Ahn J, Wong JT, Molday RS. The effect of lipid environment and retinoids on the ATPase activity of ABCR, the photoreceptor ABC transporter responsible for Stargardt macular dystrophy. J Biol Chem. 2000;275(27):20399-20405. doi:10.1074/jbc.M000555200
Axelsson J, Ferreira M, Adolfsson L, McCrea K, Ward R, Larm O. Cytokines in blood from septic patients interact with surface-immobilized heparin. ASAIO J. 2010;56(1):48-51. doi:10.1097/MAT.0b013e3181c3fec8
Bartsch C, Szabo K, Dinh-Thanh M, Schrader C, Trojnar E, Johne R. Comparison and optimization of detection methods for noroviruses in frozen strawberries containing different amounts of RT-PCR inhibitors. Food Microbiol. 2016;60:124-130. doi:10.1016/j.fm.2016.07.005
Bauer N, Škiljaica A, Malenica N, et al. The MATH-BTB Protein TaMAB2 Accumulates in Ubiquitin-Containing Foci and Interacts With the Translation Initiation Machinery in Arabidopsis. Front Plant Sci. 2019;10:1469. Published 2019 Nov 22. doi:10.3389/fpls.2019.01469
Bertelsen ER, Deodhar G, Kluherz KT, et al. Microcolumn lanthanide separation using bis-(2-ethylhexyl) phosphoric acid functionalized ordered mesoporous carbon materials. J Chromatogr A. 2019;1595:248-256. doi:10.1016/j.chroma.2019.02.057
Chakrabarti S, Dudzic JP, Li X, Collas EJ, Boquete JP, Lemaitre B. Remote Control of Intestinal Stem Cell Activity by Haemocytes in Drosophila. PLoS Genet. 2016;12(5):e1006089. Published 2016 May 27. doi:10.1371/journal.pgen.1006089
Chen D, Bryden W, McLoughlin M. A Novel System for The Comprehensive Collection of Nonvolatile Molecules from Human Exhaled Breath. 2020. doi:10.1101/2020.05.14.097113
Christodoulou A, Yokoyama H. Purification of nuclear localization signal-containing proteins and its application to investigation of the mechanisms of the cell division cycle. Small GTPases. 2015;6(1):20-27. doi:10.4161/21541248.2014.978162
Cibulka J, Bisaccia F, Radisavljević K, Gudino Carrillo RM, Köhler A. Assembly principle of a membrane-anchored nuclear pore basket scaffold. Sci Adv. 2022;8(6):eabl6863. doi:10.1126/sciadv.abl6863
Crowther GJ, Hillesland HK, Keyloun KR, et al. Biochemical Screening of Five Protein Kinases from Plasmodium falciparum against 14,000 Cell-Active Compounds. PLoS One. 2016;11(3):e0149996. Published 2016 Mar 2. doi:10.1371/journal.pone.0149996
De Pasquale D, Marino A, Tapeinos C et al. Homotypic targeting and drug delivery in glioblastoma cells through cell membrane-coated boron nitride nanotubes. Mater Des. 2020;192:108742. doi:10.1016/j.matdes.2020.108742
Dedecker M, Van Leene J, De Winne N, et al. Transferring an optimized TAP-toolbox for the isolation of protein complexes to a portfolio of rice tissues. Plant Mol Biol. 2016;91(3):341-354. doi:10.1007/s11103-016-0471-x
Defaus S, Avilés M, Andreu D, Gutiérrez-Gallego R. Identification of Bovine Sperm Surface Proteins Involved in Carbohydrate-mediated Fertilization Interactions. Mol Cell Proteomics. 2016;15(7):2236-2251. doi:10.1074/mcp.M115.057703
Dostálová A, Rommelaere S, Poidevin M, Lemaitre B. Thioester-containing proteins regulate the Toll pathway and play a role in Drosophila defence against microbial pathogens and parasitoid wasps. BMC Biol. 2017;15(1):79. Published 2017 Sep 5. doi:10.1186/s12915-017-0408-0
dos Santons FM, Vindel-Alfageme J, Ciordia S, et al. Dynamic Cellular Proteome Remodeling during SARS-CoV-2 Infection. Identification of Plasma Protein Readouts J. Proteome Res. 2024. doi: 10.1021/acs.jproteome.4c00566
Eulberg D, Buchner K, Maasch C, Klussmann S. Development of an automated in vitro selection protocol to obtain RNA-based aptamers: identification of a biostable substance P antagonist. Nucleic Acids Res. 2005;33(4):e45. Published 2005 Mar 3. doi:10.1093/nar/gni044
Ford MM, Smythers AL, McConnell EW, Lowery SC, Kolling DRJ, Hicks LM. Inhibition of TOR in Chlamydomonas reinhardtii Leads to Rapid Cysteine Oxidation Reflecting Sustained Physiological Changes. Cells. 2019;8(10):1171. Published 2019 Sep 28. doi:10.3390/cells8101171
Freitag, K., Sterczyk, N., Wendlinger, S. et al. Spermidine reduces neuroinflammation and soluble amyloid beta in an Alzheimer’s disease mouse model. J Neuroinflammation. 2022 19,172. doi: 10.1186/s12974-022-02534-7
Frey S, Görlich D. Purification of protein complexes of defined subunit stoichiometry using a set of orthogonal, tag-cleaving proteases. J Chromatogr A. 2014;1337:106-115. doi:10.1016/j.chroma.2014.02.030
Frindert J, Zhang Y, Nübel G, et al. Identification, Biosynthesis, and Decapping of NAD-Capped RNAs in B. subtilis. Cell Rep. 2018;24(7):1890-1901.e8. doi:10.1016/j.celrep.2018.07.047
Gandbhir O, Sundaram P. 'Amytrapper', a Novel Immobilized Sepharose API Matrix, Removes Amyloid-β from Circulation in vitro. J Alzheimers Dis Rep. 2019;3(1):19-29. Published 2019 Feb 4. doi:10.3233/ADR-180093
Glittenberg M, Kounatidis I, Atilano M, Ligoxygakis P. A genetic screen in Drosophila reveals the role of fucosylation in host susceptibility to Candida infection [published online ahead of print, 2022 Feb 10]. Dis Model Mech. 2022;dmm.049218. doi:10.1242/dmm.049218
González-Fortes G, Jones E, Lightfoot E et al. Paleogenomic Evidence for Multi-generational Mixing between Neolithic Farmers and Mesolithic Hunter-Gatherers in the Lower Danube Basin. Current Biology. 2017;27(12):1801-1810.e10. doi:10.1016/j.cub.2017.05.023
Goossens J, De Geyter N, Walton A, et al. Isolation of protein complexes from the model legume Medicago truncatula by tandem affinity purification in hairy root cultures. Plant J. 2016;88(3):476-489. doi:10.1111/tpj.13258
Gourgoulianni N, Schäfer M, Kapun M, et al. Temperature-dependent melanism and phenoloxidase activity in the dimorphic sepsid fly Sepsis thoracica. Journal of Thermal Biology. 2023;112. doi: doi.org/10.1016/j.jtherbio.2023.103473
Grasso G, Sommella E.M, Merciai F, et al. Enhanced selective capture of phosphomonoester lipids enabling highly sensitive detection of sphingosine 1-phosphate. Anal Bioanal Chem. 2023. doi: 10.1007/s00216-023-04937-8
Gu S, Kumar M, Sikorska B et al. Isolation and partial characterization of a highly divergent lineage of hantavirus from the European mole (Talpa europaea). Sci Rep. 2016;6(1). doi:10.1038/srep21119
Hecht M, Rösler R, Wiese S, Johnsson N, Gronemeyer T. An Interaction Network of the Human SEPT9 Established by Quantitative Mass Spectrometry. G3 (Bethesda). 2019;9(6):1869-1880. Published 2019 Jun 5. doi:10.1534/g3.119.400197
Ilavenil S, Al-Dhabi NA, Srigopalram S, et al. Removal of SDS from biological protein digests for proteomic analysis by mass spectrometry. Proteome Sci. 2016;14(1):11. Published 2016 Sep 6. doi:10.1186/s12953-016-0098-5
Iqbal M, Poole E, Goodbourn S, McCauley JW. Role for bovine viral diarrhea virus Erns glycoprotein in the control of activation of beta interferon by double-stranded RNA. J Virol. 2004;78(1):136-145. doi:10.1128/jvi.78.1.136-145.2004
Irvine SQ. Whole-mount in situ hybridization of small invertebrate embryos using laboratory mini-columns. Biotechniques. 2007;43(6):764-768. doi:10.2144/000112617
Jappe EC, Garde C, Ramarathinam SH, et al. Thermostability profiling of MHC-bound peptides: a new dimension in immunopeptidomics and aid for immunotherapy design. Nat Commun. 2020;11(1):6305. Published 2020 Dec 9. doi:10.1038/s41467-020-20166-4
Kang HJ, Gu SH, Cook JA, Yanagihara R. Dahonggou Creek virus, a divergent lineage of hantavirus harbored by the long-tailed mole (Scaptonyx fusicaudus). Trop Med Health. 2016;44:16. Published 2016 Jun 20. doi:10.1186/s41182-016-0017-6
Keil B. Tho1 is necessary for recruitment of transcription elongation factors and nuclear mRNP assembly. JLUpub. 2021. doi:10.22029/jlupub-448
Kita Y, Miura Y, Furukawa J, et al. Quantitative glycomics of human whole serum glycoproteins based on the standardized protocol for liberating N-glycans. Mol Cell Proteomics. 2007;6(8):1437-1445. doi:10.1074/mcp.T600063-MCP200
Koba R, Suzuki S, Sato G, et al. Identification and characterization of a novel bat polyomavirus in Japan [published online ahead of print, 2020 Aug 20]. Virus Genes. 2020;1-5. doi:10.1007/s11262-020-01789-7
Kosmacz M, Gorka M, Schmidt S, et al. Protein and metabolite composition of Arabidopsis stress granules. New Phytol. 2019;222(3):1420-1433. doi:10.1111/nph.15690
Kyriakakis P, Tipping M, Abed L, Veraksa A. Tandem affinity purification in Drosophila: the advantages of the GS-TAP system. Fly (Austin). 2008;2(4):229-235. doi:10.4161/fly.6669
Lackner, A, Müller M, Gamperl, M, et al. The Fgf/Erf/NCoR1/2 repressive axis controls trophoblast cell fate. Nat Commun. 2023;14: 2559. doi: 10.1038/s41467-023-38101-8
Leal-Esteban LC, Rothé B, Fortier S, Isenschmid M, Constam DB. Role of Bicaudal C1 in renal gluconeogenesis and its novel interaction with the CTLH complex. PLoS Genet. 2018;14(7):e1007487. Published 2018 Jul 11. doi:10.1371/journal.pgen.1007487
Lifka S, Ponomarev I, Weth A, Baumgartner D, Lamprecht B, Baumgartner W. A simple and cheap aerosol penetrometer for filter testing using an electronic cigarette. Open Research Europe. 2021;1:5. doi:10.12688/openreseurope.13087.2
Luzarowski M, Kosmacz M, Sokolowska E, et al. Affinity purification with metabolomic and proteomic analysis unravels diverse roles of nucleoside diphosphate kinases. J Exp Bot. 2017;68(13):3487-3499. doi:10.1093/jxb/erx183
Majerská J, Redon S, Lingner J. Quantitative telomeric chromatin isolation protocol for human cells. Methods. 2017;114:28-38. doi:10.1016/j.ymeth.2016.08.003
Marini F, Wood RD. A human DNA helicase homologous to the DNA cross-link sensitivity protein Mus308. J Biol Chem. 2002;277(10):8716-8723. doi:10.1074/jbc.M110271200
Mattecka S, Brunner P, Hähnel B, Kunze R, Vogt B, Sheriff A. PentraSorb C-Reactive Protein: Characterization of the Selective C-Reactive Protein Adsorber Resin. Ther Apher Dial. 2019;23(5):474-481. doi:10.1111/1744-9987.12796
Meier-Menches SM, Zappe K, Bileck A, et al. Time-dependent shotgun proteomics revealed distinct effects of an organoruthenium prodrug and its activation product on colon carcinoma cells. Metallomics. 2019;11(1):118-127. doi:10.1039/c8mt00152a
Mitterer V, Hamze H, Kunowska N, et al. The RNA helicase Dbp10 coordinates assembly factor association with PTC maturation during ribosome biogenesis. Nucleic Acids Research. 2023. doi: 10.1093/nar/gkad1206
Modak SS, Barber CA, Geva E, Abrams WR, Malamud D, Ongagna YS. Rapid Point-of-Care Isothermal Amplification Assay for the Detection of Malaria without Nucleic Acid Purification. Infect Dis (Auckl). 2016;9:1-9. Published 2016 Jan 20. doi:10.4137/IDRT.S32162
Montellese C, Montel-Lehry N, Henras AK, Kutay U, Gleizes PE, O'Donohue MF. Poly(A)-specific ribonuclease is a nuclear ribosome biogenesis factor involved in human 18S rRNA maturation. Nucleic Acids Res. 2017;45(11):6822-6836. doi:10.1093/nar/gkx253
Morici M, Gabrielli S, Fujiwara K, et al. RAPP-containing arrest peptides induce translational stalling by short circuiting the ribosomal peptidyltransferase activity. Nat Commun. 2024; (15)2432. doi: 10.1038/s41467-024-46761-3
Niederhoff K, Meindl-Beinker NM, Kerssen D, et al. Yeast Pex14p possesses two functionally distinct Pex5p and one Pex7p binding sites. J Biol Chem. 2005;280(42):35571-35578. doi:10.1074/jbc.M502460200
Okuno Y, Yamazaki Y, Fukutomi H, et al. A Novel Surface Modification and Immobilization Method of Anti-CD25 Antibody on Nonwoven Fabric Filter Removing Regulatory T Cells Selectively. ACS Omega. 2019;5(1):772-780. Published 2019 Dec 30. doi:10.1021/acsomega.9b03494
Ortega A, Niksic M, Bachi A, et al. Biochemical function of female-lethal (2)D/Wilms' tumor suppressor-1-associated proteins in alternative pre-mRNA splicing. J Biol Chem. 2003;278(5):3040-3047. doi:10.1074/jbc.M210737200
Pabst TM, Wendeler M, Wang X, Bezemer S, Hermans P, Hunter AK. Camelid VH H affinity ligands enable separation of closely related biopharmaceuticals. Biotechnol J. 2017;12(2):1600357. doi:10.1002/biot.201600357
Paine-Saunders S, Viviano BL, Economides AN, Saunders S. Heparan sulfate proteoglycans retain Noggin at the cell surface: a potential mechanism for shaping bone morphogenetic protein gradients. J Biol Chem. 2002;277(3):2089-2096. doi:10.1074/jbc.M109151200
Pearson RJ, Morf L, Singh U. Regulation of H2O2 stress-responsive genes through a novel transcription factor in the protozoan pathogen Entamoeba histolytica. J Biol Chem. 2013;288(6):4462-4474. doi:10.1074/jbc.M112.423467
Peters S, Keller F. Frost tolerance in excised leaves of the common bugle (Ajuga reptans L.) correlates positively with the concentrations of raffinose family oligosaccharides (RFOs). Plant Cell Environ. 2009;32(8):1099-1107. doi:10.1111/j.1365-3040.2009.01991.x
Riedel F, Galindo A, Muschalik N, Munro S. The two TRAPP complexes of metazoans have distinct roles and act on different Rab GTPases. J Cell Biol. 2018;217(2):601-617. doi:10.1083/jcb.201705068
Roitinger E, Hofer M, Köcher T, et al. Quantitative phosphoproteomics of the ataxia telangiectasia-mutated (ATM) and ataxia telangiectasia-mutated and rad3-related (ATR) dependent DNA damage response in Arabidopsis thaliana. Mol Cell Proteomics. 2015;14(3):556-571. doi:10.1074/mcp.M114.040352
Rössler I, Embacher J, Pillet B, et al. Tsr4 and Nap1, two novel members of the ribosomal protein chaperOME. Nucleic Acids Res. 2019;47(13):6984-7002. doi:10.1093/nar/gkz317
Saito Y, Harada A, Ushijima M, et al. Plasma cell differentiation is regulated by the expression of histone variant H3.3. Nat Commun. 2024; 5004 (15). doi: 10.1038/s41467-024-49375x
Sancar G, Sancar C, Brunner M, Schafmeier T. Activity of the circadian transcription factor White Collar Complex is modulated by phosphorylation of SP-motifs. FEBS Lett. 2009;583(12):1833-1840. doi:10.1016/j.febslet.2009.04.042
Schoppe J, Schubert E, Apelbaum A, et al. Flexible open conformation of the AP-3 complex explains its role in cargo recruitment at the Golgi. Journal of Biological Chemistry. 2021. doi:10.1016/j.jbc.2021.101334
Shanmugabalaji V, Douet V, Agne B, Kessler F. Affinity Purification of Chloroplast Translocon Protein Complexes Using the TAP Tag. J Vis Exp. 2018;(141):10.3791/58532. Published 2018 Nov 1. doi:10.3791/58532
Siniossoglou S, Hurt EC, Pelham HR. Psr1p/Psr2p, two plasma membrane phosphatases with an essential DXDX(T/V) motif required for sodium stress response in yeast. J Biol Chem. 2000;275(25):19352-19360. doi:10.1074/jbc.M001314200
Smith F, Gabriel W. Embryonic Immunostaining for the Tardigrade Hypsibius exemplaris. Cold Spring Harb Protoc. 2018;2018(11):pdb.prot102343. doi:10.1101/pdb.prot102343
Smythers AL, McConnell EW, Lewis HC, Mubarek SN, Hicks LM. Photosynthetic Metabolism and Nitrogen Reshuffling Are Regulated by Reversible Cysteine Thiol Oxidation Following Nitrogen Deprivation in Chlamydomonas. Plants (Basel). 2020;9(6):784. Published 2020 Jun 23. doi:10.3390/plants9060784
Steiner A, Favre S, Mack M, et al. Dissecting the Nuclear Import of the Ribosomal Protein Rps2 (uS5). Biomolecules. 2023; 13(7):1127. doi: 10.3390/biom13071127
Struk S, Braem L, Walton A, et al. Quantitative Tandem Affinity Purification, an Effective Tool to Investigate Protein Complex Composition in Plant Hormone Signaling: Strigolactones in the Spotlight. Front Plant Sci. 2018;9:528. Published 2018 Apr 26. doi:10.3389/fpls.2018.00528
Tan JL, Ward L, Truscott KN, Dougan DA. The N-end rule adaptor protein ClpS from Plasmodium falciparum exhibits broad substrate specificity. FEBS Lett. 2016;590(19):3397-3406. doi:10.1002/1873-3468.12382
Thomas JR, Brittain SM, Lipps J, Llamas L, Jain RK, Schirle M. A Photoaffinity Labeling-Based Chemoproteomics Strategy for Unbiased Target Deconvolution of Small Molecule Drug Candidates. Methods Mol Biol. 2017;1647:1-18. doi:10.1007/978-1-4939-7201-2_1
Thoms M, Ahmed YL, Maddi K, Hurt E, Sinning I. Concerted removal of the Erb1-Ytm1 complex in ribosome biogenesis relies on an elaborate interface. Nucleic Acids Res. 2016;44(2):926-939. doi:10.1093/nar/gkv1365
Vargas-Muñoz M, Danchana K, Cerdà V, Palacio E. Field-deployable method for iron analysis using a simple preconcentration procedure and a 3D portable spectrophotometric system. Microchemical Journal. 2021;170:106774. doi:10.1016/j.microc.2021.106774
Vier J, Häcker G, Kirschnek, S. Contribution of A1 to macrophage survival in cooperation with MCL-1 and BCL-XL in a murine cell model of myeloid differentiation. Cell Death Dis. 2024; (15) 677. doi: 10.1038/s41419-024-07064-z
Wang W. Applications of biophysical methods in small-molecule modulators targeting protein function. doi:10.33612/diss.156123664
Weiße C, Dittmar D, Jakóbczak B, et al. Immunogenicity and protective efficacy of a Streptococcus suis vaccine composed of six conserved immunogens. Vet Res. 2021;52(1):112. Published 2021 Aug 25. doi:10.1186/s13567-021-00981-3
Winkler L, Gehring C, Wenzel A, et al. Molecular determinants of the interaction between Clostridium perfringens enterotoxin fragments and claudin-3. J Biol Chem. 2009;284(28):18863-18872. doi:10.1074/jbc.M109.008623
Wissing J, Jänsch L, Nimtz M, et al. Proteomics analysis of protein kinases by target class-selective prefractionation and tandem mass spectrometry. Mol Cell Proteomics. 2007;6(3):537-547. doi:10.1074/mcp.T600062-MCP200
Wolfram-Schauerte M, Pozhydaieva N, Grawenhoff J, et al. A viral ADP-ribosyltransferase attaches RNA chains to host proteins. Nature.2023. doi: 10.1038/s41586-023-06429-2
Zhang J, Hu Z, Chung H.H., et al. Dependency of NELF-E-SLUG-KAT2B epigenetic axis in breast cancer carcinogenesis. Nat Commun. 2023;14: 2439. doi: 10.1038/s41467-023-38132-1