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1. Frontotemporal lobar degeneration targets brain regions linked to expression of recently evolved genes

2. Systematic decoding of cis gene regulation defines context-dependent control of the multi-gene costimulatory receptor locus in human T cells

3. Chromatin remodelling drives immune cell–fibroblast communication in heart failure

4. SuPreMo: a computational tool for streamlining in silico perturbation using sequence-based predictive models

5. Cross-ancestry atlas of gene, isoform, and splicing regulation in the developing human brain

6. Massively parallel characterization of regulatory elements in the developing human cortex

7. Metatranscriptomic investigation of single Ixodes pacificus ticks reveals diverse microbes, viruses, and novel mRNA-like endogenous viral elements.

9. ChromaFactor: deconvolution of single-molecule chromatin organization with non-negative matrix factorization

13. Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project

14. Genetic Determinants of the Interventricular Septum Are Linked to Ventricular Septal Defects and Hypertrophic Cardiomyopathy

16. A genomic timescale for placental mammal evolution

17. Comparative genomics of Balto, a famous historic dog, captures lost diversity of 1920s sled dogs

18. The contribution of historical processes to contemporary extinction risk in placental mammals

19. The functional and evolutionary impacts of human-specific deletions in conserved elements

20. Integrating gene annotation with orthology inference at scale

21. Relating enhancer genetic variation across mammals to complex phenotypes using machine learning

22. Three-dimensional genome rewiring in loci with human accelerated regions

23. Evolutionary constraint and innovation across hundreds of placental mammals

24. Leveraging base-pair mammalian constraint to understand genetic variation and human disease

25. Identifying species-specific k-mers for fast and accurate metagenotyping with Maast and GT-Pro

26. Maast: genotyping thousands of microbial strains efficiently

27. An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype

28. SIMMER employs similarity algorithms to accurately identify human gut microbiome species and enzymes capable of known chemical transformations

29. MIDAS2: Metagenomic Intra-species Diversity Analysis System

30. Genotyping Microbial Communities with MIDAS2: From Metagenomic Reads to Allele Tables

31. Enhancer Function and Evolutionary Roles of Human Accelerated Regions

32. Evolution of the ancestral mammalian karyotype and syntenic regions

33. Host and gut bacteria share metabolic pathways for anti-cancer drug metabolism

34. Brain-wide perception of the emotional valence of light is regulated by distinct hypothalamic neurons

36. Differential Etv2 threshold requirement for endothelial and erythropoietic development

37. CellWalkR: an R package for integrating and visualizing single-cell and bulk data to resolve regulatory elements

38. Strain-resolved analysis in a randomized trial of antibiotic pretreatment and maintenance dose delivery mode with fecal microbiota transplant for ulcerative colitis.

39. Fast and accurate metagenotyping of the human gut microbiome with GT-Pro

40. Transcription factor protein interactomes reveal genetic determinants in heart disease

41. Navigating the pitfalls of applying machine learning in genomics

42. Cell Layers: uncovering clustering structure in unsupervised single-cell transcriptomic analysis

43. In silico discovery of repetitive elements as key sequence determinants of 3D genome folding

44. Single cell genome sequencing of laboratory mouse microbiota improves taxonomic and functional resolution of this model microbial community

45. Human gut bacterial metabolism drives Th17 activation and colitis

46. Scalable Microbial Strain Inference in Metagenomic Data Using StrainFacts.

47. CellWalker integrates single-cell and bulk data to resolve regulatory elements across cell types in complex tissues

48. Accurate and sensitive detection of microbial eukaryotes from whole metagenome shotgun sequencing

49. Autism risk gene POGZ promotes chromatin accessibility and expression of clustered synaptic genes

50. Systematic identification of non-canonical transcription factor motifs

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