{"database":"Pride","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Txt":["ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/checksum.txt"],"Pdf":["ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/report.pdf","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/summary_report.pdf"],"Other":["ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Sen-P-1_Slot1-67_1_21927.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Sen-C-1_Slot1-66_1_21926.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Anti-P-1_Slot1-65_1_21925.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Sen-C-3_Slot1-70_1_21931.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Anti-C-1_Slot1-64_1_21924.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Anti-C-3_Slot1-68_1_21929.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Sen-P-3_Slot1-71_1_21932.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/YAS202503280009-1-Anti-P-3_Slot1-69_1_21930.d.zip","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075354/txt.zip"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"labhead_mail":["heyonghan@mail.kiz.ac.cn"],"submitter":["Yan Zhang"],"technology_type":["Affinity purification coupled with mass spectrometry proteomics","Mass Spectrometry"],"disease":["Disease Free"],"software":[""],"submitter_keywords":["Rbms","Interactome","Protein-rna interaction","Primate-specific lncrna","Proteomics","Linc01021","Lncrna","Rna-binding protein","Mass spectrometry","Rna pull-down","Long non-coding rna"],"full_dataset_link":["https://www.ebi.ac.uk/pride/archive/projects/PXD075354"],"tissue":["Embryonic Fibroblast","Cell Culture"],"sample_protocol":["Biotin-labeled RNA was prepared by in vitro transcription using T7 RNA polymerase (K102A01, Perfect mRNA, Hangzhou, China), followed by 3′-end biotinylation with the Pierce™ RNA 3′ End Desthiobiotinylation Kit (20163, Thermo Fisher Scientific) according to the manufacturer's instructions.  For RNA pull-down, 50 pmol of biotinylated RNA was refolded in RNA structure buffer (10 mM Tris pH 7.0, 100 mM KCl, 10 mM MgCl₂) by heating at 85 °C for 5 min and snap-cooling on ice. RNA-protein complexes were captured from cell lysates using the Pierce™ Magnetic RNA-Protein Pull-Down Kit (20164, Thermo Fisher Scientific) as previously described [38].  Bound complexes were washed, eluted, and denatured in 5× SDS loading buffer. Recovered proteins were separated by gradient SDS-PAGE. Gel regions of interest were excised, subjected to in-gel trypsin digestion, and the resulting peptides were extracted for subsequent liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis to identify interacting proteins."],"repository":["Pride"],"quantification_method":[""],"modification":[""],"data_protocol":["Raw mass spectrometry data (.d folders) acquired on a Bruker timsTOF Pro mass spectrometer coupled with a nanoElute UHPLC system in PASEF mode were processed by the service provider (Zhongke New Life) using MaxQuant software (version 1.6.14). Database search was performed against the UniProt Homo sapiens proteome (uniprot_Homo_sapiens_205104_20250111, downloaded 2025-01-11) concatenated with common contaminants and reversed decoy sequences. Search parameters were as follows: enzyme = Trypsin (maximum 2 missed cleavages), fixed modification = Carbamidomethyl (C), variable modification = Oxidation (M), precursor mass tolerance = 20 ppm, fragment mass tolerance = 0.1 Da.  Peptide and protein identifications were filtered at 1% false discovery rate (FDR) at both peptide and protein levels. Intensity-based absolute quantification (iBAQ) was enabled.  For full details of acquisition parameters (including ion source voltage 1.5 kV, MS/MS scan range 100-1700 m/z, dynamic exclusion 24 s) and the complete protein identification list, refer to the attached service report (summary_report.pdf, included as \"OTHER\" file type)."],"omics_type":["Proteomics"],"labhead":["Yonghan He"],"instrument_platform":[""],"labhead_affiliation":["1. State Key Laboratory of Genetic Evolution & Animal Models, Key Laboratory of Healthy Aging Research of Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650201, China 2. University of Chinese Academy of Sciences, Beijing 100101, China 3. KIZ/CUHK Joint Laboratory of Bioresources and Molecular Research in Common Diseases, Kunming 650201, China"],"submission_type":["PARTIAL"],"species":["Homo Sapiens (human)"],"submitter_mail":["zhangyan1@mail.kiz.ac.cn"],"publication":["42348295 Zhang Y, Hu L, Dong X, Zeng Q, Zi M, Nisar A, Khan S, Bai R, Liu C, Ge M, Pu S, Li G, He Y. A Primate-Specific lncRNA LINC01021 Contributes to Cellular and Organismal Aging via DAZAP1-Dependent Destabilization of RBMX. Aging Cell. 2026 25(7):e70603 10.1111/acel.70603"],"submitter_affiliation":["State Key Laboratory of Genetic Evolution & Animal Models, Key Laboratory of Healthy Aging Research of Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650201, China"],"submitter_country":["China"],"pubmed_abstract":["Aging is characterized by progressive physiological decline and age-related pathologies, yet the molecular determinants underlying lineage- and species-specific aging traits remain poorly understood. Although protein-coding regulators have dominated aging research, the contribution of long non-coding RNAs (lncRNAs), particularly primate-specific lncRNAs, has not been systematically explored. Here, through evolutionary screening and cross-species aging-associated analyses, we identified a set of primate-specific lncRNAs (including LINC01021, CTC-575 l10.1, CTA-150C2.13, and RP11-305F18.1, etc.) associated with human aging, and we functionally characterized LINC01021 as a representative candidate to assess their causal involvement. In human cells, LINC01021 promotes cellular senescence, whereas its silencing attenuates senescence-associated phenotypes. Mechanistically, LINC01021 is predominantly located in the nucleus, where it facilitates DAZAP1-dependent destabilization of RBMX mRNA, leading to activation of the P53 pathway and induction of canonical senescence features. At the organismal level, ectopic expression of human LINC01021 in mice contributes to aging-like phenotypes, including increased frailty and impaired motor coordination. Together, these findings implicate primate-specific lncRNAs in lineage-restricted aging and highlight an evolutionarily recent regulatory layer that may modulate aging trajectories."],"pubmed_title":["A Primate-Specific lncRNA LINC01021 Contributes to Cellular and Organismal Aging via DAZAP1-Dependent Destabilization of RBMX."],"pubmed_authors":["Zhang Yan Y, Hu Li L, Dong Xin X, Zeng Qinghua Q, Zi Meiting M, Nisar Ayesha A, Khan Sawar S, Bai Raoxian R, Liu Chonghui C, Ge Mingxia M, Pu Shaoyan S, Li Gonghua G, He Yonghan Y"],"additional_accession":[]},"is_claimable":false,"name":"Proteomic identification of primate-specific lncRNA LINC01021 interactors via RNA pull-down MS","description":"Long non-coding RNAs (lncRNAs) play critical regulatory roles in primate-specific biological processes, yet many primate-specific lncRNAs and their protein interactors remain poorly characterized. In this study, we focused on primate-specific lncRNAs as potential drivers of protein interactions. Using RNA affinity pull-down coupled with liquid chromatography-tandem mass spectrometry (LC-MS/MS), we identified proteins interacting with LINC01021 in primate-derived cells. Key findings include specific enrichment of RBMS proteins, suggesting a functional role in RNA metabolism or gene regulation. This dataset provides proteomic evidence for primate-specific lncRNA-protein interactions and contributes to understanding evolutionary adaptations in primates.","dates":{"publication":"2026-06-29","submission":"2026-03-07"},"accession":"PXD075354","cross_references":{"TAXONOMY":["NEWT:6945","NEWT:3555","NEWT:2","NEWT:157546","NEWT:35554","NEWT:38942","NEWT:307972","NEWT:32046","NEWT:544496","NEWT:2042546","NEWT:45351","NEWT:43179","NEWT:4513","NEWT:5722","NEWT:376741","NEWT:55153","NCBITaxon:10407","NEWT:1736309","NEWT:309800","NEWT:1211601","NEWT:876138","NEWT:237561","NEWT:5833","NEWT:6928","NEWT:10036","NEWT:36745","NEWT:1351","NEWT:1438992","NEWT:2649997","NEWT:272563","NEWT:224326","NCBITaxon:79857","NEWT:1096976","NEWT:95648","NEWT:3885","NEWT:3888","NEWT:1589","NEWT:135622","NEWT:6915","NEWT:3649","NEWT:101510","NEWT:3880","NEWT:272559","NEWT:3641","NEWT:383379","NEWT:466585","NEWT:10029","NEWT:1000589","NEWT:85963","NEWT:85962","NEWT:317447","NEWT:7955","NEWT:7959","NEWT:2261","NEWT:31156","NEWT:398580","NEWT:4565","NEWT:1264690","NEWT:515619","NEWT:192875","NEWT:34305","NEWT:59729","NCBITaxon:183674","NEWT:224308","NEWT:84645","NEWT:626528","NEWT:139927","NEWT:4558","NEWT:209285","NEWT:1283","NEWT:931281","NEWT:4550","NEWT:1000561","NEWT:197","NCBITaxon:79824","NEWT:4787","NCBITaxon:4563","NEWT:5755","NEWT:44689","NEWT:3218","NEWT:5759","NEWT:1736231","NEWT:1270","NEWT:2242","NEWT:4784","NEWT:11320","NEWT:360106","NEWT:286","NEWT:287","NEWT:10117","NEWT:10239","NEWT:10116","NEWT:1280","NEWT:1735272","NEWT:83334","NEWT:83332","NEWT:44685","NEWT:317513","NEWT:1148","NEWT:580240","NEWT:294128","NEWT:11676","NEWT:55571","NEWT:100226","NEWT:4530","NEWT:4896","NEWT:75058","NEWT:13616","NEWT:1094343","NEWT:296543","NEWT:1773","NEWT:1895","NEWT:1182590","NEWT:3712","NEWT:935293","NEWT:64152","NEWT:4924","NEWT:749200","NEWT:990346","NEWT:145953","NEWT:257309","NEWT:100816","NEWT:263","NEWT:230741","NEWT:52283","NEWT:284812","NCBITaxon:1313","NEWT:43330","NEWT:1603293","NEWT:408169","NEWT:44544","NEWT:4911","NEWT:645463","NEWT:3702","NEWT:129249","NEWT:243277","NEWT:990119","NEWT:408172","NEWT:408170","NEWT:493760","NEWT:260710","NEWT:257313","NEWT:400772","NEWT:3708","NEWT:128161","NEWT:332648","NEWT:106592","NEWT:536231","NEWT:460519","NEWT:1187947","NEWT:1432138","NEWT:10312","NEWT:1424507","NCBITaxon:1773","NEWT:9598","NEWT:8030","NEWT:1639","NEWT:188229","NEWT:3818","NEWT:480","NEWT:4909","NEWT:67767","NEWT:432359","NEWT:46835","NEWT:1182263","NEWT:2711","NEWT:376686","NEWT:95486","NEWT:9103","NEWT:29159","NEWT:253","NEWT:10306","NCBITaxon:2759","NEWT:1233435","NEWT:8022","NEWT:145943","NCBITaxon:4932","NEWT:595536","NEWT:240906","NEWT:593117","NEWT:3635","NEWT:5811","NEWT:235443","NEWT:272624","NEWT:411483","NEWT:884019","NEWT:198215","NEWT:411490","NEWT:983964","NEWT:169963","NEWT:32644","NEWT:499175","NEWT:109779","NEWT:476272","NEWT:3747","NEWT:195051","NEWT:367830","NEWT:1255228","NEWT:178616","NEWT:410289","NEWT:373153","NEWT:352472","NEWT:357","NEWT:360094","NEWT:470","NEWT:1313","NEWT:411469","NEWT:84023","NEWT:559292","NEWT:39491","NCBITaxon:5811","NEWT:411464","NEWT:411460","NEWT:2014887","NEWT:2762","NEWT:1174673","NEWT:562","NEWT:411470","NEWT:33952","NEWT:2094720","NCBITaxon:2697049","NEWT:571256","NEWT:28038","NEWT:1663","NEWT:1423","NEWT:4932","NEWT:3603","NEWT:2759","NEWT:3847","NEWT:327159","NEWT:178876","NEWT:327160","NEWT:573","NEWT:9031","NEWT:7091","NEWT:241368","NEWT:42528","NEWT:190802","NEWT:9778","NEWT:150475","NEWT:303","NEWT:9417","NEWT:7111","NEWT:347515","NEWT:1216979","NEWT:5180","NEWT:256737","NEWT:115104","NEWT:1121114","NEWT:663","NEWT:1081927","NEWT:1238993","NEWT:67825","NEWT:185579","NEWT:941442","NEWT:220668","NEWT:13076","NEWT:1249668","NEWT:7108","NEWT:317","NEWT:7227","NEWT:7469","NEWT:885318","NEWT:9402","NEWT:415540","NEWT:550","NEWT:675060","NEWT:4081","NEWT:334542","NEWT:554","NEWT:98334","NEWT:426428","NEWT:7574","NEWT:1715256","NEWT:7215","NEWT:575412","NEWT:29204","NEWT:2172103","NEWT:507601","NEWT:643680","NCBITaxon:6157","NEWT:746360","NEWT:6239","NEWT:470150","NEWT:216257","NEWT:102169","NEWT:9986","NEWT:4054","NEWT:73239","NEWT:226186","NEWT:1268063","NEWT:8782","NEWT:1263854","NEWT:435590","NEWT:1902","NEWT:160488","NEWT:28104","NEWT:1908","NCBITaxon:2","NEWT:985076","NEWT:1215323","NEWT:52641","NEWT:7038","NEWT:6192","NEWT:28532","NCBITaxon:38727","NEWT:353152","NEWT:2829","NEWT:366581","NEWT:216599","NEWT:216595","NEWT:51329","NEWT:243230","NEWT:8355","NEWT:9685","NEWT:7029","NEWT:1080772","NEWT:1283300","NEWT:6183","NEWT:6063","NEWT:334747","NEWT:61235","NEWT:6289","NEWT:436486","NEWT:6287","NEWT:300641","NEWT:727","NEWT:9796","NEWT:725","NEWT:170187","NEWT:260707","NCBITaxon:6191","NEWT:1836","NEWT:185431","NEWT:29760","NEWT:260704","NEWT:703612","NEWT:260705","NEWT:80863","NEWT:2697049","NEWT:105231","NEWT:1216981","NCBITaxon:6073","NEWT:884204","NEWT:6279","NEWT:1123869","NEWT:9544","NEWT:7370","NEWT:83906","NEWT:607699","NEWT:6282","NEWT:208964","NEWT:1134506","NEWT:575584","NEWT:38783","NEWT:8727","NEWT:4006","NEWT:8726","NEWT:6426","NEWT:6669","NEWT:10090","NEWT:4120","NEWT:51515","NEWT:569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