{"database":"Pride","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Txt":["ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/checksum.txt"],"Xml":["ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/combined.prot.xml"],"Raw":["ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN6.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN12.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN4.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN2.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN8.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN1.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN11.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN7.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN9.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN3.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN10.raw","ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/BRI_E-02_DDA_20230414_IBS-shank2_TIS_PHO-TMT16_S1-FN5.raw"],"Fasta":["ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/04/PXD061254/20220506_uniprot-proteome_UP000000589.fasta"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"labhead_mail":["kime@kaist.ac.kr"],"submitter":["Junyeop Roh"],"technology_type":["Mass Spectrometry","Top-down proteomics"],"software":[""],"submitter_keywords":["Slc6a20a","Aso","Shank2 ko"],"full_dataset_link":["https://www.ebi.ac.uk/pride/archive/projects/PXD061254"],"tissue":["Brain"],"sample_protocol":["Whole brains from vehicle- or ASO-treated male mutant mice (Shank2-KO) and wild-type controls were homogenized at 4°C using a handheld homogenizer in lysis buffer containing 8 M urea, 100 mM ammonium bicarbonate, and phosphatase inhibitors. The lysates were centrifuged, further sonicated, reduced with 10 mM DTT, and alkylated with 25 mM IAA. Samples were then digested with trypsin (0.4 μg/μL; Promega, 1:25 enzyme:protein ratio), desalted, and reconstituted. The peptides were labeled with a 16-plex TMT reagent (isotope 9) and desalted again to remove excess reagent LC-MS/MS analysis was performed on a Nano-LC Ultimate 3000 system coupled to a Thermo Orbitrap Exploris 480. Phosphopeptides were enriched using IMAC magnetic beads (Cell Signaling) according to the manufacturer's instructions. The samples were subsequently fractionated into 12 fractions using a high-pH fractionation kit (Thermo Scientific), dried in a SpeedVac, and reconstituted in 0.1% TFA prior to MS analysis"],"repository":["Pride"],"quantification_method":[""],"modification":[""],"data_protocol":["The LC-DDA-MS/MS data were processed using the Comet 10 search engine with the following parameters: a precursor and fragment mass tolerance of 20 ppm, a semi-tryptic peptide search allowing up to two missed cleavages with peptide lengths between 7 and 50 amino acids, and carbamidomethylation of cysteine as a fixed modification with oxidation of methionine as a variable modification, using the UniProt mouse reference database (2022 release). Modification localization was carried out using FragPipe (version 18) with PTMProphet 11, and identification results were filtered with Percolator 12 and ProteinProphet 4, applying a 1% false discovery rate at the PSM, peptide, and protein levels."],"omics_type":["Proteomics"],"labhead":["Eunjoon Kim"],"instrument_platform":[""],"labhead_affiliation":["IBS, KAIST"],"submission_type":["PARTIAL"],"species":["Mus Musculus (mouse)"],"submitter_mail":["droh1028@gmail.com"],"publication":["Not available"],"submitter_affiliation":["IBS Institute for Basic Science"],"submitter_country":["South Korea"],"additional_accession":[]},"is_claimable":false,"name":"ASO treated adult Shank2 KO mice phosphoproteome","description":"Decreased NMDA receptor function is a central mechanism implicated in various brain disorders, and extensive efforts to modulate NMDAR activity have been devoted in various therapeutic settings. We have previously established Slc6a20a as a novel glycine transporter, and using an antisense oligonucleotide ASO against Slc6a20a, we sought to modulate NMDAR function in well-established models of psychiatric disorders Shank2 and Shank3 mutant mice.","dates":{"publication":"2026-04-24","submission":"2025-02-27"},"accession":"PXD061254","cross_references":{"TAXONOMY":["NEWT:6945","NEWT:184922","NEWT:6703","NEWT:3555","NEWT:71647","NEWT:2","NEWT:157546","NEWT:474186","NEWT:35554","NEWT:38942","NEWT:307972","NEWT:32046","NEWT:1496","NEWT:544496","NEWT:2102","NEWT:2042546","NEWT:259447","NEWT:45351","NEWT:43179","NEWT:4513","NEWT:180454","NEWT:5722","NEWT:1247","NEWT:6938","NEWT:1129","NEWT:55153","NCBITaxon:10407","NEWT:1736309","NEWT:309800","NEWT:281395","NEWT:10360","NEWT:1211601","NEWT:876138","NEWT:47664","NEWT:317548","NEWT:3654","NEWT:237561","NEWT:5833","NEWT:6928","NEWT:10036","NEWT:36745","NEWT:498019","NEWT:1351","NEWT:1438992","NEWT:1352","NEWT:2649997","NEWT:272563","NEWT:224326","NEWT:1333499","NCBITaxon:79857","NEWT:1096976","NEWT:82688","NEWT:95648","NEWT:3885","NEWT:3888","NEWT:5821","NEWT:1589","NEWT:135622","NCBITaxon:4896","NEWT:6915","NEWT:3649","NEWT:101510","NEWT:28903","NEWT:3880","NEWT:272559","NEWT:28909","NEWT:515849","NEWT:3641","NEWT:383379","NEWT:466585","NEWT:10029","NEWT:913645","NEWT:1000589","NEWT:85963","NEWT:85962","NEWT:143361","NEWT:317447","NEWT:4688","NEWT:7955","NEWT:7959","NEWT:2261","NEWT:31156","NEWT:398580","NEWT:4442","NEWT:4565","NEWT:1264690","NEWT:515619","NEWT:192875","NEWT:34305","NEWT:59729","NEWT:2164133","NCBITaxon:183674","NEWT:224308","NEWT:167387","NEWT:84645","NEWT:44586","NEWT:626528","NEWT:3347","NEWT:139927","NEWT:4558","NEWT:209285","NEWT:5888","NEWT:211586","NEWT:747078","NEWT:1282","NEWT:1283","NEWT:931281","NEWT:4550","NEWT:1000561","NEWT:294381","NEWT:197","NEWT:1390363","NEWT:77133","NEWT:288705","NEWT:29176","NEWT:145481","NCBITaxon:79824","NEWT:4787","NCBITaxon:4563","NEWT:5755","NEWT:44689","NEWT:3218","NEWT:5759","NEWT:1736231","NEWT:556182","NEWT:1270","NEWT:374990","NEWT:1392","NEWT:498217","NEWT:156471","NEWT:2242","NEWT:4784","NEWT:11320","NEWT:360106","NEWT:156476","NEWT:286","NEWT:391619","NEWT:360104","NEWT:246196","NEWT:287","NEWT:246197","NEWT:10117","NEWT:10239","NEWT:10116","NEWT:1280","NEWT:1735272","NEWT:83334","NEWT:83332","NEWT:44685","NEWT:317513","NEWT:161934","NEWT:1148","NEWT:580240","NEWT:5508","NEWT:294128","NEWT:5507","NEWT:11676","NEWT:55571","NEWT:35500","NEWT:1140","NEWT:100226","NEWT:4530","NEWT:1143","NEWT:4896","NEWT:75058","NEWT:13616","NEWT:1390","NEWT:1094343","NEWT:1336795","NEWT:644042","NEWT:296543","NEWT:316435","NEWT:42157","NEWT:1773","NEWT:1895","NEWT:1182590","NEWT:3712","NEWT:82380","NEWT:1034304","NEWT:105023","NEWT:866628","NEWT:935293","NEWT:64152","NEWT:4924","NEWT:749200","NEWT:375146","NEWT:9378","NEWT:990346","NEWT:145953","NEWT:257309","NEWT:100816","NEWT:263","NEWT:230741","NEWT:52283","NEWT:284812","NEWT:8175","NCBITaxon:1313","NEWT:43330","NEWT:1603293","NEWT:408169","NEWT:44544","NEWT:47946","NEWT:4911","NEWT:645463","NEWT:3702","NEWT:129249","NEWT:1077286","NEWT:243277","NEWT:990119","NEWT:2850","NEWT:408172","NEWT:227321","NEWT:408170","NEWT:493760","NEWT:106590","NEWT:260710","NEWT:257313","NEWT:3827","NEWT:400772","NEWT:3708","NEWT:128161","NEWT:332648","NEWT:930945","NEWT:106592","NEWT:536231","NEWT:46704","NEWT:1436733","NEWT:460519","NEWT:1187947","NEWT:572307","NEWT:1432138","NEWT:269796","NEWT:10312","NEWT:1424507","NCBITaxon:1773","NEWT:1194599","NEWT:272844","NEWT:54571","NEWT:9598","NEWT:8030","NEWT:1513458","NCBITaxon:40559","NEWT:1639","NEWT:188229","NEWT:3818","NEWT:480","NEWT:4909","NEWT:67767","NEWT:759272","NEWT:432359","NEWT:46835","NEWT:1182263","NEWT:109757","NEWT:943146","NEWT:2711","NEWT:300852","NEWT:1502","NEWT:376686","NEWT:95486","NEWT:9103","NEWT:508771","NEWT:1883446","NEWT:29159","NEWT:253","NEWT:10306","NCBITaxon:2759","NEWT:1233435","NEWT:93061","NEWT:8022","NEWT:145943","NCBITaxon:4932","NEWT:595536","NEWT:240906","NEWT:593117","NEWT:89920","NEWT:29158","NEWT:3635","NEWT:5811","NEWT:235443","NEWT:180923","NEWT:108458","NEWT:272623","NEWT:272624","NEWT:411483","NEWT:884019","NEWT:198215","NEWT:411490","NEWT:983964","NEWT:118499","NEWT:169963","NEWT:32644","NEWT:527796","NEWT:225117","NEWT:746128","NEWT:499175","NEWT:109779","NEWT:43665","NEWT:1266464","NEWT:1715989","NEWT:476272","NEWT:3747","NEWT:195051","NEWT:367830","NEWT:1255228","NEWT:178616","NEWT:649908","NEWT:410289","NEWT:373153","NEWT:375451","NEWT:352472","NEWT:357","NEWT:1071661","NEWT:360094","NEWT:470","NEWT:41364","NEWT:1313","NEWT:411469","NEWT:84023","NEWT:559292","NEWT:39491","NCBITaxon:5811","NEWT:29491","NEWT:411464","NEWT:411460","NEWT:2014887","NEWT:2762","NEWT:1174673","NEWT:1328426","NEWT:562","NEWT:411470","NEWT:33952","NEWT:2094720","NCBITaxon:2697049","NEWT:571256","NCBITaxon:138","NEWT:40483","NEWT:28038","NEWT:1663","NEWT:1423","NEWT:4932","NEWT:3603","NEWT:2759","NEWT:3847","NEWT:38293","NEWT:1428","NEWT:327159","NEWT:178876","NEWT:1660","NEWT:327160","NEWT:573","NEWT:9031","NEWT:1872122","NEWT:7091","NEWT:108931","NEWT:241368","NEWT:1055524","NEWT:42528","NEWT:190802","NEWT:9778","NEWT:150475","NEWT:303","NEWT:9417","NEWT:7111","NEWT:347515","NEWT:1216979","NEWT:7237","NEWT:9534","NEWT:5180","NEWT:256737","NEWT:9541","NEWT:115104","NEWT:1121114","NEWT:663","NEWT:1081927","NEWT:1238993","NEWT:67825","NEWT:187878","NEWT:185579","NEWT:941442","NEWT:220668","NEWT:13076","NEWT:1821314","NEWT:1249668","NEWT:7108","NEWT:317","NEWT:5286","NEWT:7227","NEWT:7469","NEWT:885318","NEWT:9402","NEWT:9644","NEWT:415540","NEWT:550","NEWT:675060","NEWT:4081","NEWT:334542","NEWT:273068","NEWT:554","NEWT:27592","NEWT:98334","NEWT:426428","NEWT:451516","NEWT:63459","NEWT:36185","NEWT:588858","NEWT:1225786","NEWT:9639","NCBITaxon:11071","NEWT:242231","NEWT:7574","NEWT:1715256","NEWT:197221","NEWT:7215","NEWT:575412","NEWT:929793","NEWT:29204","NEWT:28112","NEWT:2172103","NEWT:6494","NEWT:7460","NEWT:6491","NEWT:507601","NEWT:643680","NCBITaxon:6157","NEWT:42752","NEWT:746360","NEWT:6239","NEWT:89764","NEWT:470150","NEWT:162425","NEWT:216257","NEWT:102169","NEWT:543734","NEWT:9986","NEWT:4054","NEWT:73239","NEWT:226186","NEWT:1268063","NEWT:8782","NEWT:1263854","NEWT:118503","NEWT:2059687","NEWT:115357","NEWT:435590","NEWT:1902","NEWT:160488","NEWT:28104","NEWT:1908","NEWT:13164","NEWT:216129","NCBITaxon:2","NEWT:985076","NEWT:1215323","NEWT:2664179","NEWT:986","NEWT:52641","NEWT:7038","NEWT:7159","NEWT:6192","NEWT:28532","NCBITaxon:38727","NEWT:353152","NEWT:2829","NEWT:366581","NEWT:216599","NEWT:216595","NEWT:1194669","NEWT:40559","NEWT:243230","NEWT:8355","NEWT:633","NEWT:9685","NEWT:7029","NEWT:1080772","NEWT:8479","NEWT:1283300","NEWT:186990","NEWT:632","NEWT:6183","NEWT:6063","NEWT:630","NEWT:49240","NEWT:334747","NEWT:61235","NEWT:15368","NEWT:6289","NEWT:436486","NEWT:6287","NEWT:300641","NEWT:727","NEWT:9796","NEWT:725","NEWT:170187","NEWT:469008","NEWT:260707","NEWT:256318","NEWT:206411","NCBITaxon:6191","NEWT:596153","NEWT:1836","NEWT:185431","NEWT:29760","NEWT:260704","NEWT:1719","NEWT:703612","NEWT:260705","NEWT:80863","NEWT:2697049","NEWT:105231","NEWT:1216981","NEWT:52638","NEWT:4097","NCBITaxon:6073","NEWT:884204","NEWT:9785","NEWT:6279","NEWT:1123869","NEWT:9544","NEWT:1329349","NEWT:7370","NEWT:83906","NEWT:607699","NCBITaxon:780","NCBITaxon:1502","NEWT:6282","NEWT:208963","NEWT:208964","NEWT:1134506","NEWT:575584","NEWT:38783","NEWT:8727","NEWT:4006","NEWT:8726","NEWT:6426","NEWT:6669","NEWT:10090","NEWT:9935","NEWT:89453","NEWT:4120","NEWT:51515","NEWT:5693","NEWT:2186","NEWT:8724","NEWT:51511","NEWT:8845","NEWT:92867","NEWT:8723","NEWT:92866","NEWT:5334","NEWT:37334","NEWT:51750","NEWT:382352","NCBITaxon:10359","NEWT:1203258","NEWT:242619","NEWT:160791","NEWT:632957","NEWT:34073","NEWT:373995","NEWT:544404","NEWT:9925","NEWT:89462","NEWT:8839","NEWT:4232","NEWT:2758385","NEWT:37349","NEWT:4113","NEWT:837","NEWT:11298","NEWT:171101","NEWT:714","NEWT:36015","NEWT:421932","NEWT:312017","NEWT:196627","NEWT:5691","NEWT:48479","NEWT:627025","NEWT:1097677","NEWT:375939","NEWT:61674","NEWT:870435","NEWT:1117957","NEWT:6526","NEWT:9913","NEWT:8709","NEWT:4100","NEWT:2666255","NEWT:1159556","NEWT:5671","NEWT:2285","NEWT:1076","NEWT:4101","NEWT:6763","NEWT:803","NEWT:29722","NEWT:380394","NEWT:1692259","NEWT:1486917","NEWT:981087","NEWT:180066","NEWT:226900","NEWT:468911","NEWT:7604","NEWT:135588","NEWT:1843183","NEWT:5661","NEWT:29719","NEWT:58002","NEWT:326423","NEWT:452467","NEWT:36111","NEWT:326424","NEWT:4577","NEWT:1416333","NEWT:5664","NEWT:2157","NEWT:1678078","NEWT:749906","NEWT:418985","NEWT:146479","NEWT:749907","NEWT:1042986","NEWT:1911079","NEWT:69373","NEWT:145263","NEWT:264203","NEWT:1480154","NEWT:694569","NEWT:1274414","NEWT:27606","NEWT:9739","NEWT:59202","NEWT:9975","NEWT:9612","NEWT:38626","NEWT:38865","NEWT:51953","NEWT:3077","NEWT:3197","NEWT:9615","NEWT:10299","NEWT:860688","NEWT:112273","NEWT:36329","NEWT:1147787","NEWT:62615","NCBITaxon:3044782","NEWT:1440772","NEWT:72407","NEWT:1355477","NEWT:349741","NEWT:9605","NEWT:9606","NEWT:90371","NEWT:157295","NEWT:641501","NEWT:4153","NEWT:2096","NEWT:7668","NEWT:915099","NEWT:74940","NEWT:9721","NEWT:137221","NEWT:9600","NEWT:9963","NEWT:1450511","NEWT:1143193","NEWT:1617910","NEWT:174934","NEWT:565050","NEWT:2823525","NEWT:2785785","NEWT:411901","NEWT:9838","NEWT:105884","NCBITaxon:9615","NEWT:9839","NEWT:58334","NEWT:1193501","NEWT:3055","NEWT:58331","NEWT:4146","NEWT:5478","NEWT:6326","NEWT:6689","NEWT:5476","NEWT:1450520","NEWT:299767","NEWT:28835","NEWT:1274432","NEWT:2053667","NEWT:1274426","NEWT:70448","NEWT:9825","NEWT:1274423","NEWT:393765","NEWT:698936","NEWT:39946","NEWT:9823","NEWT:9940","NEWT:95602","NEWT:8732","NEWT:521001","NEWT:192011","NEWT:1813887","NEWT:39947","NEWT:224911","NEWT:1274420","NEWT:578458"]}}