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Seminars

  1. 14-01-2025: Metabocrates, Joanna Pokora and Krystyna Grzesiak.
  2. 07-01-2025: BioGenies plans for 2025, Michał Burdukiewicz.
  3. 17-12-2024: BioGenies year 2024 summary, Jarek Chilimoniuk.
  4. 26-11-2024: Our self-presentations part 2, BioGenies.
  5. 19-11-2024: Our self-presentations, BioGenies.
  6. 12-11-2024: OneTick, Michał Burdukiewicz.
  7. 04-11-2024: just talking and having fun.
  8. 30-09-2024:
  9. 23-09-2024: no seminar.
  10. 16-09-2024: no seminar.
  11. 09-09-2024: just talking and having fun.
  12. 02-09-2024: AmyloGraph 2.0 - data collection ideas, Michał Burdukiewicz.
  13. 26-08-2024: AmyloGraph 2.0 - project ideas, Michał Burdukiewicz.
  14. 19-08-2024: Funny stories, Weronika Puchała, Jakub Kołodziejczyk.
  15. 12-07-2024: BioGenies website ideas, Jarek Chilimoniuk.
  16. 05-07-2024: no seminar.
  17. 01-07-2024: Metabocrates, Filip Gaj | Pathway analysis tailored for metabolomic data, Joanna Pokora.
  18. 24-06-2024: no seminar.
  19. 17-06-2024: Miniatura grant, Michał Burdukiewicz.
  20. 16-06-2024: Long lack of planned seminars because Michał was traveling and other things.
  21. 08-01-2024: BioGenies in 2024, Michał Burdukiewicz.
  22. 18-12-2023: THE SEMINAR, Oriol Bárcenas.
  23. 20-11-2023: Robust dataset generation and feature characterization for the specific prediction and benchmarking of client and driver proteins in LLPS, Carlos Pintado-Grima.
  24. 13-11-2023: Deep neural networks (Understanding Deep Learning, Chapter 8), Jakub Kała.
  25. 04-11-2023: no seminar.
  26. 30-10-2023: BioGenies update #10, Michal Burdukiewicz.
  27. 23-10-2023: Cracking the black box of deep sequence-based protein-protein interaction prediction, Judith Bernett.
  28. 16-10-2023: Cracking the black box of deep sequence-based protein-protein interaction prediction (pre-print comments), Jarosław Chilimoniuk.
  29. 09-10-2023: Analysis of amyloid-amyloid interaction networks, Laura Bąkała.
  30. 02-10-2023: Tree of science, Michał Burdukiewicz.
  31. 25-09-2023: Deep neural networks (Understanding Deep Learning, Chapter 7), Jakub Kała.
  32. 18-09-2023: Symptome Checkers, Michał Burdukiewicz.
  33. 11-09-2023: Deep neural networks (Understanding Deep Learning, Chapter 6), Jakub Kała.
  34. 21-08-2023: Copernican Revolution, Michał Burdukiewicz.
  35. 18-08-2023: BioGenies: Year 3.
  36. 14-08-2023: no seminar, we move it to 18-08-2023.
  37. 07-08-2023: Deep neural networks (Understanding Deep Learning, Chapter 6), Jakub Kała.
  38. 31-07-2023: Deep neural networks (Understanding Deep Learning, Chapter 5): notebooks, Jakub Kała.
  39. 17-07-2023: BioGenies update #9, Michal Burdukiewicz.
  40. 10-07-2023: Deep neural networks (Understanding Deep Learning, Chapter 4): notebooks, Michal Burdukiewicz.
  41. 03-07-2023: Styles with Benefits. The StyloMetrix Vectors for Stylistic and Semantic Text Classification of Small-Scale Datasets and Different Sample Length, Inez Okulska.
  42. 26-06-2023: Shallow neural networks (Understanding Deep Learning, Chapter 3): notebooks, Jakub Kała.
  43. 19-06-2023: Shallow neural networks (Understanding Deep Learning, Chapter 3): notebooks, Jakub Kała. (Michał was not available)
  44. 12-06-2023: Shallow neural networks (Understanding Deep Learning, Chapter 3), Jakub Kała.
  45. 05-06-2023: Supervised learning (Understanding Deep Learning, Chapter 2), Michał Burdukiewicz.
  46. 19-05-2023: When quality does not matter: a curious case of the subplastid location prediction, Michał Burdukiewicz
  47. 12-05-2023: Grantopisanie, Michał Burdukiewicz.
  48. 17-04-2023 (maybe): Introduction to metabolomics, Michał Ciborowski (in Polish).
  49. 03-04-2023: Preludium to science, Jarosław Chilimoniuk & Krystyna Grzesiak.
  50. 27-03-2023: Prediction of adhesins, Katarzyna Sidorczuk.
  51. 20-03-2023: Imputomics, Jarosław Chilimoniuk.
  52. 13-03-2023: Introduction to metabolomics, Michał Ciborowski (in Polish).
  53. 06-03-2023:
  54. 27-02-2023:
  55. 20-02-2023: Mining the entire space of peptide sequences, Michał Burdukiewicz and Jakub Kała.
  56. 13-02-2023: A heuristic algorithm solving the mutual-exclusivity sorting problem, Alessandro Vinceti.
  57. 06-02-2023: Optimal ensemble selection, part 2, Michał Burdukiewicz.
  58. 30-01-2023: no seminar, only update.
  59. 23-01-2023: Optimal ensemble selection, Michał Burdukiewicz.
  60. 16-01-2023: Handcrafted versus non-handcrafted (self-supervised) features for the classification of antimicrobial peptides: complementary or redundant?, Carlos Alberto Brizuela Rodríguez.
  61. 10-01-2023: BioGenies in 2023.
  62. 12-12-2022: Handcrafted versus non-handcrafted (self-supervised) features for the classification of antimicrobial peptides: complementary or redundant?, Carlos Alberto Brizuela Rodríguez. only update.
  63. 05-12-2022: AMPLE: detection of antimicrobial peptides in metagenomic data Michał Burdukiewicz.
  64. 28-11-2022: Lessons from Poland Michał Burdukiewicz.
  65. 21-11-2022: no seminar, Michał is still networking in Warsaw.
  66. 14-11-2022: no seminar, Michał is networking in Warsaw.
  67. 07-11-2022: no seminar, Michał is networking in Białystok.
  68. 31-10-2022: Your scariest research BioGenies.
  69. 26-10-2022: no seminar, Michał is networking in Wrocław.
  70. 17-10-2022: Pitfalls of machine learning for peptide analysis, Michał Burdukiewicz.
  71. 10-10-2022: The dynamic landscape of peptide function prediction Oriol Bárcenas, Michał Burdukiewicz, Carlos Pintado-Grima.
  72. 03-10-2022: BioGenies update #8, Michał Burdukiewicz.
  73. 26-09-2022: DRAMP 3.0: an enhanced comprehensive data repository of antimicrobial peptides, Heng Zheng (MS Teams).
  74. 19-09-2022: no seminar, Michał has fun at the ECCB2022.
  75. 12-09-2022: no seminar, Michał has fun at the Barcelona Aggregation Training School.
  76. 05-09-2022: Optimal prediction of antimicrobial peptides, part 2, Michał Burdukiewicz.
  77. 29-08-2022: Optimal prediction of antimicrobial peptides, Michał Burdukiewicz.
  78. 22-08-2022: PlastoGram v2, Katarzyna Sidorczuk.
  79. 15-08-2022: Public holidays.
  80. 08-08-2022: PlastoGram v1, Katarzyna Sidorczuk.
  81. 02-08-2022: BioGenies update #7, Michał Burdukiewicz.
  82. 25-07-2022: Empirical Bayes functional models for hydrogen deuterium exchange mass spectrometry, Oliver M Crook.
  83. 18-07-2022: Transfer learning in proteins: evaluating novel protein learned representations for bioinformatics tasks, Emilio Fenoy.
  84. 11-07-2022: Do deep learning models make a difference in the identification of antimicrobial peptides?, Carlos Alberto Brizuela Rodríguez.
  85. 04-07-2022: Inside the web of science, Michał Burdukiewicz.
  86. 27-06-2022: golem, Dominik Rafacz & Gustav Meyrink.
  87. 20-06-2022: bookdown, Krystyna Grzesiak.
  88. 13-06-2022: no seminar, only update.
  89. 06-06-2022: no seminar, only update.
  90. 30-05-2022: Zastosowania zautomatyzowanej kuracji jakości danych w modelowaniu systemów immunoinformatycznych opartym na uczeniu maszynowym, Dominik Rafacz.
  91. 23-05-2022: no seminar, only update.
  92. 16-05-2022: Modularizing Shiny, Dominik Rafacz.
  93. 09-05-2022: Analiza wpływu czynników środowiskowych oraz zanieczyszczeńpowietrza na choroby układu otolaryngologicznego na podstawie kohorty wrocławskiej z 2015 roku, Dominik Nowakowski
  94. 25-04-2022: Shiny intro, Michał Burdukiewicz.
  95. 11-04-2022: Effective presentations, Mariusz Trojanowski.
  96. 04-04-2022: no seminar, only update.
  97. 28-03-2022: Peer-review principles, Michał Burdukiewicz.
  98. 21-03-2022: no seminar, only update.
  99. 14-03-2022: no seminar, only update.
  100. 07-03-2022: Michał talks about things, Michał Burdukiewicz.
  101. 02-03-2022: no seminar, only update.
  102. 16-02-2022: no seminar, only update.
  103. 09-02-2022: no seminar, only update.
  104. 02-02-2022: AmyloGraph: Michał nie umie w zarządzanie, Michał Burdukiewicz.
  105. 26-01-2022: protti: an R package for comprehensive data analysis of peptide- and protein-centric bottom-up proteomics data, Jan-Philipp Quast.
  106. 19-01-2022: New Year's Resolutions, Michał Burdukiewicz.
  107. 22-12-2021: Memomikołajki, BioGenies.
  108. 15-12-2021: BioGenies update #6, Michał Burdukiewicz.
  109. 08-12-2021: Molecular Insights into the Differential Dynamics of SARS-CoV-2 Variants of Concern (VOC), Nabanita Mandal.
  110. 01-12-2021: Applications of automated data quality curation in machine learning based modelling of immunoinformatic systems: Episode One, Dominik Rafacz.
  111. 24-11-2021: adhesiomeR, Katarzyna Sidorczuk.
  112. 17-11-2021: Peptipedia, David Medina-Ortiz (new time: 3 PM UTC+2).
  113. 10-11-2021: Building HMM and molecular docking analysis for the sensitive detection of anti-viral pneumonia antimicrobial peptides (AMPs), Olalekan Bakare.
  114. 03-11-2021: Blood-brain barrier peptides, Michał Burdukiewicz.
  115. 27-10-2021: LILOP 2.0: I am choosing my hair color, Michał Burdukiewicz.
  116. 20-10-2021: Poster session at IBB, BioGenies.
  117. 13-10-2021: My own github profile readme, Michał Burdukiewicz.
  118. 06-10-2021: Protein-peptide docking in the era of accurate structure-prediction, Sebastian Kmiecik.
  119. 29-09-2021: Why my research is bad?, Michał Burdukiewicz.
  120. 22-09-2021: no seminar, only update.
  121. 15-09-2021: AmyloGraph: a comprehensive database of amyloid-amyloid interactions, Michał Burdukiewicz.
  122. 08-09-2021: Novel project managment, Krystyna Grzesiak, Weronika Puchała.
  123. 01-09-2021: Wstęp do modeli liniowych, Krystyna Grzesiak.
  124. 25-08-2021: Next grants, Michał Burdukiewicz.
  125. 18-08-2021: Elevator pitch, BioGenies.
  126. 11-08-2021: Wstęp do wstępu do modeli liniowych, Krystyna Grzesiak.
  127. 04-08-2021: Is the human genome 3D structure an inherited trait?, Michał Łaźniewski.
  128. 28-07-2021: PlastoGram, Katarzyna Sidorczuk.
  129. 21-07-2021: How to eat ice cream?, Dominik Rafacz.
  130. 14-07-2021: BioGenies update #5: Year One, Michał Burdukiewicz.
  131. 12-07-2021: Computational modeling of protein-protein complexes with therapeutic binding proteins, Filip Radom.
  132. 07-07-2021: OpenPGX: a personalized approach to pharmacogenomics recommendations, Monika Krzyżanowska.
  133. 30-06-2021: Filtering k-mer matrices - master thesis, Jakub Kała.
  134. 23-06-2021: Genomics Platform@WUT conference.
  135. 16-06-2021: Comparing deuteration curves, Krystyna Grzesiak.
  136. 09-06-2021: no seminar, only update.
  137. 02-06-2021: Bioinformatic and experimental analyses of bacterial functional amyloids CsgA and CsgB, Jarosław Chilimoniuk.
  138. 26-05-2021: A3D 2.0 update for the prediction and optimization of protein solubility, Jordi Pujols, Valentín Iglesias.
  139. 19-05-2021: Comparing deuteration curves, Krystyna Grzesiak.
  140. 12-05-2021: LILO: a database of biological learners, Michał Burdukiewicz.
  141. 05-05-2021: Ocena jakości nadzorowanych metod uczenia klasyfikacji, Katarzyna Stapor.
  142. 28-04-2021: Comparing deuteration curves, Krystyna Grzesiak.
  143. 21-04-2021: ampir: an R package for fast genome-wide prediction of antimicrobial peptides, Legana C H W Fingerhut, Ira Cooke.
  144. 14-04-2021: no seminar, only update.
  145. 07-04-2021: Uncertainties in HDX-MS measurements, Weronika Puchała.
  146. 31-03-2021: BioGenies update #4, Michał Burdukiewicz.
  147. 24-03-2021: Improved metagenome binning and assembly using deep variational autoencoders, Simon Rasmussen.
  148. 17-03-2021: Filtering k-mer matrices - follow up, Jakub Kała.
  149. 10-03-2021: Filtering k-mer matrices, Jakub Kała.
  150. 03-03-2021: MegaGO: a fast yet powerful approach to assess functional gene ontology similarity across meta-omics data sets, Henning Schiebenhöfer.
  151. 24-02-2021: Deploying apps in shinyproxy on BioGenies web server, Filip Pietluch.
  152. 17-02-2021: Comparing deuteration curves, Krystyna Grzesiak.
  153. 10-02-2021: k-mer space as an efficient representation of biological sequences, Jadwiga Słowik.
  154. 03-02-2021: Generation of negative datasets, Michał Burdukiewicz.
  155. 27-01-2021: Low complexity proteins, Aleksandra Gruca.
  156. 20-01-2021: Biology for data scientists, Dominik Cysewski.
  157. 13-01-2021: Bayesian optimization in prediction of amyloid proteins, Paulina Grudzińska. Writing loops in R, Mateusz Bąkała.
  158. 16-12-2020: Podsumowanie roku, BioGenies.
  159. 09-12-2020: Frontiers of precision medicine, Stefan Rödiger.
  160. 02-12-2020: BioGenies update #3, Michał Burdukiewicz.
  161. 25-11-2020: High-resolution HDX - follow up, Weronika Puchała.
  162. 18-11-2020: High-resolution HDX, Weronika Puchała.
  163. 04-11-2020: BioGenies update #2, Michał Burdukiewicz. Writing loops in R, Mateusz Bąkała.
  164. 28-10-2020: tidysq - follow up, Dominik Rafacz.
  165. 21-10-2020: tidysq, Dominik Rafacz.
  166. 14-10-2020: Frontiers of precision medicine, Stefan Rödiger.
  167. 07-10-2020: Simulating sequences for feature filtering - follow up, Jakub Kała.
  168. 30-09-2020: Simulating sequences for feature filtering, Jakub Kała.
  169. 23-09-2020: Why R? presentations - general test.
  170. 16-09-2020: BioGenies update #1, Michał Burdukiewicz.
  171. 09-09-2020: Evolution of AMPs, Przemysław Gagat.
  172. 02-09-2020: How to organise a project, Leon Eyrich Jessen.
  173. 26-08-2020: Using UniProt, Filip Pietluch.
  174. 19-08-2020: Proteomics 101, part 2, Dominik Cysewski.
  175. 12-08-2020: Proteomics 101, part 1, Dominik Cysewski.
  176. 5-08-2020: tidysq forum: o kopiach obiektów w R, Mateusz Bąkała.
  177. 29-07-2020: VisQual, Jan Sawicki.
  178. 22-07-2020: HaDeX, Weronika Puchała.
  179. 15-07-2020: AmpGram, Katarzyna Sidorczuk.
  180. 8-07-2020: QuiPT and feature filtering, Jakub Kała.
  181. 1-07-2020: Effective k-mer counting, Jadwiga Słowik.

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