|
1. Cross-disorder and disease-specific pathways in dementia revealed by single-cell genomics
Rexach JE et al. Cell. 2024 Sep 9:S0092-8674(24)00910-3. doi: 10.1016/j.cell.2024.08.019. Online ahead of print.
2. Genomic and immune heterogeneity of multiple synchronous lung adenocarcinoma at different developmental stages
Zhao Y et al. Nat Commun. 2024 Sep 10;15(1):7928. doi: 10.1038/s41467-024-52139-2.
3. Robust identification of perturbed cell types in single-cell RNA-seq data
Nicol PB et al. Nat Commun. 2024 Sep 1;15(1):7610. doi: 10.1038/s41467-024-51649-3.
4. Baseline Immune State and T-cell Clonal Kinetics are Associated with Durable Response to CAR-T Therapy in Large B-cell Lymphoma
Maurer K et al. Blood. 2024 Sep 6:blood.2024024381. doi: 10.1182/blood.2024024381. Online ahead of print.
5. DeepKINET: a deep generative model for estimating single-cell RNA splicing and degradation rates
Mizukoshi C et al. Genome Biol. 2024 Sep 6;25(1):229. doi: 10.1186/s13059-024-03367-8.
6. PerturbDB for unraveling gene functions and regulatory networks
Yang B et al. Nucleic Acids Res. 2024 Sep 11:gkae777. doi: 10.1093/nar/gkae777. Online ahead of print.
7. Multiplex, single-cell CRISPRa screening for cell type specific regulatory elements
Chardon FM et al. Nat Commun. 2024 Sep 18;15(1):8209. doi: 10.1038/s41467-024-52490-4.
8. Cognitive resilience to Alzheimer's disease characterized by cell-type abundance
O'Neill N et al. Alzheimers Dement. 2024 Sep 11. doi: 10.1002/alz.14187. Online ahead of print.
9. Transcriptomic pathology of neocortical microcircuit cell types across psychiatric disorders
Arbabi K et al. Mol Psychiatry. 2024 Sep 5. doi: 10.1038/s41380-024-02707-1. Online ahead of print.
10. Evidence for compensatory evolution within pleiotropic regulatory elements
Kliesmete Z et al. Genome Res. 2024 Sep 10:gr.279001.124. doi: 10.1101/gr.279001.124. Online ahead of print.
11. Introducing synthetic thermostable RNase inhibitors to single-cell RNA-seq
Noble JC et al. Nat Commun. 2024 Sep 27;15(1):8373. doi: 10.1038/s41467-024-52717-4.
12. C2H2-zinc-finger transcription factors bind RNA and function in diverse post-transcriptional regulatory processes
Nabeel-Shah S et al. Mol Cell. 2024 Sep 17:S1097-2765(24)00733-0. doi: 10.1016/j.molcel.2024.08.037. Online ahead of print.
13. ESCHR: a hyperparameter-randomized ensemble approach for robust clustering across diverse datasets
Goggin SM et al. Genome Biol. 2024 Sep 16;25(1):242. doi: 10.1186/s13059-024-03386-5.
14. DFF-ChIP: a method to detect and quantify complex interactions between RNA polymerase II, transcription factors, and chromatin
Spector BM et al. Nucleic Acids Res. 2024 Sep 9:gkae760. doi: 10.1093/nar/gkae760. Online ahead of print.
15. Simultaneous profiling of RNA isoforms and chromatin accessibility of single cells of human retinal organoids
Zhang S et al. Nat Commun. 2024 Sep 13;15(1):8022. doi: 10.1038/s41467-024-52335-0.
16. ADAMTS12 promotes fibrosis by restructuring extracellular matrix to enable activation of injury-responsive fibroblasts
Hoeft K et al. J Clin Invest. 2024 Sep 17;134(18):e170246. doi: 10.1172/JCI170246.
17. Integration of scHi-C and scRNA-seq data defines distinct 3D-regulated and biological-context dependent cell subpopulations
Zhou Y et al. Nat Commun. 2024 Sep 27;15(1):8310. doi: 10.1038/s41467-024-52440-0.
18. Integrated multi-omics analysis of zinc-finger proteins uncovers roles in RNA regulation
Gosztyla ML et al. Mol Cell. 2024 Sep 16:S1097-2765(24)00664-6. doi: 10.1016/j.molcel.2024.08.010. Online ahead of print.
19. Direct targets of MEF2C are enriched for genes associated with schizophrenia and cognitive function and are involved in neuron development and mitochondrial function
Ali D et al. PLoS Genet. 2024 Sep 11;20(9):e1011093. doi: 10.1371/journal.pgen.1011093. eCollection 2024 Sep.
20. IRescue: uncertainty-aware quantification of transposable elements expression at single cell level
Polimeni B et al. Nucleic Acids Res. 2024 Sep 13:gkae793. doi: 10.1093/nar/gkae793. Online ahead of print.
21. Patient-derived xenografts and single-cell sequencing identifies three subtypes of tumor-reactive lymphocytes in uveal melanoma metastases
Karlsson JW et al. Elife. 2024 Sep 23;12:RP91705. doi: 10.7554/eLife.91705.
22. Dynamic chromatin architecture identifies new autoimmune-associated enhancers for IL2 and novel genes regulating CD4+ T cell activation
Pahl MC et al. Elife. 2024 Sep 20;13:RP96852. doi: 10.7554/eLife.96852.
23. Post-transcriptional reprogramming by thousands of mRNA untranslated regions in trypanosomes
Trenaman A et al. Nat Commun. 2024 Sep 16;15(1):8113. doi: 10.1038/s41467-024-52432-0.
24. A comparative analysis of planarian genomes reveals regulatory conservation in the face of rapid structural divergence
Ivanković M et al. Nat Commun. 2024 Sep 19;15(1):8215. doi: 10.1038/s41467-024-52380-9.
25. PRDM3/16 regulate chromatin accessibility required for NKX2-1 mediated alveolar epithelial differentiation and function
He H et al. Nat Commun. 2024 Sep 16;15(1):8112. doi: 10.1038/s41467-024-52154-3.
26. Proteome-wide copy-number estimation from transcriptomics
Sweatt AJ et al. Mol Syst Biol. 2024 Sep 27. doi: 10.1038/s44320-024-00064-3. Online ahead of print.
27. Coagulation factor X promotes resistance to androgen-deprivation therapy in prostate cancer
Calì B et al. Cancer Cell. 2024 Sep 16:S1535-6108(24)00317-9. doi: 10.1016/j.ccell.2024.08.018. Online ahead of print.
28. scMMO-atlas: a single cell multimodal omics atlas and portal for exploring fine cell heterogeneity and cell dynamics
Cheng W et al. Nucleic Acids Res. 2024 Sep 24:gkae821. doi: 10.1093/nar/gkae821. Online ahead of print.
29. A single rare σ70 variant establishes a unique gene expression pattern in the E. coli pathobiont LF82
Arroyo-Mendoza M et al. Nucleic Acids Res. 2024 Sep 11:gkae773. doi: 10.1093/nar/gkae773. Online ahead of print.
30. DMDA-PatA mediates RNA sequence-selective translation repression by anchoring eIF4A and DDX3 to GNG motifs
Saito H et al. Nat Commun. 2024 Sep 2;15(1):7418. doi: 10.1038/s41467-024-51635-9.
31. SRSF2 is a key player in orchestrating the directional migration and differentiation of MyoD progenitors during skeletal muscle development
Sha R et al. Elife. 2024 Sep 9;13:RP98175. doi: 10.7554/eLife.98175.
32. DORQ-seq: high-throughput quantification of femtomol tRNA pools by combination of cDNA hybridization and Deep sequencing
Marco K et al. Nucleic Acids Res. 2024 Sep 11:gkae765. doi: 10.1093/nar/gkae765. Online ahead of print.
33. Pleiotropic effects of PAB1 deletion: Extensive changes in the yeast proteome, transcriptome, and translatome
Mangkalaphiban K et al. PLoS Genet. 2024 Sep 5;20(9):e1011392. doi: 10.1371/journal.pgen.1011392. eCollection 2024 Sep.
34. PDIA3 defines a novel subset of adipose macrophages to exacerbate the development of obesity and metabolic disorders
Luo JH et al. Cell Metab. 2024 Sep 16:S1550-4131(24)00361-9. doi: 10.1016/j.cmet.2024.08.009. Online ahead of print.
35. Targeting ribosome biogenesis as a novel therapeutic approach to overcome EMT-related chemoresistance in breast cancer
Ban Y et al. Elife. 2024 Sep 11;12:RP89486. doi: 10.7554/eLife.89486.
36. OVO positively regulates essential maternal pathways by binding near the transcriptional start sites in the Drosophila female germline
Benner L et al. Elife. 2024 Sep 18;13:RP94631. doi: 10.7554/eLife.94631.
37. Genetic variation in CCDC93 is associated with elevated central systolic blood pressure, impaired arterial relaxation, and mitochondrial dysfunction
Kumar N et al. PLoS Genet. 2024 Sep 9;20(9):e1011151. doi: 10.1371/journal.pgen.1011151. eCollection 2024 Sep.
38. ParSE-seq: a calibrated multiplexed assay to facilitate the clinical classification of putative splice-altering variants
O'Neill MJ et al. Nat Commun. 2024 Sep 27;15(1):8320. doi: 10.1038/s41467-024-52474-4.
39. RPFdb v3.0: an enhanced repository for ribosome profiling data and related content
Wang Y et al. Nucleic Acids Res. 2024 Sep 25:gkae808. doi: 10.1093/nar/gkae808. Online ahead of print.
40. Scalable and unsupervised discovery from raw sequencing reads using SPLASH2
Kokot M et al. Nat Biotechnol. 2024 Sep 23. doi: 10.1038/s41587-024-02381-2. Online ahead of print.
41. Author Correction: NERD-seq: a novel approach of Nanopore direct RNA sequencing that expands representation of non-coding RNAs
Saville L et al. Genome Biol. 2024 Sep 26;25(1):249. doi: 10.1186/s13059-024-03395-4.
42. Human cells contain myriad excised linear intron RNAs with links to gene regulation and potential utility as biomarkers
Yao J et al. PLoS Genet. 2024 Sep 26;20(9):e1011416. doi: 10.1371/journal.pgen.1011416. Online ahead of print.
43. Profound cellular defects attribute to muscular pathogenesis in the rhesus monkey model of Duchenne muscular dystrophy
Ren S et al. Cell. 2024 Sep 13:S0092-8674(24)00970-X. doi: 10.1016/j.cell.2024.08.041. Online ahead of print.
44. Notch signaling regulates macrophage-mediated inflammation in metabolic dysfunction-associated steatotic liver disease
Guo W et al. Immunity. 2024 Sep 19:S1074-7613(24)00414-X. doi: 10.1016/j.immuni.2024.08.016. Online ahead of print.
45. Protein profiling of zebrafish embryos unmasks regulatory layers during early embryogenesis
da Silva Pescador G et al. Cell Rep. 2024 Sep 19;43(10):114769. doi: 10.1016/j.celrep.2024.114769. Online ahead of print.
46. Multidimensional profiling of human T cells reveals high CD38 expression, marking recent thymic emigrants and age-related naive T cell remodeling
Bohacova P et al. Immunity. 2024 Sep 17:S1074-7613(24)00418-7. doi: 10.1016/j.immuni.2024.08.019. Online ahead of print.
47. A sexually dimorphic hepatic cycle of periportal VLDL generation and subsequent pericentral VLDLR-mediated re-uptake
Martini T et al. Nat Commun. 2024 Sep 28;15(1):8422. doi: 10.1038/s41467-024-52751-2.
48. Optimized periphery-core interface increases fitness of the Bacillus subtilisglmS ribozyme
Yu LD et al. Nucleic Acids Res. 2024 Sep 25:gkae830. doi: 10.1093/nar/gkae830. Online ahead of print.
49. Single-cell analysis via manifold fitting: A framework for RNA clustering and beyond
Yao Z et al. Proc Natl Acad Sci U S A. 2024 Sep 10;121(37):e2400002121. doi: 10.1073/pnas.2400002121. Epub 2024 Sep 3.
50. Molecular and spatial signatures of human and rat corpus cavernosum physiopathological processes at single-cell resolution
Yin Y et al. Cell Rep. 2024 Sep 24;43(9):114760. doi: 10.1016/j.celrep.2024.114760. Epub 2024 Sep 18.
51. Soul is a master control gene governing the development of the Drosophila prothoracic gland
Liu W et al. Proc Natl Acad Sci U S A. 2024 Oct;121(40):e2405469121. doi: 10.1073/pnas.2405469121. Epub 2024 Sep 23.
52. Qki5 safeguards spinal motor neuron function by defining the motor neuron-specific transcriptome via pre-mRNA processing
Hayakawa-Yano Y et al. Proc Natl Acad Sci U S A. 2024 Sep 10;121(37):e2401531121. doi: 10.1073/pnas.2401531121. Epub 2024 Sep 3.
53. Mass Spectrometry-Based Direct Sequencing of tRNAs De Novo and Quantitative Mapping of Multiple RNA Modifications
Yuan X et al. J Am Chem Soc. 2024 Sep 18;146(37):25600-25613. doi: 10.1021/jacs.4c07280. Epub 2024 Sep 4.
54. Three-dimensional chromatin mapping of sensory neurons reveals that promoter-enhancer looping is required for axonal regeneration
Palmisano I et al. Proc Natl Acad Sci U S A. 2024 Sep 17;121(38):e2402518121. doi: 10.1073/pnas.2402518121. Epub 2024 Sep 10.
55. Areal specializations in the morpho-electric and transcriptomic properties of primate layer 5 extratelencephalic projection neurons
Dembrow NC et al. Cell Rep. 2024 Sep 24;43(9):114718. doi: 10.1016/j.celrep.2024.114718. Epub 2024 Sep 14.
56. Unraveling the phenotypic states of human innate-like T cells: Comparative insights with conventional T cells and mouse models
Loh L et al. Cell Rep. 2024 Sep 24;43(9):114705. doi: 10.1016/j.celrep.2024.114705. Epub 2024 Sep 10.
57. Claudin 7 suppresses invasion and metastasis through repression of a smooth muscle actin program
West JJ et al. J Cell Biol. 2024 Dec 2;223(12):e202311002. doi: 10.1083/jcb.202311002. Epub 2024 Sep 25.
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