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Galaxy Europe

Scientific research using & citing the European Galaxy server


This is the list of scientific publications that cited the European Galaxy instance sorted by year. Please help us to support this project with your acknowledgement.

2024

  1. AbuSaleh,L. et al. (2024) Genetic Polymorphisms of Angiotensin-Converting Enzyme 1 (ACE1) and ACE2 Associated With Severe Acute Respiratory Syndrome COVID-19 in the Palestinian Population. Cureus, 16.
  2. Aerts,T. et al. (2024) Altered socio-affective communication and amygdala development in mice with protocadherin10-deficient interneurons. Open Biology, 14, 240113.
  3. Aguirre Pranzoni,C. et al. (2024) Biofoams with untapped enzymatic potential produced from beer bagasse by indigenous fungal strains. Bioresource Technology, 406, 131037.
  4. Aguirre Pranzoni,C. et al. (2024) Biofoams with Untapped Enzymatic Potential Produced from Beer Bagasse by Indigenous Fungal Strains.
  5. Akpinar,Z. and Karaoglu,H. (2024) Characterization of a highly thermostable recombinant xylanase from Anoxybacillus ayderensis. Protein Expression and Purification, 219, 106478.
  6. Alawi,M. et al. (2024) Private and well drinking water are reservoirs for antimicrobial resistant bacteria. npj Antimicrobials and Resistance, 2, 1–16.
  7. Albrecht,C. et al. (2024) Amplicon-Based Bisulfite Conversion-NGS DNA Methylation Analysis Protocol. In, Jeltsch,A. and Rots,M.G. (eds), Epigenome Editing: Methods and Protocols. Springer US, New York, NY, pp. 405–418.
  8. Ali,M.A. et al. (2024) Bioinformatics and Computational Biology. In, Ijaz,S. et al. (eds), Trends in Plant Biotechnology. Springer Nature, Singapore, pp. 281–334.
  9. AlJindan,R. et al. (2024) Phenomics and genomic features of Enterococcus avium IRMC1622a isolated from a clinical sample of hospitalized patient. Journal of Infection and Public Health.
  10. Andriyanov,P.A. et al. (2024) Genomic analysis of multidrug-resistant Delftia tsuruhatensis isolated from raw bovine milk. Frontiers in Microbiology, 14.
  11. Arai,H. et al. (2024) Two male-killing Wolbachia from Drosophila birauraia that are closely related but distinct in genome structure. Royal Society Open Science, 11, 231502.
  12. Argenta,N. et al. (2024) American lobster (Homarus americanus) hepatopancreas transcriptome reveals the significance of chitin-related genes during impoundment shell disease. FACETS, 9, 1–10.
  13. Aribisala,J.O. et al. (2024) In silico exploration of phenolics as modulators of penicillin binding protein (PBP) 2× of Streptococcus pneumoniae. Scientific Reports, 14, 8788.
  14. Arlat,A. et al. (2024) Generation of functionally active resident macrophages from adipose tissue by 3D cultures. Frontiers in Immunology, 15.
  15. Arnold,N.D. (2024) Unlocking a Potent Chitin Saccharification System in a Novel Bacterium Through Omics and Bioinformatics.
  16. Asiri,A. (2024) In-Silico Perspectives on the Potential Therapeutic Aids of Hesperetin Derivatives for Lung Cancer. Advancements in Life Sciences, 11, 878–886.
  17. Atac,D. et al. (2024) Identification and Characterization of ATOH7-Regulated Target Genes and Pathways in Human Neuroretinal Development. Cells, 13, 1142.
  18. Bahrami,B. et al. (2024) Integrated analysis of transcriptome and epigenome reveals ENSR00000272060 as a potential biomarker in gastric cancer. Epigenomics, 16, 159–173.
  19. Balcke,G.U. et al. (2024) Coordinated metabolic adaptation of Arabidopsis thaliana to high light. The Plant Journal, 120, 387–405.
  20. Barreira,E.M.da C. (2024) Predictability of genomic evolution of populations with contrasting initial history.
  21. Bastide,H. et al. (2024) The genome of the blind bee louse fly reveals deep convergences with its social host and illuminates Drosophila origins. Current Biology.
  22. Bawin,T. et al. (2024) Cuscuta campestris fine-tunes gene expression during haustoriogenesis as an adaptation to different hosts. Plant Physiology, 194, 258–273.
  23. Becker,A.-L. et al. (2024) Correlation of Immunomodulatory Cytokines with Tumor Volume and Cerebrospinal Fluid in Vestibular Schwannoma Patients. Cancers, 16, 3002.
  24. Beerling,D.J. et al. (2024) Enhanced weathering in the US Corn Belt delivers carbon removal with agronomic benefits. Proceedings of the National Academy of Sciences, 121, e2319436121.
  25. Berlanga,M. et al. (2024) Biodiversity and poten al func onality of biofilmsediment biotope in La Muerte lagoon, Monegros desert, Spain. Frontiers in Ecology and Evolution, 12.
  26. Besson,B. et al. (2024) Pan-flavivirus analysis reveals sfRNA-independent, 3′ UTR-biased siRNA production from an insect-specific flavivirus. Journal of Virology, 0, e01215–24.
  27. Bianconi,I. et al. (2024) Characterization of Verona Integron-Encoded Metallo-β-Lactamase-Type Carbapenemase-Producing Escherichia coli Isolates Collected over a 16-Year Period in Bolzano (Northern Italy). Microbial Drug Resistance, 30, 91–100.
  28. Bianconi,I. et al. (2024) Disseminated Echovirus 11 infection in a newborn in the Province of Bolzano, Italy. Infection.
  29. Bihani,S. et al. (2024) Metaproteomics for Coinfections in the Upper Respiratory Tract: The Case of COVID-19. In, Salerno,C. (ed), Metaproteomics: Methods and Protocols. Springer US, New York, NY, pp. 165–185.
  30. Bode,C. et al. (2024) Catecholamine treatment induces reversible heart injury and cardiomyocyte gene expression. Intensive Care Medicine Experimental, 12, 48.
  31. Bode,C. et al. (2024) Dynamics of cardiomyocyte gene expression and reversibility of catecholamine-induced heart injury.
  32. Boeckman,J. et al. (2024) Phage DNA Extraction, Genome Assembly, and Genome Closure. In, Tumban,E. (ed), Bacteriophages: Methods and Protocols, Methods in Molecular Biology. Springer US, New York, NY, pp. 125–144.
  33. Bogguri,C. et al. (2024) Biphasic response of human iPSC-derived neural network activity following exposure to a sarin-surrogate nerve agent. Frontiers in Cellular Neuroscience, 18.
  34. Boneva,S.K. et al. (2024) The multifaceted role of vitreous hyalocytes: Orchestrating inflammation, angiomodulation and erythrophagocytosis in proliferative diabetic retinopathy. Journal of Neuroinflammation, 21, 297.
  35. Boyer,T. and Neronov,A. (2024) Pulsar timing array constraints on the cosmological magnetic field from quark confinement epoch.
  36. Brink,A.van den (2024) Identification of the Expression Patterns of Fatty Acid Oxidation Genes in a Heterogenic Cardiomyopathy Patient Cohort.
  37. Camacho-Beltrán,E. et al. (2024) Complete genome sequence of the Microbacterium enclense bacteriophage phiMiGM15. Microbiology Resource Announcements, 0, e00302–24.
  38. Candeliere,F. et al. (2024) Genomic and functional analysis of the mucinolytic species Clostridium celatum, Clostridium tertium, and Paraclostridium bifermentans. Frontiers in Microbiology, 15.
  39. Capitani,V. et al. (2024) In vivo evolution to hypermucoviscosity and ceftazidime/avibactam resistance in a liver abscess caused by Klebsiella pneumoniae sequence type 512. mSphere, 9, e00423–24.
  40. Carval,T. et al. (2024) Pangeo environment in Galaxy Earth System supported by Fair-Ease Copernicus Meetings.
  41. Carvalho,J.V.R.P. et al. (2024) Genomics and evolutionary analysis of Chlorella variabilis-infecting viruses demarcate criteria for defining species of giant viruses. Journal of Virology, 0, e00361–24.
  42. Casal,J.J. et al. (2024) Plant Thermosensors.
  43. Castellana,S. et al. (2024) Pannonibacter anstelovis sp. nov. Isolated from Two Cases of Bloodstream Infections in Paediatric Patients. Microorganisms, 12, 799.
  44. Ceylan,F. et al. (2024) Whole-genome resequencing identifies exonic single-nucleotide variations in terpenoid biosynthesis genes of the medicinal and aromatic plant common sage (Salvia officinalis L.). Genetic Resources and Crop Evolution.
  45. Chatti,K. et al. (2024) Genome-Wide Analysis of the Common Fig (Ficus carica L.) R2R3-MYB Genes Reveals Their Structure, Evolution, and Roles in Fruit Color Variation. Biochemical Genetics.
  46. Chetverikov,P.E. et al. (2024) Molecular Phylogenetics and Light Microscopy Reveal “True” and “False” Calacarines and Novel Genital Structures in Gall Mites (Acariformes, Eriophyoidea). Forests, 15, 329.
  47. Chiappa,G. et al. (2024) Potential Ancestral Conoidean Toxins in the Venom Cocktail of the Carnivorous Snail Raphitoma purpurea (Montagu, 1803) (Neogastropoda: Raphitomidae). Toxins, 16, 348.
  48. Choudalakis,M. et al. (2024) RepEnTools: an automated repeat enrichment analysis package for ChIP-seq data reveals hUHRF1 Tandem-Tudor domain enrichment in young repeats. Mobile DNA, 15, 6.
  49. Cosenza-Contreras,M. et al. (2024) Proteometabolomics of initial and recurrent glioblastoma highlights an increased immune cell signature with altered lipid metabolism. Neuro-Oncology, 26, 488–502.
  50. Costa,R.A. et al. (2024) The Unique Specialization of Olfaction in the Senegalese Sole (Solea Senegalensis). Smelling in Co2 Acidified Water Triggers Nostril Specific Immune Processes.
  51. Crespo,R. et al. (2024) PCID2 dysregulates transcription and viral RNA processing to promote HIV-1 latency. iScience, 27, 109152.
  52. Croney,K. (2024) Revealing Binding and Unbinding Pathways of Small Molecules and Peptides to Enzymes with Enhanced Sampling Methods. WWU Graduate School Collection.
  53. Darino,M. et al. (2024) Identification and functional characterisation of a locus for target site integration in Fusarium graminearum. Fungal Biology and Biotechnology, 11, 2.
  54. Azevedo,B.L. de et al. (2024) The genomic and phylogenetic analysis of Marseillevirus cajuinensis raises questions about the evolution of Marseilleviridae lineages and their taxonomical organization. Journal of Virology, 0, e00513–24.
  55. Melo,S.M.F. de et al. (2024) The mitochondrial genome sequence of Syagrus coronata (Mart.) Becc. (Arecaceae) is characterized by gene insertion within intergenic spaces. Tree Genetics & Genomes, 20, 10.
  56. De Oliveira,I.B. et al. (2024) Apoplastomes of contrasting cacao genotypes to witches’ broom disease reveals differential accumulation of PR proteins. Frontiers in Plant Science, 15.
  57. Souza,F.D. de et al. (2024) Mitochondrial genome of Hancornia speciosa gomes: intergenic regions containing retrotransposons and predicted genes. Molecular Biology Reports, 51, 132.
  58. Souza,Y.P.A. de et al. (2024) The seeds of Plantago lanceolata comprise a stable core microbiome along a plant richness gradient. Environmental Microbiome, 19, 11.
  59. Dederichs,T.-S. et al. (2024) Nonpreferential but Detrimental Accumulation of Macrophages With Clonal Hematopoiesis-Driver Mutations in Cardiovascular Tissues—Brief Report. Arteriosclerosis, Thrombosis, and Vascular Biology, 44, 690–697.
  60. Dehghanian,F. et al. (2024) ZFP982 confers mouse embryonic stem cell characteristics by regulating expression of Nanog, Zfp42, and Dppa3. Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, 1871, 119686.
  61. Delandre,O. et al. (2024) Long-Read Sequencing and De Novo Genome Assembly Pipeline of Two Plasmodium falciparum Clones (Pf3D7, PfW2) Using Only the PromethION Sequencer from Oxford Nanopore Technologies without Whole-Genome Amplification. Biology, 13, 89.
  62. Deng,L. et al. (2024) Atlas of cardiac endothelial cell enhancer elements linking the mineralocorticoid receptor to pathological gene expression. Science Advances, 10, eadj5101.
  63. Deng,L. et al. (2024) Massively parallel CRISPR-assisted homologous recombination enables saturation editing of full-length endogenous genes in yeast. Science Advances, 10, eadj9382.
  64. Depari,E.K. et al. (2024) Long-read datasets of Kayu Bawang (Azadirachta excelsa (Jack) Jacobs) from 3 different identified seed stands in Bengkulu (Sumatra), Indonesia and its phylogenetic relationships.
  65. de Souza,Y.P.A. et al. (2024) The effect of successive summer drought periods on bacterial diversity along a plant species richness gradient. FEMS Microbiology Ecology, 100, fiae096.
  66. Donátová,K. et al. (2024) Changes in the Expression of Proteins Associated with Neurodegeneration in the Brains of Mice after Infection with Influenza A Virus with Wild Type and Truncated NS1. International Journal of Molecular Sciences, 25, 2460.
  67. Dossmann,L. et al. (2024) Specific DNMT3C flanking sequence preferences facilitate methylation of young murine retrotransposons. Communications Biology, 7, 1–12.
  68. Duque-Afonso,J. et al. (2024) Identification of epigenetic modifiers essential for growth and survival of AML1/ETO-positive leukemia. International Journal of Cancer, 155, 2068–2079.
  69. Edet,O.U. et al. (2024) Genomic analysis of a spontaneous unifoliate mutant reveals gene candidates associated with compound leaf development in Vigna unguiculata [L] Walp. Scientific Reports, 14, 10654.
  70. Eggenhofer,F. and Siederdissen,C. Höner zu (2024) Evolutionary Structure Conservation and Covariance Scores. In, Lorenz,R. (ed), RNA Folding: Methods and Protocols. Springer US, New York, NY, pp. 255–284.
  71. Ehle,C. et al. (2024) Downregulation of HNF4A enables transcriptomic reprogramming during the hepatic acute-phase response. Communications Biology, 7, 1–14.
  72. Epihov,D.Z. et al. (2024) Iron Chelation in Soil: Scalable Biotechnology for Accelerating Carbon Dioxide Removal by Enhanced Rock Weathering. Environmental Science & Technology, 58, 11970–11987.
  73. Ercole,T.G. et al. (2024) Unveiling Agricultural Biotechnological Prospects: The Draft Genome Sequence of Stenotrophomonas geniculata LGMB417. Current Microbiology, 81, 247.
  74. Erkelenz,S. et al. (2024) Rbm3 deficiency leads to transcriptome-wide splicing alterations. RNA Biology, 21, 1–13.
  75. Fabian-Morales,G.E. et al. (2024) Identification of Pathogenic Copy Number Variants in Mexican Patients With Inherited Retinal Dystrophies Applying an Exome Sequencing Data-Based Read-Depth Approach. Molecular Genetics & Genomic Medicine, 12, e70019.
  76. Faulstich,N.G. et al. (2024) Evidence for phosphate-dependent control of symbiont cell division in the model anemone Exaiptasia diaphana. mBio, e01059–24.
  77. Fernandes,D.R. (2024) LAMA2-CMD: establishment of a new gene therapy strategy using an in vitro model.
  78. Ferreira,M.M. et al. (2024) TcSERPIN, an inhibitor that interacts with cocoa defense proteins and has biotechnological potential against human pathogens. Frontiers in Plant Science, 15.
  79. Fischer,J. et al. (2024) Expanding the Scope of Adenoviral Vectors by Utilizing Novel Tools for Recombination and Vector Rescue. Viruses, 16, 658.
  80. Flores Orozco,D. (2024) Evaluation of the long-term effects of anaerobic digestion on bovine manure resistomes and mobilomes and the molecular and microbial mechanisms involved.
  81. Fonseca,J.S.da (2024) Mineração genômica e identificação de moléculas com potencial biotecnológico da microbiota amazônica.
  82. Galià-Camps,C. et al. (2024) Jumping through hoops: Structural rearrangements and accelerated mutation rates on Dendrodorididae (Mollusca: Nudibranchia) mitogenomes rumble their evolution. Molecular Phylogenetics and Evolution, 201, 108218.
  83. Galvis,J. et al. (2024) DIMet: An open-source tool for Differential analysis of targeted Isotope-labeled Metabolomics data. Bioinformatics (Oxford, England), btae282.
  84. Gao,C. et al. (2024) Land use intensity differently affects soil microbial functional communities in arable fields. Applied Soil Ecology, 204, 105723.
  85. Garcia-Fernandez,A. et al. (2024) Antibiotic resistance, plasmids, and virulence-associated markers in human strains of Campylobacter jejuni and Campylobacter coli isolated in Italy. Frontiers in Microbiology, 14.
  86. Gavalda-Garcia,J. et al. (2024) bio2Byte Tools deployment as a Python package and Galaxy tool to predict protein biophysical properties.
  87. Ghosh,A. et al. (2024) Suppressive cancer nonstop extension mutations increase C-terminal hydrophobicity and disrupt evolutionarily conserved amino acid patterns. Nature Communications, 15, 9209.
  88. Giroud,S. et al. (2024) Torpor and Hibernation: Metabolic and Physiological Paradigms Frontiers Media SA.
  89. Giufrè,M. et al. (2024) Detection of KPC-216, a Novel KPC-3 Variant, in a Clinical Isolate of Klebsiella pneumoniae ST101 Co-Resistant to Ceftazidime-Avibactam and Cefiderocol. Antibiotics, 13, 507.
  90. Glærum,I.L. et al. (2024) Postnatal persistence of hippocampal Cajal-Retzius cells has a crucial role in the establishment of the hippocampal circuit. Development, 151, dev202236.
  91. Godbole,S. et al. (2024) Multiomic profiling of medulloblastoma reveals subtype-specific targetable alterations at the proteome and N-glycan level. Nature Communications, 15, 6237.
  92. Goglio,A. et al. (2024) The performance of biochar waste-derived electrodes in different bio-electrochemical applications. Journal of Power Sources, 625, 235623.
  93. Gress,C. et al. (2024) Prostaglandin D2 receptor 2 downstream signaling and modulation of type 2 innate lymphoid cells from patients with asthma. PLOS ONE, 19, e0307750.
  94. Gress,C. et al. (2024) Transcriptomic characterization of the human segmental endotoxin challenge model. Scientific Reports, 14, 1721.
  95. Grève,P. et al. (2024) Three feminizing Wolbachia strains in a single host species: comparative genomics paves the way for identifying sex reversal factors. Frontiers in Microbiology, 15.
  96. Gu,Y. et al. (2024) ProSwats: A Proxy-based Scientific Workflow Retrieval Approach by Bridging the Gap between Textual and Structural Semantics. In, 2024 IEEE International Conference on Web Services (ICWS)., pp. 932–943.
  97. Guo,Z.-Q. et al. (2024) Mitogenome-Based Phylogeny with Divergence Time Estimates Revealed the Presence of Cryptic Species within Heptageniidae (Insecta, Ephemeroptera). Insects, 15, 745.
  98. Häkkänen,T. et al. (2024) Molecular characteristics of Cryptosporidium spp. in human cases in five Finnish hospital districts during 2021: first findings of Cryptosporidium mortiferum (Cryptosporidium chipmunk genotype I) in Finland. International Journal for Parasitology, 54, 225–231.
  99. Hamdi,J. et al. (2024) Wall-Associated Kinase (WAK) and WAK-like Kinase Gene Family in Sugar Beet: Genome-Wide Characterization and In Silico Expression Analysis in Response to Beet Cyst Nematode (Heterodera schachtii Schmidt) Infection. Journal of Plant Growth Regulation.
  100. Hashempour,A. et al. (2024) Reverse vaccinology approaches to design a potent multiepitope vaccine against the HIV whole genome: immunoinformatic, bioinformatics, and molecular dynamics approaches. BMC Infectious Diseases, 24, 873.
  101. He,Y. et al. (2024) A novel deep-benthic sea cucumber species of Benthodytes (Holothuroidea, Elasipodida, Psychropotidae) and its comprehensive mitochondrial genome sequencing and evolutionary analysis. BMC Genomics, 25, 689.
  102. Hecht,H. et al. (2024) Quantum chemistry based prediction of electron ionization mass spectra for environmental chemicals.
  103. Heine,S. et al. (2024) Activation of the aryl hydrocarbon receptor improves allergen-specific immunotherapy of murine allergic airway inflammation: a novel adjuvant option? Frontiers in Immunology, 15.
  104. Herwibawa,B. et al. (2024) Association of a Specific OsCULLIN3c Haplotype with Salt Stress Responses in Local Thai Rice. International Journal of Molecular Sciences, 25, 1040.
  105. Hoffmann,U.A. et al. (2024) The role of the 5’ sensing function of ribonuclease E in cyanobacteria. RNA Biology.
  106. Homchan,S. et al. (2024) A reproducible workflow for assembling the mitochondrial genome of Acheta domesticus (Orthoptera: Gryllidae). Ecology and Evolution, 14, e11696.
  107. Hossain,M.S. et al. (2024) Evaluation of novel pyridoxal isonicotinoyl hydrazone (PIH) derivatives as potential anti-tuberculosis agents: An in silico investigation. International Journal of Quantum Chemistry, 124, e27381.
  108. Hosseini,S.M. et al. (2024) Astrocytes originated from neural stem cells drive the regenerative remodeling of pathologic CSPGs in spinal cord injury. Stem Cell Reports, 0.
  109. Hosseinzadeh,S. and Hasanpur,K. (2024) Whole genome discovery of regulatory genes responsible for the response of chicken to heat stress. Scientific Reports, 14, 6544.
  110. Huang,H.-H. et al. (2024) Rs1347093 regulates microRNA-216/-217 expression and is associated with pancreatic cancer risk. Pancreatology.
  111. Humphrey,S. et al. (2024) Genomic characterization of prophage elements in Clostridium clostridioforme: an understudied component of the intestinal microbiome. Microbiology, 170, 001486.
  112. Hwang,H.M. et al. (2024) Reduction of APOE accounts for neurobehavioral deficits in fetal alcohol spectrum disorders. Molecular Psychiatry, 1–17.
  113. Imre,L. et al. (2024) Epigenetic modulation via the C-terminal tail of H2A.Z. Nature Communications, 15, 9171.
  114. Ipoutcha,T. et al. (2024) A synthetic biology approach to assemble and reboot clinically relevant Pseudomonas aeruginosa tailed phages. Microbiology Spectrum, 12, e02897–23.
  115. Ishola,O.A. et al. (2024) Comparative Metagenomic Analysis of Bacteriophages and Prophages in Gnotobiotic Mouse Models. Microorganisms, 12, 255.
  116. Jain,K. and Yadav,R. (2024) Human Metagenome Analysis with COVID-19 Infectious Disease. Current Trends in Biotechnology and Pharmacy, 18, 1616–1628.
  117. Jia,C. et al. (2024) Salmonella phylogenomics. In, Mokrousov,I. and Shitikov,E. (eds), Phylogenomics. Academic Press, pp. 267–281.
  118. Joshi,S. and Srivastava,R. (2024) Physicochemical properties and biological efficacy of 30 DYRK2 Inhibitors for the treatment of prostate cancer. Vietnam Journal of Chemistry, n/a.
  119. Joshi,S. and Srivastava,R. (2024) Tracing the pathways and mechanisms involved in medicinal uses of flaxseed with computational methods and bioinformatics tools. Frontiers in Chemistry, 11.
  120. Jovović,L. et al. (2024) De novo transcriptomes of cave and surface isopod crustaceans: insights from 11 species across three suborders. Scientific Data, 11, 595.
  121. Kaari,M. et al. (2024) Integrated genomic and functional analysis of Streptomyces sp. UP1A-1 for bacterial wilt control and solanaceae yield increase. Gene Reports, 37, 102012.
  122. Kahraman-Ilıkkan,Ö. (2024) Comparative genomics of four lactic acid bacteria identified with Vitek MS (MALDI-TOF) and whole-genome sequencing. Molecular Genetics and Genomics, 299, 31.
  123. Kalnytska,O. et al. (2024) SORCS2 activity in pancreatic α-cells safeguards insulin granule formation and release from glucose-stressed β-cells. iScience, 27, 108725.
  124. Kamajian,M. et al. (2024) Identification of effector candidates in Bipolaris sorokiniana and their expression profile analysis during pathogen-wheat interactions. Physiological and Molecular Plant Pathology, 133, 102343.
  125. Kandinov,I. et al. (2024) Mini-Multilocus Sequence Typing Scheme for the Global Population of Neisseria gonorrhoeae. International Journal of Molecular Sciences, 25, 5781.
  126. Karim,T. et al. (2024) In Silico Prediction of Antibacterial Activity of Quinolone Derivatives. ChemistrySelect, 9, e202402780.
  127. Kifle,B.A. et al. (2024) Shotgun metagenomic insights into secondary metabolite biosynthetic gene clusters reveal taxonomic and functional profiles of microbiomes in natural farmland soil. Scientific Reports, 14, 15096.
  128. Kojima,Y. et al. (2024) Cytochrome P450 2J2 is required for the natural compound austocystin D to elicit cancer cell toxicity. Cancer Science.
  129. Kostrykin,L. et al. (2024) Enhancing the image analysis community in Galaxy.
  130. Kostrykin,L. and Rohr,K. (2024) Robust Graph Pruning for Efficient Segmentation and Cluster Splitting of Cell Nuclei Using Deformable Shape Models. In, 2024 IEEE International Symposium on Biomedical Imaging (ISBI)., pp. 1–4.
  131. Kruk,M.E. et al. (2024) An integrated metaproteomics workflow for studying host-microbe dynamics in bronchoalveolar lavage samples applied to cystic fibrosis disease. mSystems, 0, e00929–23.
  132. Kruse,P. et al. (2024) Synaptopodin Regulates Denervation-Induced Plasticity at Hippocampal Mossy Fiber Synapses. Cells, 13, 114.
  133. Kumar,G. and Bhadury,P. (2024) Dataset of metagenomic profiles of human gut microbiome from frozen fecal samples sequenced using Illumina and ONT chemistries. Data in Brief, 57, 110961.
  134. Kumawat,K.L. et al. (2024) Association of Reproductive Phenology with Air Temperature in Almond (Prunus dulcis [Mill.] D.A. Webb) Cultivars Under Northwestern Himalayan Conditions. Applied Fruit Science, 66, 581–588.
  135. Lapp,T. et al. (2024) Transcriptional profiling specifies the pathogen-specific human host response to infectious keratitis. Frontiers in Cellular and Infection Microbiology, 13.
  136. Larivière,D. et al. (2024) Scalable, accessible and reproducible reference genome assembly and evaluation in Galaxy. Nature Biotechnology, 1–4.
  137. Lasolle,H. et al. (2024) Dual targeting of MAPK and PI3K pathways unlocks redifferentiation of Braf-mutated thyroid cancer organoids. Oncogene, 43, 155–170.
  138. Laurette,P. et al. (2024) In Vivo Silencing of Regulatory Elements Using a Single AAV-CRISPRi Vector. Circulation Research, 134, 223–225.
  139. Leavitt,R.J. et al. (2024) Acute Hypoxia Does Not Alter Tumor Sensitivity to FLASH Radiation Therapy. International Journal of Radiation Oncology*Biology*Physics.
  140. Lenz,M. et al. (2024) Transcriptomic and de novo proteomic analyses of organotypic entorhino-hippocampal tissue cultures reveal changes in metabolic and signaling regulators in TTX-induced synaptic plasticity. Molecular Brain, 17, 78.
  141. Li,Q. et al. (2024) tRNA regulation and amino acid usage bias reflect a coordinated metabolic adaptation in Plasmodium falciparum. iScience, 111167.
  142. Liang,P. et al. (2024) Characterization of the angiomodulatory effects of Interleukin 11 cis- and trans-signaling in the retina. Journal of Neuroinflammation, 21, 230.
  143. Liang,Z. et al. (2024) PICKLE-mediated nucleosome condensing drives H3K27me3 spreading for the inheritance of Polycomb memory during differentiation. Molecular Cell, 84, 3438–3454.e8.
  144. Lin,B. et al. (2024) Characteristics and phylogenetic implications of the mitochondrial genome of a rare species, Libellula melli. Gene Reports, 36, 101986.
  145. Link,T. (2024) Characterization and habitat adaptation of \textlessem\textgreaterTetragenococcus halophilus\textless/em\textgreater and \textlessem\textgreaterDebaryomyces hansenii\textless/em\textgreater from a lupine seasoning sauce fermentation.
  146. López,M.-E. et al. (2024) Epigenomic and transcriptomic persistence of heat stress memory in strawberry (Fragaria vesca). BMC Plant Biology, 24, 405.
  147. Luenstedt,J. et al. (2024) Partial hepatectomy accelerates colorectal metastasis by priming an inflammatory premetastatic niche in the liver. Frontiers in Immunology, 15.
  148. Mack-Bowles,B. (2024) Mechanisms of Mycophenolic Acid-Induced Gastrointestinal Toxicity and Potential Therapeutic Interventions in Primary Mouse Colonic Organoids.
  149. Maffei,E. et al. (2024) Complete genome sequence of Pseudomonas aeruginosa phage Knedl. Microbiology Resource Announcements, 13, e01174–23.
  150. Marco,K. et al. (2024) DORQ-seq: high-throughput quantification of femtomol tRNA pools by combination of cDNA hybridization and Deep sequencing. Nucleic Acids Research, gkae765.
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2020

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2019

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2018

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  13. Wolff,J. et al. (2018) Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization. Nucleic Acids Research, 46, W11–W16.
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2017

  1. Grüning,B.A. et al. (2017) The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy. Nucleic Acids Research, 45, W560–W566.
  2. Wołkowicz,T. (2017) The utility and perspectives of NGS-based methods in BSL-3 and BSL-4 laboratory – sequencing and analysis strategies. Briefings in Functional Genomics.