|
1. Multi-scale signaling and tumor evolution in high-grade gliomas
Liu J et al. Cancer Cell. 2024 Jul 8;42(7):1217-1238.e19. doi: 10.1016/j.ccell.2024.06.004.
2. Single-cell decoding of drug induced transcriptomic reprogramming in triple negative breast cancers
Kabeer F et al. Genome Biol. 2024 Jul 18;25(1):191. doi: 10.1186/s13059-024-03318-3.
3. TWIST1+FAP+ fibroblasts in the pathogenesis of intestinal fibrosis in Crohn's disease
Zhang Y et al. J Clin Invest. 2024 Jul 18:e179472. doi: 10.1172/JCI179472. Online ahead of print.
4. DCX knockout ferret reveals a neurogenic mechanism in cortical development
Wang W et al. Cell Rep. 2024 Jul 16;43(8):114508. doi: 10.1016/j.celrep.2024.114508. Online ahead of print.
5. Immunomic longitudinal profiling of the NeoPembrOv trial identifies drivers of immunoresistance in high-grade ovarian carcinoma
Le Saux O et al. Nat Commun. 2024 Jul 16;15(1):5932. doi: 10.1038/s41467-024-47000-5.
6. tRNA expression and modification landscapes, and their dynamics during zebrafish embryo development
Rappol T et al. Nucleic Acids Res. 2024 Jul 11:gkae595. doi: 10.1093/nar/gkae595. Online ahead of print.
7. Elf1 promotes transcription-coupled repair in yeast by using its C-terminal domain to bind TFIIH
Selvam K et al. Nat Commun. 2024 Jul 23;15(1):6223. doi: 10.1038/s41467-024-50539-y.
8. Translational regulation enhances distinction of cell types in the nervous system
Ichinose T et al. Elife. 2024 Jul 16;12:RP90713. doi: 10.7554/eLife.90713.
9. The molecular basis of tRNA selectivity by human pseudouridine synthase 3
Lin TY et al. Mol Cell. 2024 Jul 11;84(13):2472-2489.e8. doi: 10.1016/j.molcel.2024.06.013.
10. Maternal mRNA deadenylation is defective in in vitro matured mouse and human oocytes
Liu Y et al. Nat Commun. 2024 Jul 2;15(1):5550. doi: 10.1038/s41467-024-49695-y.
11. Single cell transcriptomes and multiscale networks from persons with and without Alzheimer's disease
Wang Q et al. Nat Commun. 2024 Jul 10;15(1):5815. doi: 10.1038/s41467-024-49790-0.
12. Exploring the impact of primer length on efficient gene detection via high-throughput sequencing
Micheel J et al. Nat Commun. 2024 Jul 12;15(1):5858. doi: 10.1038/s41467-024-49685-0.
13. Arabidopsis and maize terminator strength is determined by GC content, polyadenylation motifs and cleavage probability
Gorjifard S et al. Nat Commun. 2024 Jul 12;15(1):5868. doi: 10.1038/s41467-024-50174-7.
14. KAT8-mediated H4K16ac is essential for sustaining trophoblast self-renewal and proliferation via regulating CDX2
Bi S et al. Nat Commun. 2024 Jul 3;15(1):5602. doi: 10.1038/s41467-024-49930-6.
15. FIND-seq: high-throughput nucleic acid cytometry for rare single-cell transcriptomics
Shin SW et al. Nat Protoc. 2024 Jul 22. doi: 10.1038/s41596-024-01021-y. Online ahead of print.
16. The life-saving benefit of dexamethasone in severe COVID-19 is linked to a reversal of monocyte dysregulation
Knoll R et al. Cell. 2024 Jul 1:S0092-8674(24)00654-8. doi: 10.1016/j.cell.2024.06.014. Online ahead of print.
17. Lumican promotes calcific aortic valve disease through H3 histone lactylation
Huang Y et al. Eur Heart J. 2024 Jul 8:ehae407. doi: 10.1093/eurheartj/ehae407. Online ahead of print.
18. Beyond simple tails: poly(A) tail-mediated RNA epigenetic regulation
Liu J et al. Trends Biochem Sci. 2024 Jul 13:S0968-0004(24)00161-0. doi: 10.1016/j.tibs.2024.06.013. Online ahead of print.
19. PHOSPHATASE 2A dephosphorylates PHYTOCHROME INTERACTING FACTOR3 to modulate photomorphogenesis in Arabidopsis
Cai X et al. Plant Cell. 2024 Jul 12:koae200. doi: 10.1093/plcell/koae200. Online ahead of print.
20. Using a pan-cancer atlas to investigate tumour associated macrophages as regulators of immunotherapy response
Coulton A et al. Nat Commun. 2024 Jul 6;15(1):5665. doi: 10.1038/s41467-024-49885-8.
21. Transcriptomic response to nitrogen availability reveals signatures of adaptive plasticity during tetraploid wheat domestication
Pieri A et al. Plant Cell. 2024 Jul 26:koae202. doi: 10.1093/plcell/koae202. Online ahead of print.
22. A real-world multi-center RNA-seq benchmarking study using the Quartet and MAQC reference materials
Wang D et al. Nat Commun. 2024 Jul 22;15(1):6167. doi: 10.1038/s41467-024-50420-y.
23. A robust method for measuring aminoacylation through tRNA-Seq
Davidsen K et al. Elife. 2024 Jul 30;12:RP91554. doi: 10.7554/eLife.91554.
24. Defining context-dependent m(6)A RNA methylomes in Arabidopsis
Zhang B et al. Dev Cell. 2024 Jul 10:S1534-5807(24)00390-3. doi: 10.1016/j.devcel.2024.06.012. Online ahead of print.
25. Single-cell transcriptomics analysis of bullous pemphigoid unveils immune-stromal crosstalk in type 2 inflammatory disease
Liu T et al. Nat Commun. 2024 Jul 15;15(1):5949. doi: 10.1038/s41467-024-50283-3.
26. Unraveling the interplay between a small RNA and RNase E in bacteria
Vigoda MB et al. Nucleic Acids Res. 2024 Jul 22:gkae621. doi: 10.1093/nar/gkae621. Online ahead of print.
27. Proteomic predictors of individualized nutrient-specific insulin secretion in health and disease
Kolic J et al. Cell Metab. 2024 Jul 2;36(7):1619-1633.e5. doi: 10.1016/j.cmet.2024.06.001.
28. Single-cell RNA sequencing reveals plasmid constrains bacterial population heterogeneity and identifies a non-conjugating subpopulation
Cyriaque V et al. Nat Commun. 2024 Jul 12;15(1):5853. doi: 10.1038/s41467-024-49793-x.
29. OmicVerse: a framework for bridging and deepening insights across bulk and single-cell sequencing
Zeng Z et al. Nat Commun. 2024 Jul 16;15(1):5983. doi: 10.1038/s41467-024-50194-3.
30. Hematopoietic stem and progenitor cell membrane-coated vesicles for bone marrow-targeted leukaemia drug delivery
Li J et al. Nat Commun. 2024 Jul 7;15(1):5689. doi: 10.1038/s41467-024-50021-9.
31. Single-cell total-RNA profiling unveils regulatory hubs of transcription factors
Niu Y et al. Nat Commun. 2024 Jul 15;15(1):5941. doi: 10.1038/s41467-024-50291-3.
32. Detecting haplotype-specific transcript variation in long reads with FLAIR2
Tang AD et al. Genome Biol. 2024 Jul 2;25(1):173. doi: 10.1186/s13059-024-03301-y.
33. SETDB1 regulates short interspersed nuclear elements and chromatin loop organization in mouse neural precursor cells
Sun D et al. Genome Biol. 2024 Jul 3;25(1):175. doi: 10.1186/s13059-024-03327-2.
34. Multi-omic characterization of allele-specific regulatory variation in hybrid pigs
Quan J et al. Nat Commun. 2024 Jul 3;15(1):5587. doi: 10.1038/s41467-024-49923-5.
35. Hfq mediates transcriptome-wide RNA structurome reprogramming under virulence-inducing conditions in a phytopathogen
Hua C et al. Cell Rep. 2024 Jul 24;43(8):114544. doi: 10.1016/j.celrep.2024.114544. Online ahead of print.
36. Detection of allele-specific expression in spatial transcriptomics with spASE
Zou LS et al. Genome Biol. 2024 Jul 8;25(1):180. doi: 10.1186/s13059-024-03317-4.
37. MethNet: a robust approach to identify regulatory hubs and their distal targets from cancer data
Sakellaropoulos T et al. Nat Commun. 2024 Jul 17;15(1):6027. doi: 10.1038/s41467-024-50380-3.
38. High resolution landscape of ribosomal RNA processing and surveillance
An W et al. Nucleic Acids Res. 2024 Jul 12:gkae606. doi: 10.1093/nar/gkae606. Online ahead of print.
39. tRNA m(1)A modification regulate HSC maintenance and self-renewal via mTORC1 signaling
Zuo H et al. Nat Commun. 2024 Jul 8;15(1):5706. doi: 10.1038/s41467-024-50110-9.
40. Tracking-seq reveals the heterogeneity of off-target effects in CRISPR-Cas9-mediated genome editing
Zhu M et al. Nat Biotechnol. 2024 Jul 2. doi: 10.1038/s41587-024-02307-y. Online ahead of print.
41. Genome-wide analysis of transcription-coupled repair reveals novel transcription events in Caenorhabditis elegans
Kose C et al. PLoS Genet. 2024 Jul 19;20(7):e1011365. doi: 10.1371/journal.pgen.1011365. Online ahead of print.
42. Heterogeneous pseudobulk simulation enables realistic benchmarking of cell-type deconvolution methods
Hu M et al. Genome Biol. 2024 Jul 1;25(1):169. doi: 10.1186/s13059-024-03292-w.
43. Base-resolution m(5)C profiling across the mammalian transcriptome by bisulfite-free enzyme-assisted chemical labeling approach
Lu L et al. Mol Cell. 2024 Jul 9:S1097-2765(24)00528-8. doi: 10.1016/j.molcel.2024.06.021. Online ahead of print.
44. Multi-omics analysis in IgM monoclonal gammopathies reveals epigenetic influence on oncogenesis via DNA methylation
Chohan KL et al. Blood. 2024 Jul 5:blood.2023023639. doi: 10.1182/blood.2023023639. Online ahead of print.
45. ezSingleCell: an integrated one-stop single-cell and spatial omics analysis platform for bench scientists
Sethi R et al. Nat Commun. 2024 Jul 3;15(1):5600. doi: 10.1038/s41467-024-48188-2.
46. Technological advancements in deciphering RNA-RNA interactions
Ye R et al. Mol Cell. 2024 Jul 16:S1097-2765(24)00543-4. doi: 10.1016/j.molcel.2024.06.036. Online ahead of print.
47. FOXP4 is a Direct YAP1 Target that Promotes Gastric Cancer Stemness and Drives Metastasis
Liu X et al. Cancer Res. 2024 Jul 24. doi: 10.1158/0008-5472.CAN-23-3074. Online ahead of print.
48. A spatiotemporal molecular atlas of mouse spinal cord injury identifies a distinct astrocyte subpopulation and therapeutic potential of IGFBP2
Wang Z et al. Dev Cell. 2024 Jul 16:S1534-5807(24)00394-0. doi: 10.1016/j.devcel.2024.06.016. Online ahead of print.
49. A bipolar disorder-associated missense variant alters adenylyl cyclase 2 activity and promotes mania-like behavior
Sen P et al. Mol Psychiatry. 2024 Jul 13. doi: 10.1038/s41380-024-02663-w. Online ahead of print.
50. Accurate assembly of circular RNAs with TERRACE
Zahin T et al. Genome Res. 2024 Jul 26:gr.279106.124. doi: 10.1101/gr.279106.124. Online ahead of print.
51. Ornaments for efficient allele-specific expression estimation with bias correction
Adduri A et al. Am J Hum Genet. 2024 Jul 18:S0002-9297(24)00221-0. doi: 10.1016/j.ajhg.2024.06.014. Online ahead of print.
52. Single-cell RNA sequencing reveals dynamics of gene expression for 2D elongation and 3D growth in Physcomitrium patens
Chen Z et al. Cell Rep. 2024 Jul 23;43(8):114524. doi: 10.1016/j.celrep.2024.114524. Online ahead of print.
53. m(3)C32 tRNA modification controls serine codon-biased mRNA translation, cell cycle, and DNA-damage response
Cui J et al. Nat Commun. 2024 Jul 10;15(1):5775. doi: 10.1038/s41467-024-50161-y.
54. Netrin signaling mediates survival of dormant epithelial ovarian cancer cells
Perampalam P et al. Elife. 2024 Jul 18;12:RP91766. doi: 10.7554/eLife.91766.
55. An 18-gene signature of recurrence-associated endothelial cells predicts tumor progression and castration resistance in prostate cancer
Lin BB et al. Br J Cancer. 2024 Jul 12. doi: 10.1038/s41416-024-02761-0. Online ahead of print.
56. Mining alternative splicing patterns in scRNA-seq data using scASfind
Song Y et al. Genome Biol. 2024 Jul 29;25(1):197. doi: 10.1186/s13059-024-03323-6.
57. Transcriptional programs of Pitx2 and Tfap2a/Tfap2b controlling lineage specification of mandibular epithelium during tooth initiation
Shao F et al. PLoS Genet. 2024 Jul 25;20(7):e1011364. doi: 10.1371/journal.pgen.1011364. Online ahead of print.
58. Heterogeneous fibroblasts contribute to fibrotic scar formation after spinal cord injury in mice and monkeys
Xue X et al. Nat Commun. 2024 Jul 27;15(1):6321. doi: 10.1038/s41467-024-50564-x.
59. Hypoxia and inflammation induce synergistic transcriptome turnover in macrophages
Courvan EMC et al. Cell Rep. 2024 Jul 23;43(7):114452. doi: 10.1016/j.celrep.2024.114452. Epub 2024 Jul 4.
60. Genome-wide quantification of RNA flow across subcellular compartments reveals determinants of the mammalian transcript life cycle
Ietswaart R et al. Mol Cell. 2024 Jul 25;84(14):2765-2784.e16. doi: 10.1016/j.molcel.2024.06.008. Epub 2024 Jul 3.
61. Interface-guided phenotyping of coding variants in the transcription factor RUNX1
Ozturk K et al. Cell Rep. 2024 Jul 23;43(7):114436. doi: 10.1016/j.celrep.2024.114436. Epub 2024 Jul 4.
62. The RNA binding protein Arid5a drives IL-17-dependent autoantibody-induced glomerulonephritis
Li Y et al. J Exp Med. 2024 Sep 2;221(9):e20240656. doi: 10.1084/jem.20240656. Epub 2024 Jul 26.
63. USP11 promotes prostate cancer progression by up-regulating AR and c-Myc activity
Pornour M et al. Proc Natl Acad Sci U S A. 2024 Jul 30;121(31):e2403331121. doi: 10.1073/pnas.2403331121. Epub 2024 Jul 25.
64. IFIH1 (MDA5) is required for innate immune detection of intron-containing RNA expressed from the HIV-1 provirus
Guney MH et al. Proc Natl Acad Sci U S A. 2024 Jul 16;121(29):e2404349121. doi: 10.1073/pnas.2404349121. Epub 2024 Jul 10.
65. Matrix stiffness-dependent regulation of immunomodulatory genes in human MSCs is associated with the lncRNA CYTOR
Lim JJ et al. Proc Natl Acad Sci U S A. 2024 Aug 6;121(32):e2404146121. doi: 10.1073/pnas.2404146121. Epub 2024 Jul 29.
|
