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"initials": "TJ", "orcid": "0000-0002-0151-6274", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/af6f5c1b5b7f4b9d84d4d388faa55c08.json"}}, {"family": "Szczesny", "given": "Roman J", "initials": "RJ", "orcid": "0000-0002-0686-1632", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c4fe6eba70a24eb88e802ee09251eace.json"}}, {"family": "Tamm", "given": "Tiina", "initials": "T", "orcid": "0000-0001-9943-2097", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2c0a7ed037a4480f8454c3a9e4fc60b3.json"}}, {"family": "Tch\u00f3rzewski", "given": "Marek", "initials": "M", "orcid": "0000-0002-0718-4223", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/86f1d373509e4823a1dacfa4127b85d6.json"}}, {"family": "Topisirovic", "given": "Ivan", "initials": "I", "orcid": "0000-0002-5510-9762", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1bca1813f34c4864940ac6593044a9cc.json"}}, {"family": "Tremblay", "given": "Michel L", "initials": "ML"}, {"family": "Tuller", "given": "Tamir", "initials": "T", "orcid": "0000-0003-4194-7068", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/bdfccdb3a02745e28f1a397858e7e4b9.json"}}, {"family": "Ulitsky", "given": "Igor", "initials": "I", "orcid": "0000-0003-0555-6561", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/fa0f7da96c85457c95b82698508d288f.json"}}, {"family": "Val\u00e1\u0161ek", "given": "Leo\u0161 Shivaya", "initials": "LS", "orcid": "0000-0001-8123-8667", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a73e4c57d07b45188685deb3fbe83043.json"}}, {"family": "Van Damme", "given": "Petra", "initials": "P", "orcid": "0000-0001-9090-027X", "researcher": {"href": 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"Jonathan S", "initials": "JS", "orcid": "0000-0003-2445-670X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/167955ef29a6467da39978796a45b39d.json"}}, {"family": "Westhof", "given": "Eric", "initials": "E", "orcid": "0000-0002-6172-5422", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b456ec58208e4ef8a904c5d4c5204c60.json"}}, {"family": "Whiffin", "given": "Nicola", "initials": "N", "orcid": "0000-0003-1554-6594", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/9c738b5f577f4c2f85df984f6c2ef75a.json"}}, {"family": "Wilson", "given": "Daniel N", "initials": "DN", "orcid": "0000-0003-3816-3828", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7c2d78750ccb42239a7363f99f58dcc5.json"}}, {"family": "Xie", "given": "Zhi", "initials": "Z", "orcid": "0000-0002-5589-4836", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f6b586aba1a94a9092e6f5360b8d16d9.json"}}, {"family": "Yewdell", "given": "Jonathan W", "initials": "JW", "orcid": "0000-0002-3826-1906", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d696816328e140119d0d21aaa071b3ef.json"}}, {"family": "Yordanova", "given": "Martina M", "initials": "MM", "orcid": "0000-0001-9693-3857", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4fc68392e93e47bdac1a23fe9fd1336e.json"}}, {"family": "Yu", "given": "Chien-Hung", "initials": "CH", "orcid": "0000-0003-0337-4473", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/31e0cb03fdfc484596ea24e4f2b83969.json"}}, {"family": "Yurchenko", "given": "Vyacheslav", "initials": "V", "orcid": "0000-0003-4765-3263", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5b4432f19e214f7d8c5f537b0dc4ae71.json"}}, {"family": "Zagrovic", "given": "Bojan", "initials": "B", "orcid": "0000-0002-1616-6713", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/86236ffacf2b4f1ca8ed29bc110f0478.json"}}, {"family": "TRANSLACORE", "given": "", "initials": ""}, {"family": "Valen", "given": "Eivind", "initials": "E", "orcid": "0000-0003-1840-6108", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4a3232e143b04064bc08681c3930847f.json"}}, {"family": "Baranov", "given": "Pavel V", "initials": "PV", "orcid": "0000-0001-9017-0270", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f9db030a647f4a72a9244d2052bbbd86.json"}}], "type": "letter", "published": "2025-10-00", "journal": {"title": "Nat. Methods", "issn": "1548-7105", "volume": "22", "issue": "10", "pages": "2002-2006", "issn-l": "1548-7091"}, "abstract": null, "doi": "10.1038/s41592-025-02810-3", "pmid": "40890551", "labels": [], "xrefs": [{"db": "pii", "key": "10.1038/s41592-025-02810-3"}], "notes": [], "created": "2026-08-20T09:03:33.962Z", "modified": "2026-08-20T09:03:37.514Z"}, {"entity": "publication", "iuid": "a312b3ce8eec4855b16873537f95a8bb", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/a312b3ce8eec4855b16873537f95a8bb.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/a312b3ce8eec4855b16873537f95a8bb"}}, "title": "Plasticity of the mammalian integrated stress response.", "authors": [{"family": "Chen", "given": "Chien-Wen", "initials": "CW", "orcid": "0000-0002-1214-4058", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/31bfc8f68c7f46c184b233efccd23651.json"}}, {"family": "Papadopoli", "given": "David", "initials": "D"}, {"family": "Szkop", "given": "Krzysztof J", "initials": "KJ"}, {"family": "Guan", "given": "Bo-Jhih", "initials": "BJ"}, {"family": "Alzahrani", "given": "Mohammed", "initials": "M", "orcid": "0000-0001-7291-5275", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2b8c5964a93e47eea6601cc9b13ae343.json"}}, {"family": "Wu", "given": "Jing", "initials": "J", "orcid": "0009-0000-5199-1199", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ac7a88e311aa495a93825a2a7065da88.json"}}, {"family": "Jobava", "given": "Raul", "initials": "R"}, {"family": "Asraf", "given": "Mais M", "initials": "MM"}, {"family": "Krokowski", "given": "Dawid", "initials": "D"}, {"family": "Vourekas", "given": "Anastasios", "initials": "A", "orcid": "0000-0002-1850-5635", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/85a3939de7c341b084bb7293bfb505b9.json"}}, {"family": "Merrick", "given": "William C", "initials": "WC"}, {"family": "Komar", "given": "Anton A", "initials": "AA"}, {"family": "Koromilas", "given": "Antonis E", "initials": "AE", "orcid": "0000-0003-1972-0799", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7825afc7ac8942819083ce7c570b5508.json"}}, {"family": "Gorospe", "given": "Myriam", "initials": "M", "orcid": "0000-0001-5439-3434", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f959a00a1c6d406892d949aeafed5a4f.json"}}, {"family": "Payea", "given": "Matthew J", "initials": "MJ", "orcid": "0000-0002-1960-4563", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7127b888bae44cd59c2e1d60eff38366.json"}}, {"family": "Wang", "given": "Fangfang", "initials": "F"}, {"family": "Clayton", "given": "Benjamin L L", "initials": "BLL", "orcid": "0000-0001-9552-404X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7d27aa75b2e84ddf8c7ac065d22db7fd.json"}}, {"family": "Tesar", "given": "Paul J", "initials": "PJ", "orcid": "0000-0003-1532-3155", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2126dba093aa4bfd8ed62c630333452e.json"}}, {"family": "Schaffer", "given": "Ashleigh", "initials": "A", "orcid": "0000-0002-1164-697X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8c283750c40b41b7959efe3f42c9ccad.json"}}, {"family": "Miron", "given": "Alexander", "initials": "A"}, {"family": "Bederman", "given": "Ilya", "initials": "I", "orcid": "0000-0002-1909-5746", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d234b19b68564c858dbc42c1f5adf9b1.json"}}, {"family": "Jankowsky", "given": "Eckhard", "initials": "E"}, {"family": "Vogel", "given": "Christine", "initials": "C", "orcid": "0000-0002-2856-3118", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/175408d95b194f04a8e8cdaf90c20933.json"}}, {"family": "Val\u00e1\u0161ek", "given": "Leo\u0161 Shivaya", "initials": "LS", "orcid": "0000-0001-8123-8667", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a73e4c57d07b45188685deb3fbe83043.json"}}, {"family": "Dinman", "given": "Jonathan D", "initials": "JD", "orcid": "0000-0002-2402-9698", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/947f8aa98d194d94bdb33b6f4fce1c30.json"}}, {"family": "Zhang", "given": "Youwei", "initials": "Y", "orcid": "0000-0003-0011-7922", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/926e555efbff4fbd97f028680d69a960.json"}}, {"family": "Tirosh", "given": "Boaz", "initials": "B"}, {"family": "Larsson", "given": "Ola", "initials": "O", "orcid": "0000-0003-1412-1308", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3f81c6cbbe564d38bc78d1af5153d804.json"}}, {"family": "Topisirovic", "given": "Ivan", "initials": "I", "orcid": "0000-0002-5510-9762", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1bca1813f34c4864940ac6593044a9cc.json"}}, {"family": "Hatzoglou", "given": "Maria", "initials": "M", "orcid": "0000-0003-2037-1231", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3fbc5330f8c84c548a8472bb81cf77f3.json"}}], "type": "journal article", "published": "2025-05-00", "journal": {"title": "Nature", "issn": "1476-4687", "volume": "641", "issue": "8065", "pages": "1319-1328", "issn-l": "0028-0836"}, "abstract": "An increased level of phosphorylation of eukaryotic translation initiation factor 2 subunit-\u03b1 (eIF2\u03b1, encoded by EIF2S1; eIF2\u03b1-p) coupled with decreased guanine nucleotide exchange activity of eIF2B is a hallmark of the 'canonical' integrated stress response (c-ISR)1. It is unclear whether impaired eIF2B activity in human diseases including leukodystrophies2, which occurs in the absence of eIF2\u03b1-p induction, is synonymous with the c-ISR. Here we describe a mechanism triggered by decreased eIF2B activity, distinct from the c-ISR, which we term the split ISR (s-ISR). The s-ISR is characterized by translational and transcriptional programs that are different from those observed in the c-ISR. Opposite to the c-ISR, the s-ISR requires eIF4E-dependent translation of the upstream open reading frame 1 and subsequent stabilization of ATF4 mRNA. This is followed by altered expression of a subset of metabolic genes (for example, PCK2), resulting in metabolic rewiring required to maintain cellular bioenergetics when eIF2B activity is attenuated. Overall, these data demonstrate a plasticity of the mammalian ISR, whereby the loss of eIF2B activity in the absence of eIF2\u03b1-p induction activates the eIF4E-ATF4-PCK2 axis to maintain energy homeostasis.", "doi": "10.1038/s41586-025-08794-6", "pmid": "40140574", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC12119373"}, {"db": "pii", "key": "10.1038/s41586-025-08794-6"}], "notes": [], "created": "2026-08-20T08:59:09.414Z", "modified": "2026-08-20T08:59:10.076Z"}, {"entity": "publication", "iuid": "aa8fbfaa74e3412fbef4871d1c15f9df", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/aa8fbfaa74e3412fbef4871d1c15f9df.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/aa8fbfaa74e3412fbef4871d1c15f9df"}}, "title": "Guidelines for minimal reporting requirements, design and interpretation of experiments involving the use of eukaryotic dual gene expression reporters (MINDR).", "authors": [{"family": "Loughran", "given": "Gary", "initials": "G", "orcid": "0000-0002-2683-5597", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/8c311a8bb78647dbb1d9f4151c5e408b.json"}}, {"family": "Andreev", "given": "Dmitry E", "initials": "DE", "orcid": "0000-0001-5320-3045", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/36a203947cc34c35af7fca9c277faff5.json"}}, {"family": "Terenin", "given": "Ilya M", "initials": "IM"}, {"family": "Namy", "given": "Olivier", "initials": "O", "orcid": "0000-0002-1143-5961", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5e5b761f20624e098e77f7a0819f73a1.json"}}, {"family": "Mikl", "given": "Martin", "initials": "M", "orcid": "0000-0001-8913-7158", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/b57ca06114054393a29ce7487f7da225.json"}}, {"family": "Yordanova", "given": "Martina M", "initials": "MM"}, {"family": "McManus", "given": "C Joel", 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{"family": "Valasek", "given": "Leos Shivaya", "initials": "LS", "orcid": "0000-0001-8123-8667", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a73e4c57d07b45188685deb3fbe83043.json"}}, {"family": "Dmitriev", "given": "Sergey E", "initials": "SE", "orcid": "0000-0002-1774-8475", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/3c686d8d2507492b8eac91074e338593.json"}}, {"family": "Baranov", "given": "Pavel V", "initials": "PV", "orcid": "0000-0001-9017-0270", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/f9db030a647f4a72a9244d2052bbbd86.json"}}], "type": "journal article", "published": "2025-03-00", "journal": {"title": "Nat. Struct. Mol. Biol.", "issn": "1545-9985", "volume": "32", "issue": "3", "pages": "418-430", "issn-l": "1545-9985"}, "abstract": "Dual reporters encoding two distinct proteins within the same mRNA have had a crucial role in identifying and characterizing unconventional mechanisms of eukaryotic translation. These mechanisms include initiation via internal ribosomal entry sites (IRESs), ribosomal frameshifting, stop codon readthrough and reinitiation. This design enables the expression of one reporter to be influenced by the specific mechanism under investigation, while the other reporter serves as an internal control. However, challenges arise when intervening test sequences are placed between these two reporters. Such sequences can inadvertently impact the expression or function of either reporter, independent of translation-related changes, potentially biasing the results. These effects may occur due to cryptic regulatory elements inducing or affecting transcription initiation, splicing, polyadenylation and antisense transcription as well as unpredictable effects of the translated test sequences on the stability and activity of the reporters. Unfortunately, these unintended effects may lead to misinterpretation of data and the publication of incorrect conclusions in the scientific literature. To address this issue and to assist the scientific community in accurately interpreting dual-reporter experiments, we have developed comprehensive guidelines. These guidelines cover experimental design, interpretation and the minimal requirements for reporting results. They are designed to aid researchers conducting these experiments as well as reviewers, editors and other investigators who seek to evaluate published data.", "doi": "10.1038/s41594-025-01492-x", "pmid": "40033152", "labels": [], "xrefs": [{"db": "mid", "key": "NIHMS2090291"}, {"db": "pmc", "key": "PMC12246961"}, {"db": "pii", "key": "10.1038/s41594-025-01492-x"}], "notes": [], "created": "2026-08-20T09:03:55.131Z", "modified": "2026-08-20T09:03:55.608Z"}, {"entity": "publication", "iuid": "b8246697e9754240a0de6a91edd9a096", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/b8246697e9754240a0de6a91edd9a096.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/b8246697e9754240a0de6a91edd9a096"}}, "title": "Regulatory start-stop elements in 5\u2019 untranslated regions pervasively modulate translation", "authors": [{"family": "Rendleman", "given": "Justin", "initials": "J", "orcid": "0000-0001-8152-7127", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/5c326a3843744e15bfbd55dcfd966ed6.json"}}, {"family": "Haizel", "given": "Solomon", "initials": "S"}, {"family": "Wu", "given": "Shaohuan", "initials": "S"}, {"family": "Liu", "given": "Junjie", "initials": "J"}, {"family": "Ge", "given": "Xinyi", "initials": "X"}, {"family": "Zou", "given": "Huijing", "initials": "H"}, {"family": "Mohammad", "given": "Mahabub Pasha", "initials": "MP"}, {"family": "Pressler", "given": "Matthew", "initials": "M"}, {"family": "Maity", "given": "Shuvadeep", "initials": "S"}, {"family": "Hronov\u00e1", "given": "Vladislava", "initials": "V"}, {"family": "Gao", "given": "Zhaofeng", "initials": "Z"}, {"family": "Herrmannov\u00e1", "given": "Anna", "initials": "A"}, {"family": "Lei", "given": "Amy", "initials": "A"}, {"family": "Allgoewer", "given": "Kristina", "initials": "K"}, {"family": "Sultanov", "given": "Daniel", "initials": "D"}, {"family": "Hinckley", "given": "Will Edward", "initials": "WE"}, {"family": "Cheng", "given": "Ziyue", "initials": "Z"}, {"family": "Shelby", "given": "Lauren", "initials": "L"}, {"family": "Szkop", "given": "Krzysztof J", "initials": "KJ"}, {"family": "Topisirovic", "given": "Ivan", "initials": "I"}, {"family": "Larsson", "given": "Ola", "initials": "O"}, {"family": "Hatzoglou", "given": "Maria", "initials": "M"}, {"family": "Val\u00e1\u0161ek", "given": "Leo\u0161 Shivaya", "initials": "LS", "orcid": "0000-0001-8123-8667", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a73e4c57d07b45188685deb3fbe83043.json"}}, {"family": "Vogel", "given": "Christine", "initials": "C", "orcid": "0000-0002-2856-3118", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/175408d95b194f04a8e8cdaf90c20933.json"}}], "type": "posted-content", "published": "2021-07-26", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2021.07.26.453809", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:05:58.821Z", "modified": "2026-08-20T10:05:58.920Z"}]}