., Brun L., Gamper J.:
  Quasimetric Graph Edit Distance as a Compact Quadratic Assignment Problem
  24th International Conference on Pattern Recognition, ICPR 2018 (Beijing, 20/08/2018 - 24/08/2018)
  In: Proceedings - International Conference on Pattern Recognition 2018
  DOI: 10.1109/ICPR.2018.8546055
• Chondrogiannis T., Bouros P., Gamper J., Leser U., Blumenthal DB.:
  Finding k-dissimilar paths with minimum collective length
  26th ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems, ACM SIGSPATIAL GIS 2018 (Seattle, WA, 06/11/2018 - 09/11/2018)
  In: Li Xiong, Roberto Tamassia, Kashani Farnoush Banaei, Ralf Hartmut Guting, Erik Hoel (ed.): GIS: Proceedings of the ACM International Symposium on Advances in Geographic Information Systems 2018
  DOI: 10.1145/3274895.3274903
• Blumenthal DB., Bougleux S., Gamper J., Brun L.:
  Ring based approximation of graph edit distance
  Joint IAPR International Workshops on Structural and Syntactic Pattern Recognition, SSPR 2018 and Statistical Techniques in Pattern Recognition, SPR 2018 (Beijing, 17/08/2018 - 19/08/2018)
  In: Edwin R. Hancock, Tin Kam Ho, Battista Biggio, Richard C. Wilson, Antonio Robles-Kelly, Xiao Bai (ed.): Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2018
  DOI: 10.1007/978-3-319-97785-0_28

Conference Contributions

• Blumenthal DB., Gamper J.:
  Correcting and speeding-up bounds for non-uniform graph edit distance
  33rd IEEE International Conference on Data Engineering, ICDE 2017 (San Diego, CA, 19/04/2017 - 22/04/2017)
  In: Proceedings - International Conference on Data Engineering 2017
  DOI: 10.1109/ICDE.2017.57
• Blumenthal DB., Gamper J.:
  Exact computation of graph edit distance for uniform and non-uniform metric edit costs
  11th IAPR-TC-15 International Workshop on Graph-Based Representations in Pattern Recognition, GbRPR 2017 (Anacapri, ITA, 16/05/2017 - 18/05/2017)
  In: Pasquale Foggia, Mario Vento, Cheng-Lin Liu (ed.): Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 2017
  DOI: 10.1007/978-3-319-58961-9_19