Seminars

1. 12.11.2024: OneTick, Michał Burdukiewicz.
2. 04.11.2024: just talking and having fun.
3. 30-09-2024:
4. 23-09-2024: no seminar.
5. 16-09-2024: no seminar.
6. 09-09-2024: just talking and having fun.
7. 02-09-2024: AmyloGraph 2.0 - data collection ideas, Michał Burdukiewicz.
8. 26-08-2024: AmyloGraph 2.0 - project ideas, Michał Burdukiewicz.
9. 19-08-2024: Funny stories, Weronika Puchała, Jakub Kołodziejczyk.
10. 12-07-2024: BioGenies website ideas, Jarek Chilimoniuk.
11. 05-07-2024: no seminar.
12. 01-07-2024: Metabocrates, Filip Gaj | Pathway analysis tailored for metabolomic data, Joanna Pokora.
13. 24-06-2024: no seminar.
14. 17-06-2024: Miniatura grant, Michał Burdukiewicz.
15. 16-06-2024: Long lack of planned seminars because Michał was traveling and other things.
16. 08-01-2024: BioGenies in 2024, Michał Burdukiewicz.
17. 18-12-2023: THE SEMINAR, Oriol Bárcenas.
18. 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.
19. 13-11-2023: Deep neural networks (Understanding Deep Learning, Chapter 8), Jakub Kała.
20. 04-11-2023: no seminar.
21. 30-10-2023: BioGenies update #10, Michal Burdukiewicz.
22. 23-10-2023: Cracking the black box of deep sequence-based protein-protein interaction prediction, Judith Bernett.
23. 16-10-2023: Cracking the black box of deep sequence-based protein-protein interaction prediction (pre-print comments), Jarosław Chilimoniuk.
24. 09-10-2023: Analysis of amyloid-amyloid interaction networks, Laura Bąkała.
25. 02-10-2023: Tree of science, Michał Burdukiewicz.
26. 25-09-2023: Deep neural networks (Understanding Deep Learning, Chapter 7), Jakub Kała.
27. 18-09-2023: Symptome Checkers, Michał Burdukiewicz.
28. 11-09-2023: Deep neural networks (Understanding Deep Learning, Chapter 6), Jakub Kała.
29. 21-08-2023: Copernican Revolution, Michał Burdukiewicz.
30. 18-08-2023: BioGenies: Year 3.
31. 14-08-2023: no seminar, we move it to 18-08-2023.
32. 07-08-2023: Deep neural networks (Understanding Deep Learning, Chapter 6), Jakub Kała.
33. 31-07-2023: Deep neural networks (Understanding Deep Learning, Chapter 5): notebooks, Jakub Kała.
34. 17-07-2023: BioGenies update #9, Michal Burdukiewicz.
35. 10-07-2023: Deep neural networks (Understanding Deep Learning, Chapter 4): notebooks, Michal Burdukiewicz.
36. 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.
37. 26-06-2023: Shallow neural networks (Understanding Deep Learning, Chapter 3): notebooks, Jakub Kała.
38. 19-06-2023: Shallow neural networks (Understanding Deep Learning, Chapter 3): notebooks, Jakub Kała. (Michał was not available)
39. 12-06-2023: Shallow neural networks (Understanding Deep Learning, Chapter 3), Jakub Kała.
40. 05-06-2023: Supervised learning (Understanding Deep Learning, Chapter 2), Michał Burdukiewicz.
41. 19-05-2023: When quality does not matter: a curious case of the subplastid location prediction, Michał Burdukiewicz
42. 12-05-2023: Grantopisanie, Michał Burdukiewicz.
43. 17-04-2023 (maybe): Introduction to metabolomics, Michał Ciborowski (in Polish).
44. 03-04-2023: Preludium to science, Jarosław Chilimoniuk & Krystyna Grzesiak.
45. 27-03-2023: Prediction of adhesins, Katarzyna Sidorczuk.
46. 20-03-2023: Imputomics, Jarosław Chilimoniuk.
47. 13-03-2023: Introduction to metabolomics, Michał Ciborowski (in Polish).
48. 06-03-2023:
49. 27-02-2023:
50. 20-02-2023: Mining the entire space of peptide sequences, Michał Burdukiewicz and Jakub Kała.
51. 13-02-2023: A heuristic algorithm solving the mutual-exclusivity sorting problem, Alessandro Vinceti.
52. 06-02-2023: Optimal ensemble selection, part 2, Michał Burdukiewicz.
53. 30-01-2023: no seminar, only update.
54. 23-01-2023: Optimal ensemble selection, Michał Burdukiewicz.
55. 16-01-2023: Handcrafted versus non-handcrafted (self-supervised) features for the classification of antimicrobial peptides: complementary or redundant?, Carlos Alberto Brizuela Rodríguez.
56. 10-01-2023: BioGenies in 2023.
57. 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.
58. 05-12-2022: AMPLE: detection of antimicrobial peptides in metagenomic data Michał Burdukiewicz.
59. 28-11-2022: Lessons from Poland Michał Burdukiewicz.
60. 21-11-2022: no seminar, Michał is still networking in Warsaw.
61. 14-11-2022: no seminar, Michał is networking in Warsaw.
62. 07-11-2022: no seminar, Michał is networking in Białystok.
63. 31-10-2022: Your scariest research BioGenies.
64. 26-10-2022: no seminar, Michał is networking in Wrocław.
65. 17-10-2022: Pitfalls of machine learning for peptide analysis, Michał Burdukiewicz.
66. 10-10-2022: The dynamic landscape of peptide function prediction Oriol Bárcenas, Michał Burdukiewicz, Carlos Pintado-Grima.
67. 03-10-2022: BioGenies update #8, Michał Burdukiewicz.
68. 26-09-2022: DRAMP 3.0: an enhanced comprehensive data repository of antimicrobial peptides, Heng Zheng (MS Teams).
69. 19-09-2022: no seminar, Michał has fun at the ECCB2022.
70. 12-09-2022: no seminar, Michał has fun at the Barcelona Aggregation Training School.
71. 05-09-2022: Optimal prediction of antimicrobial peptides, part 2, Michał Burdukiewicz.
72. 29-08-2022: Optimal prediction of antimicrobial peptides, Michał Burdukiewicz.
73. 22-08-2022: PlastoGram v2, Katarzyna Sidorczuk.
74. 15-08-2022: Public holidays.
75. 08-08-2022: PlastoGram v1, Katarzyna Sidorczuk.
76. 02-08-2022: BioGenies update #7, Michał Burdukiewicz.
77. 25-07-2022: Empirical Bayes functional models for hydrogen deuterium exchange mass spectrometry, Oliver M Crook.
78. 18-07-2022: Transfer learning in proteins: evaluating novel protein learned representations for bioinformatics tasks, Emilio Fenoy.
79. 11-07-2022: Do deep learning models make a difference in the identification of antimicrobial peptides?, Carlos Alberto Brizuela Rodríguez.
80. 04-07-2022: Inside the web of science, Michał Burdukiewicz.
81. 27-06-2022: golem, Dominik Rafacz & Gustav Meyrink.
82. 20-06-2022: bookdown, Krystyna Grzesiak.
83. 13-06-2022: no seminar, only update.
84. 06-06-2022: no seminar, only update.
85. 30-05-2022: Zastosowania zautomatyzowanej kuracji jakości danych w modelowaniu systemów immunoinformatycznych opartym na uczeniu maszynowym, Dominik Rafacz.
86. 23-05-2022: no seminar, only update.
87. 16-05-2022: Modularizing Shiny, Dominik Rafacz.
88. 09-05-2022: Analiza wpływu czynników środowiskowych oraz zanieczyszczeńpowietrza na choroby układu otolaryngologicznego na podstawie kohorty wrocławskiej z 2015 roku, Dominik Nowakowski
89. 25-04-2022: Shiny intro, Michał Burdukiewicz.
90. 11-04-2022: Effective presentations, Mariusz Trojanowski.
91. 04-04-2022: no seminar, only update.
92. 28-03-2022: Peer-review principles, Michał Burdukiewicz.
93. 21-03-2022: no seminar, only update.
94. 14-03-2022: no seminar, only update.
95. 07-03-2022: Michał talks about things, Michał Burdukiewicz.
96. 02-03-2022: no seminar, only update.
97. 16-02-2022: no seminar, only update.
98. 09-02-2022: no seminar, only update.
99. 02-02-2022: AmyloGraph: Michał nie umie w zarządzanie, Michał Burdukiewicz.
100. 26-01-2022: protti: an R package for comprehensive data analysis of peptide- and protein-centric bottom-up proteomics data, Jan-Philipp Quast.
101. 19-01-2022: New Year's Resolutions, Michał Burdukiewicz.
102. 22-12-2021: Memomikołajki, BioGenies.
103. 15-12-2021: BioGenies update #6, Michał Burdukiewicz.
104. 08-12-2021: Molecular Insights into the Differential Dynamics of SARS-CoV-2 Variants of Concern (VOC), Nabanita Mandal.
105. 01-12-2021: Applications of automated data quality curation in machine learning based modelling of immunoinformatic systems: Episode One, Dominik Rafacz.
106. 24-11-2021: adhesiomeR, Katarzyna Sidorczuk.
107. 17-11-2021: Peptipedia, David Medina-Ortiz (new time: 3 PM UTC+2).
108. 10-11-2021: Building HMM and molecular docking analysis for the sensitive detection of anti-viral pneumonia antimicrobial peptides (AMPs), Olalekan Bakare.
109. 03-11-2021: Blood-brain barrier peptides, Michał Burdukiewicz.
110. 27-10-2021: LILOP 2.0: I am choosing my hair color, Michał Burdukiewicz.
111. 20-10-2021: Poster session at IBB, BioGenies.
112. 13-10-2021: My own github profile readme, Michał Burdukiewicz.
113. 06-10-2021: Protein-peptide docking in the era of accurate structure-prediction, Sebastian Kmiecik.
114. 29-09-2021: Why my research is bad?, Michał Burdukiewicz.
115. 22-09-2021: no seminar, only update.
116. 15-09-2021: AmyloGraph: a comprehensive database of amyloid-amyloid interactions, Michał Burdukiewicz.
117. 08-09-2021: Novel project managment, Krystyna Grzesiak, Weronika Puchała.
118. 01-09-2021: Wstęp do modeli liniowych, Krystyna Grzesiak.
119. 25-08-2021: Next grants, Michał Burdukiewicz.
120. 18-08-2021: Elevator pitch, BioGenies.
121. 11-08-2021: Wstęp do wstępu do modeli liniowych, Krystyna Grzesiak.
122. 04-08-2021: Is the human genome 3D structure an inherited trait?, Michał Łaźniewski.
123. 28-07-2021: PlastoGram, Katarzyna Sidorczuk.
124. 21-07-2021: How to eat ice cream?, Dominik Rafacz.
125. 14-07-2021: BioGenies update #5: Year One, Michał Burdukiewicz.
126. 12-07-2021: Computational modeling of protein-protein complexes with therapeutic binding proteins, Filip Radom.
127. 07-07-2021: OpenPGX: a personalized approach to pharmacogenomics recommendations, Monika Krzyżanowska.
128. 30-06-2021: Filtering k-mer matrices - master thesis, Jakub Kała.
129. 23-06-2021: Genomics Platform@WUT conference.
130. 16-06-2021: Comparing deuteration curves, Krystyna Grzesiak.
131. 09-06-2021: no seminar, only update.
132. 02-06-2021: Bioinformatic and experimental analyses of bacterial functional amyloids CsgA and CsgB, Jarosław Chilimoniuk.
133. 26-05-2021: A3D 2.0 update for the prediction and optimization of protein solubility, Jordi Pujols, Valentín Iglesias.
134. 19-05-2021: Comparing deuteration curves, Krystyna Grzesiak.
135. 12-05-2021: LILO: a database of biological learners, Michał Burdukiewicz.
136. 05-05-2021: Ocena jakości nadzorowanych metod uczenia klasyfikacji, Katarzyna Stapor.
137. 28-04-2021: Comparing deuteration curves, Krystyna Grzesiak.
138. 21-04-2021: ampir: an R package for fast genome-wide prediction of antimicrobial peptides, Legana C H W Fingerhut, Ira Cooke.
139. 14-04-2021: no seminar, only update.
140. 07-04-2021: Uncertainties in HDX-MS measurements, Weronika Puchała.
141. 31-03-2021: BioGenies update #4, Michał Burdukiewicz.
142. 24-03-2021: Improved metagenome binning and assembly using deep variational autoencoders, Simon Rasmussen.
143. 17-03-2021: Filtering k-mer matrices - follow up, Jakub Kała.
144. 10-03-2021: Filtering k-mer matrices, Jakub Kała.
145. 03-03-2021: MegaGO: a fast yet powerful approach to assess functional gene ontology similarity across meta-omics data sets, Henning Schiebenhöfer.
146. 24-02-2021: Deploying apps in shinyproxy on BioGenies web server, Filip Pietluch.
147. 17-02-2021: Comparing deuteration curves, Krystyna Grzesiak.
148. 10-02-2021: k-mer space as an efficient representation of biological sequences, Jadwiga Słowik.
149. 03-02-2021: Generation of negative datasets, Michał Burdukiewicz.
150. 27-01-2021: Low complexity proteins, Aleksandra Gruca.
151. 20-01-2021: Biology for data scientists, Dominik Cysewski.
152. 13-01-2021: Bayesian optimization in prediction of amyloid proteins, Paulina Grudzińska. Writing loops in R, Mateusz Bąkała.
153. 16-12-2020: Podsumowanie roku, BioGenies.
154. 09-12-2020: Frontiers of precision medicine, Stefan Rödiger.
155. 02-12-2020: BioGenies update #3, Michał Burdukiewicz.
156. 25-11-2020: High-resolution HDX - follow up, Weronika Puchała.
157. 18-11-2020: High-resolution HDX, Weronika Puchała.
158. 04-11-2020: BioGenies update #2, Michał Burdukiewicz. Writing loops in R, Mateusz Bąkała.
159. 28-10-2020: tidysq - follow up, Dominik Rafacz.
160. 21-10-2020: tidysq, Dominik Rafacz.
161. 14-10-2020: Frontiers of precision medicine, Stefan Rödiger.
162. 07-10-2020: Simulating sequences for feature filtering - follow up, Jakub Kała.
163. 30-09-2020: Simulating sequences for feature filtering, Jakub Kała.
164. 23-09-2020: Why R? presentations - general test.
165. 16-09-2020: BioGenies update #1, Michał Burdukiewicz.
166. 09-09-2020: Evolution of AMPs, Przemysław Gagat.
167. 02-09-2020: How to organise a project, Leon Eyrich Jessen.
168. 26-08-2020: Using UniProt, Filip Pietluch.
169. 19-08-2020: Proteomics 101, part 2, Dominik Cysewski.
170. 12-08-2020: Proteomics 101, part 1, Dominik Cysewski.
171. 5-08-2020: tidysq forum: o kopiach obiektów w R, Mateusz Bąkała.
172. 29-07-2020: VisQual, Jan Sawicki.
173. 22-07-2020: HaDeX, Weronika Puchała.
174. 15-07-2020: AmpGram, Katarzyna Sidorczuk.
175. 8-07-2020: QuiPT and feature filtering, Jakub Kała.
176. 1-07-2020: Effective k-mer counting, Jadwiga Słowik.