IMP scientists publish 60 to 90 scientific papers in international peer-review journals every year. This evidence for the productivity and high scientific standard of the IMP is listed here in full – a directory of all scientific publications by IMP scientists since the establishment of the institute, organised by years and research groups.
Predictive design of tissue-specific mammalian enhancers that function in the mouse embryo.
Nat Genet. 58(9):2129-2133Generation of high-quality reference control panels of human induced pluripotent stem cell clones from fibroblasts.
Stem Cell Res. 96:104096Generation of high-quality reference control panels of human induced pluripotent stem cell clones from PBMCs.
Stem Cell Res. 96:104097Urinary multi-omics reveal non-invasive diagnostic biomarkers in clear cell renal cell carcinoma.
EMBO Mol Med.Cellular assembly and functional resilience of the mammalian RNA exosome.
EMBO J. 45(15):5423-5456BRIDGE: an interactive application for multi-omics data analysis, visualization and integration.
Bioinformatics. 42(7)ER-mitochondria contacts and mitochondrial fusion correlate with increased mitochondrial activity during vertebrate embryogenesis.
Show Preprint Cell Rep. 45(7):117615Molecular basis of polyadenylated RNA fate determination in the nucleus.
Nature. 655(8124):1070-1078Tumor sialylation regulates G-CSF stability and promotes neutrophil-mediated immunosuppression in breast cancer.
Nat Commun. 17(1)PAM1 regulates meiosis by coupling RNA processing to the chromosome axis.
Proc Natl Acad Sci U S A. 123(20):e2535316123Stress and conflict management in core facilities-News from an imaging survey.
J Microsc. 302(3):370-381Structure of cytoplasmic RNA polymerase II.
Nat Commun.The SPARK complex forms the molecular basis of vertebrate fertilization
bioRxiv. 10.64898/2026.05.13.724128Structural basis of NSD2 degradation via targeted recruitment of SCF-FBXO22.
Nat Commun.PDS5 proteins control genome architecture by limiting the lifetime of cohesin-NIPBL complexes.
Mol Cell.The microprotein SMIM26 connects metabolite transporters of the outer and inner mitochondrial membranes and is essential for respiratory chain function.
Genes Dev.Low-resolution FAIMS for increased peptide coverage in low-load and single-cell proteomics.
Sci Rep.A mammalian-like piRNA pathway in Axolotl reveals the origins of piRNA-directed DNA methylation.
EMBO J. 45(6):1933-1956BacPROTAC-induced protein degradation as a new antibiotic concept.
Trends Biochem Sci. 51(3):249-260Functional genomic screens uncover FERMT2 as a critical regulator of YAP/TAZ-driven tumorigenicity.
Cell Death Differ.Mechanisms of resistance to VHL loss-induced genetic and pharmacological vulnerabilities.
EMBO Mol Med. 18(2):599-619Poxvirus attack of antiviral defense pathways unleashes an effector-triggered NF-κB response.
Science. 391(6786):eadw4937A Plastic EMP1+ to LGR5+ Cell State Conversion as a Bypass to KRASG12D Pharmacologic Inhibition in Metastatic Colorectal Cancer.
Cancer Discov. 16(2):320-344Reciprocal zebrafish-medaka hybrids reveal maternal control of zygotic genome activation timing
bioRxiv. 10.1101/2021.11.03.467109A multivalent adaptor mechanism drives the nuclear import of proteasomes.
Nat Commun.PARG regulates the proteasomal degradation of TARG1.
Cell Rep. 45(1):116789In vivo CRISPR/Cas9 screens identify new regulators of B cell activation and plasma cell differentiation.
J Exp Med. 223(3)The cotranslational cycle of the ribosome-bound Hsp70 homolog Ssb.
Nat Commun. 17(1):961A comprehensive view on r-protein binding and rRNA domain structuring during early eukaryotic ribosome formation.
Nucleic Acids Res. 54(3)BORC assemblies integrate BLOC-1 subunits to diversify endosomal trafficking functions.
Proc Natl Acad Sci U S A. 123(4):e2515691123Guardian ubiquitin E3 ligases target cancer-associated APOBEC3 deaminases for degradation to promote human genome integrity.
Nat Commun.Structural basis for substrate recruitment and catalytic ubiquitin transfer by the E2/E3 hybrid enzyme UBE2O.
J Biol Chem. 302(2):111073Predictive design of tissue-specific mammalian enhancers that function in vivo in the mouse embryo.
bioRxiv.Loss-of-function genetic screen unveils synergistic efficacy of PARG inhibition with combined 5-fluorouracil and irinotecan treatment in colorectal cancer.
Clin Transl Med. 15(12):e70543Systematic Discovery of Pathogen Effector Functions across Human Pathogens and Pathways.
bioRxiv.MECOM is a master repressor of myeloid differentiation through dose control of CEBPA in acute myeloid leukemia.
Blood. 146(25):3098-3105Single cell proteomic analysis defines discrete neutrophil functional states in human glioblastoma.
Nat Commun.Two CTCF motifs impede cohesin-mediated DNA loop extrusion.
Mol Cell. 85(23):4304-4317.e9Cross-species interactome analysis uncovers a conserved selective autophagy mechanism for protein quality control in plants.
Dev Cell.Lymphotoxin alpha eradicates acute myeloid leukemia and simultaneously promotes healthy hematopoiesis in mice.
Sci Transl Med. 17(826):eadu3313Electrostatic changes enabled the diversification of an exocyst subunit via protein complex escape.
Nat Plants. 11(11):2350-2367Breaking barriers in crosslinking mass spectrometry with enhanced throughput and sensitivity using Orbitrap Astral.
Nat Commun. 16(1):9877An ATP-gated molecular switch orchestrates human mRNA export
Nature. 649(8098):1042-1050Acidosis orchestrates adaptations of energy metabolism in tumors.
Science. 390(6769):eadp7603Retinol Binding Protein 4 reactivates latent HIV-1 by triggering canonical NF-κB, JAK/STAT5 and JNK signalling.
Signal Transduct Target Ther. 10(1):326Collective homeostasis of condensation-prone proteins via their mRNAs.
Nature.Mechanisms of Messenger RNA Packaging and Export.
Annu Rev Cell Dev Biol. 41(1):479-504ArchVelo: Archetypal Velocity Modeling for Single-cell Multi-omic Trajectories.
bioRxiv.Structural basis of NSD2 degradation via targeted recruitment of SCF-FBXO22.
bioRxiv.Trio fatale: Neutrophils, NETs, and necrosis.
Immunity. 58(9):2154-2156Target RNA recognition drives PIWI∗ complex assembly for transposon silencing.
Mol Cell. 85(17):3288-3305.e6PDS5 proteins control genome architecture by limiting the lifetime of cohesin-NIPBL complexes
bioRxiv. 673243Architecture of the UBR4 complex, a giant E4 ligase central to eukaryotic protein quality control.
Science. 389(6763):909-914A split-site E3 ligase mechanism enables ZNFX1 to ubiquitinate and cluster single-stranded RNA into ubiquitin-coated nucleoprotein particles.
Cell.Quantitative profiling of human brain organoid cell diversity across four protocols and multiple cell lines.
Cell Rep. 44(9):116168The mitotic STAG3-cohesin complex shapes male germline nucleome.
Nat Struct Mol Biol.CLEC18A interacts with sulfated glycosaminoglycans and controls clear cell renal cell carcinoma progression.
FEBS J.Coping with uncertainty: Challenges for robust pattern formation in dynamical tissues.
Semin Cell Dev Biol. 173:103629In vivo crosslinking and effective 2D enrichment for proteome wide interactome studies.
Commun Chem. 8(1):245DIY innate immune sensing: Crafting fresh DNA to detect viruses.
Mol Cell. 85(15):2818-2820NIPBL and STAG1 enable loop extrusion by providing differential DNA-cohesin affinity.
Proc Natl Acad Sci U S A. 122(32):e2514190122SP140-RESIST pathway regulates interferon mRNA stability and antiviral immunity.
Show Preprint Nature. 643(8074):1372-1380Nanoscale 3D DNA tracing in non-denatured cells resolves the Cohesin-dependent loop architecture of the genome in situ.
Nat Commun. 16(1):6673A lyophilized open-source RT-LAMP assay for molecular diagnostics in resource-limited settings.
Life Sci Alliance. 8(10)Unlocking Immunity Within: Inflammatory Monocytes Stimulate T Cells at Immune Hubs in the Tumor Microenvironment.
J Invest Dermatol.Engineered microRNA scaffolds for potent gene silencing in vivo.
Sci Rep. 15(1):21419ERH regulates type II interferon immune signaling through post-transcriptional regulation of JAK2 mRNA.
Nucleic Acids Res. 53(12)Regulation of somatic hypermutation by higher-order chromatin structure.
Mol Cell.A Roadmap for Improving Reliability and Data Sharing in Crosslinking Mass Spectrometry.
Mol Cell Proteomics. :101024Cohesin supercoils DNA during loop extrusion.
Cell Rep. 44(6):115856Developing a new cleavable crosslinker reagent for in-cell crosslinking.
Commun Chem. 8(1):191Molecular basis of positional memory in limb regeneration.
Nature. 642(8068):730-738Inducible protein degradation reveals inflammation-dependent function of the Treg cell lineage-defining transcription factor Foxp3.
Sci Immunol. 10(108):eadr7057Gastrulation: Lessons from the quail embryo.
Curr Biol. 35(10):R384-R386Transcriptional and epigenetic rewiring by the NUP98::KDM5A fusion oncoprotein directly activates CDK12.
Nat Commun. 16(1):4656An aging bone marrow exacerbates lung fibrosis by fueling profibrotic macrophage persistence.
Sci Immunol. 10(105):eadk5041PHLPP2 is a pseudophosphatase that lost activity in the metazoan ancestor.
Proc Natl Acad Sci U S A. 122(14):e2417218122Functional Lineage Tracing Using CaTCH.
Methods Mol Biol. 2905:95-120ATP functions as a pathogen-associated molecular pattern to activate the E3 ubiquitin ligase RNF213.
Nat Commun. 16(1):4414mTORC1 cooperates with tRNA wobble modification to sustain the protein synthesis machinery.
Nat Commun. 16(1):4201Conservation and divergence of the molecular regulators of the vertebrate fertilization synapse.
Curr Opin Genet Dev. 93:102352FakET: Simulating cryo-electron tomograms with neural style transfer.
Structure. 33(4):820-827.e4Cancer cells impair monocyte-mediated T cell stimulation to evade immunity.
Nature. 637(8046):716-725TRIM52 maintains cellular fitness and is under tight proteolytic control by multiple giant E3 ligases.
Nat Commun. 16(1):3894Author Correction: Transcriptional function of E2A, Ebf1, Pax5, Ikaros and Aiolos analyzed by in vivo acute protein degradation in early B cell development.
Nat Immunol. 26(5):805Direct cell-to-cell transmission of retrotransposons.
bioRxiv.Cold and hot fibrosis define clinically distinct cardiac pathologies.
Cell Syst. 16(3):101198Adeno-associated viruses for efficient gene expression in the axolotl nervous system.
Proc Natl Acad Sci U S A. 122(10):e2421373122Protein waste turned into antibiotics as a defence strategy of human cells.
Nature.Convergence of orphan quality control pathways at a ubiquitin chain-elongating ligase.
Show Preprint Mol Cell. 85(4):815-828.e10Quantitative imaging of loop extruders rebuilding interphase genome architecture after mitosis.
Show Preprint J Cell Biol. 224(3)SMC motor proteins extrude DNA asymmetrically and can switch directions.
Cell. 188(3):749-763.e21The UBR Domain of Plant Ubr1 Homolog PRT6 Accommodates Basic and Hydrophobic Amino Termini for Substrate Recognition.
J Mol Biol. 437(4):168939Cohesin positions the epigenetic reader Phf2 within the genome.
EMBO J. 44(3):736-766Enhancer cooperativity can compensate for loss of activity over large genomic distances.
Mol Cell. 85(2):362-375.e9Challenging the Astral mass analyzer to quantify up to 5,300 proteins per single cell at unseen accuracy to uncover cellular heterogeneity.
Nat Methods.Zongertinib (BI 1810631), an Irreversible HER2 TKI, Spares EGFR Signaling and Improves Therapeutic Response in Preclinical Models and Patients with HER2-Driven Cancers.
Cancer Discov. 15(1):119-138A Multiyear Longitudinal Harmonization Study of Quality Controls in Mass Spectrometry Proteomics Core Facilities.
J Proteome Res.RANK drives structured intestinal epithelial expansion during pregnancy.
Nature. 637(8044):156-166Point-spread-function engineering in MINFLUX: optimality of donut and half-moon excitation patterns.
Opt Lett. 50(1):37-40Modelling and deciphering tumour metabolism in CRISPR screens.
Nat Rev Cancer. 25(1):1-2Proteome-wide non-cleavable crosslink identification with MS Annika 3.0 reveals the structure of the C. elegans Box C/D complex.
Commun Chem. 7(1):300CRISPR-StAR enables high-resolution genetic screening in complex in vivo models.
Nat Biotechnol.Bouncer’s receptor on sperm: Investigating sperm-egg compatibility in fish
bioRxiv. 2024.12.13.628393All eukaryotic SMC proteins induce a twist of -0.6 at each DNA loop extrusion step.
Sci Adv. 10(50):eadt1832A conserved fertilization complex bridges sperm and egg in vertebrates.
Show Preprint Cell. 187(25):7066-7078.e22A genome-wide screen identifies silencers with distinct chromatin properties and mechanisms of repression.
Mol Cell. 84(23):4503-4521.e14PITHD1: An Endogenous Inhibitor of the 26S Proteasome During Cellular Dormancy
bioRxiv. 2024.12.04.626795A multivalent adaptor mechanism drives the nuclear import of proteasomes
625870.PHLPP2 is a pseudophosphatase that lost activity in the metazoan ancestor
bioRxiv. 2024.12.03.625870Lineage tracing of Shh+ floor plate cells and dynamics of dorsal-ventral gene expression in the regenerating axolotl spinal cord.
Dev Growth Differ. 66(8):414-425Developmental and housekeeping transcriptional programs display distinct modes of enhancer-enhancer cooperativity in Drosophila.
Nat Commun. 15(1):8584Murine neonatal cardiac regeneration depends on Insulin-like growth factor 1 receptor signaling.
Sci Rep. 14(1):22661mTOR activity paces human blastocyst stage developmental progression.
Cell.A polarized FGF8 source specifies frontotemporal signatures in spatially oriented cell populations of cortical assembloids.
Nat Methods.Friendly fire: recognition of self by the innate immune system.
Curr Opin Immunol. 90:102457The novel ribosome biogenesis inhibitor usnic acid blocks nucleolar pre-60S maturation.
Nat Commun. 15(1):7511Transcriptional function of E2A, Ebf1, Pax5, Ikaros and Aiolos analyzed by in vivo acute protein degradation in early B cell development.
Nat Immunol. 25(9):1663-1677A dual ribosomal system in the zebrafish soma and germline
bioRxiv. doi:10.1101/2024.08.29.610041Egr1 regulates regenerative senescence and cardiac repair.
Nat Cardiovasc Res. 3(8):915-932Electrostatic changes enabled the diversification of an exocyst subunit via protein complex escape
bioRxiv. 2024.08.26.609756A chromatin code for limb segment identity in axolotl limb regeneration.
Dev Cell. 59(16):2239-2253.e9Identification of Pathogenic Pathways for Recurrence of Focal Segmental Glomerulosclerosis after Kidney Transplantation.
Diagnostics (Basel). 14(15)Mechanism for the initiation of spliceosome disassembly.
Nature. 632(8024):443-450Mouse neural tube organoids self-organize floorplate through BMP-mediated cluster competition.
Dev Cell. 59(15):1940-1953.e10UNC-45 assisted myosin folding depends on a conserved FX3HY motif implicated in Freeman Sheldon Syndrome.
Nat Commun. 15(1):6272Suppression of toxic transgene expression by optimized artificial miRNAs increases AAV vector yields in HEK-293 cells.
Mol Ther Methods Clin Dev. 32(3):101280Rational correction of pathogenic conformational defects in HTRA1.
Nat Commun. 15(1):5944Evolutionary adaptation of an HP1-protein chromodomain integrates chromatin and DNA sequence signals.
Elife. 13tRNA expression and modification landscapes, and their dynamics during zebrafish embryo development.
Show Preprint Nucleic Acids Res.Proteome-scale tagging and functional screening in mammalian cells by ORFtag.
Nat Methods.Alkylamine-tethered molecules recruit FBXO22 for targeted protein degradation.
Nat Commun. 15(1):5409Label-Free Sample Preparation for Single-Cell Proteomics.
Methods Mol Biol. 2817:1-7Mime-seq 2.0: a method to sequence microRNAs from specific mouse cell types.
EMBO J. 43(12):2506-2525Red2Flpe-SCON: a versatile, multicolor strategy for generating mosaic conditional knockout mice.
Nat Commun. 15(1):4963Genomic surveillance of SARS-CoV-2 evolution by a centralised pipeline and weekly focused sequencing, Austria, January 2021 to March 2023.
Euro Surveill. 29(23)ARID1B controls transcriptional programs of axon projection in an organoid model of the human corpus callosum.
Cell Stem Cell. 31(6):866-885.e14Sororin is an evolutionary conserved antagonist of WAPL.
Nat Commun. 15(1):4729TRIM52 is a primate-specific player in the DNA repair process under tight proteolytic control by a triad of giant E3 ligases
bioRxiv. 10.1101/2024.05.16.594269Guardian ubiquitin E3 ligases target cancer-associated APOBEC3 deaminases for degradation to promote human genome integrity
bioRxiv. 2024.04.23.590688Multiple ubiquitin ligases protect human genome integrity by targeting cancer-associated APOBEC3 deaminases for degradation
bioRxiv. 10.1101/2024.04.23.590688Structural basis of human U5 snRNP late biogenesis and recycling.
Nat Struct Mol Biol.A molecular switch orchestrates the nuclear export of human messenger RNA
BioRxiv.Tumor necrosis factor α promotes clonal dominance of KIT D816V+ cells in mastocytosis: role of survivin and impact on prognosis.
Blood. 143(11):1006-1017The molecular mechanisms underpinning maternal mRNA dormancy.
Biochem Soc Trans.Homo-BacPROTAC-induced degradation of ClpC1 as a strategy against drug-resistant mycobacteria.
Nat Commun. 15(1):2005CowScape: Quantitative reconstruction of the conformational landscape of biological macromolecules from cryo-EM data
arXiv. 2402.11589Pulling the strings on solid-to-liquid phase transitions in cell collectives.
Curr Opin Cell Biol. 86:102310Gpcpd1-GPC metabolic pathway is dysfunctional in aging and its deficiency severely perturbs glucose metabolism.
Nat Aging. 4(1):80-94Targeted design of synthetic enhancers for selected tissues in the Drosophila embryo.
Nature. 626(7997):207-211Micropillar arrays, wide window acquisition and AI-based data analysis improve comprehensiveness in multiple proteomic applications.
Nat Commun. 15(1):1019eIF4E1b is a non-canonical eIF4E protecting maternal dormant mRNAs.
Show Preprint EMBO Rep. 25(1):404-427Cancer Evolution: A Multifaceted Affair.
Cancer Discov. 14(1):36-48Morphogenesis and development of human telencephalic organoids in the absence and presence of exogenous extracellular matrix.
EMBO J. 42(22):e113213Cohesin and CTCF do not assemble TADs in Xenopus sperm and male pronuclei.
Genome Res. 33(12):2094-107A High-Sensitivity Low-Nanoflow LC-MS Configuration for High-Throughput Sample-Limited Proteomics.
Anal Chem. 95(51):18673-18678Immunopeptidomics in the Era of Single-Cell Proteomics.
Biology (Basel). 12(12)In vitro modeling of the human dopaminergic system using spatially arranged ventral midbrain-striatum-cortex assembloids.
Nat Methods. 20(12):2034-2047Multi-chamber cardioids unravel human heart development and cardiac defects.
Cell. 186(25):5587-5605.e27Time-resolved cryo-EM (TR-EM) analysis of substrate polyubiquitination by the RING E3 anaphase-promoting complex/cyclosome (APC/C).
Nat Struct Mol Biol. 30(11):1663-1674How do molecular motors fold the genome?
Science. 382(6671):646-648An automated nanowell-array workflow for quantitative multiplexed single-cell proteomics sample preparation at high sensitivity.
Mol Cell Proteomics. :100665CBFA2T3-GLIS2-dependent pediatric acute megakaryoblastic leukemia is driven by GLIS2 and sensitive to navitoclax.
Cell Rep. 42(9):113084SLAMseq resolves the kinetics of maternal and zygotic gene expression during early zebrafish embryogenesis.
Show Preprint Cell Rep. 42(2):112070The NCOR-HDAC3 co-repressive complex modulates the leukemogenic potential of the transcription factor ERG.
Nat Commun. 14(1):5871Improving single cell proteomics experiments: how can we best utilize latest-generation data acquisition and MS instrument architecture?
Expert Rev Proteomics. :1-3ABCC1 and glutathione metabolism limit the efficacy of BCL-2 inhibitors in acute myeloid leukemia.
Nat Commun. 14(1):5709Essential role of the Pax5 C-terminal domain in controlling B cell commitment and development.
J Exp Med. 220(12)Single-cell brain organoid screening identifies developmental defects in autism.
Nature. 621(7978):373-380SPOP targets the immune transcription factor IRF1 for proteasomal degradation.
Elife. 12Ascl1 and Ngn2 convert mouse embryonic stem cells to neurons via functionally distinct paths.
Nat Commun. 14(1):5341Evolutionary conservation of embryonic DNA methylome remodelling in distantly related teleost species.
Show Preprint Nucleic Acids Res.Cohesin mediates DNA loop extrusion and sister chromatid cohesion by distinct mechanisms.
Mol Cell.Transposon waves at the water-to-land transition.
Curr Opin Genet Dev. 81:102059Cryo-EM structure of the chain-elongating E3 ubiquitin ligase UBR5.
EMBO J. 42(16):e113348MS Annika 2.0 Identifies Cross-Linked Peptides in MS2-MS3-Based Workflows at High Sensitivity and Specificity.
J Proteome Res.Precision RNAi using synthetic shRNAmir target sites.
Elife. 12Enhancers of the PAIR4 regulatory module promote distal VH gene recombination at the Igh locus.
EMBO J. 42(15):e112741Cooperation between bHLH transcription factors and histones for DNA access.
Nature. 619(7969):385-393Widespread regulatory specificities between transcriptional co-repressors and enhancers in Drosophila.
Science. 381(6654):198-204Cohesin-mediated DNA loop extrusion resolves sister chromatids in G2 phase.
EMBO J. :e113475Tumor-derived prostaglandin E2 programs cDC1 dysfunction to impair intratumoral orchestration of anti-cancer T cell responses.
Immunity. 56(6):1341-1358.e11A phylogenetic profiling approach identifies novel ciliogenesis genes in Drosophila and C. elegans.
EMBO J. :e113616Divergent molecular signatures in fish Bouncer proteins define cross-fertilization boundaries.
Show Preprint Nat Commun. 14(1):3506Testing pseudotopological and nontopological models for SMC-driven DNA loop extrusion against roadblock-traversal experiments.
Sci Rep. 13(1):8100An unbiased AAV-STARR-seq screen revealing the enhancer activity map of genomic regions in the mouse brain in vivo.
Sci Rep. 13(1):6745Clp-targeting BacPROTACs impair mycobacterial proteostasis and survival.
Cell. 186(10):2176-2192.e22CTCF is a DNA-tension-dependent barrier to cohesin-mediated loop extrusion.
Show Preprint Nature. 616(7958):822-827Igh and Igk loci use different folding principles for V gene recombination due to distinct chromosomal architectures of pro-B and pre-B cells.
Nat Commun. 14(1):2316Low-density lipoprotein receptor-related protein 1 (LRP1) as an auxiliary host factor for RNA viruses.
Life Sci Alliance. 6(7)Author Correction: PCYT2-regulated lipid biosynthesis is critical to muscle health and ageing.
Nat Metab.mRNA recognition and packaging by the human transcription-export complex.
Nature.Functionally distinct promoter classes initiate transcription via different mechanisms reflected in focused versus dispersed initiation patterns.
EMBO J. :e113519SPOC domain proteins in health and disease.
Genes Dev. 37(5-6):140-170Integrated transcriptome and proteome analysis reveals posttranscriptional regulation of ribosomal genes in human brain organoids.
Elife. 12PCYT2-regulated lipid biosynthesis is critical to muscle health and ageing.
Nat Metab. 5(3):495-515HUWE1 controls tristetraprolin proteasomal degradation by regulating its phosphorylation.
Show Preprint Elife. 12Enhancers display constrained sequence flexibility and context-specific modulation of motif function.
Genome Res.Structural basis for regulation of apoptosis and autophagy by the BIRC6/SMAC complex.
Science. 379(6637):1117-1123A hydraulic feedback loop between mesendoderm cell migration and interstitial fluid relocalization promotes embryonic axis formation in zebrafish.
Dev Cell.TurboID-based proteomic profiling of meiotic chromosome axes in Arabidopsis thaliana.
Nat Plants.Transcription shapes 3D chromatin organization by interacting with loop extrusion.
Show Preprint Proc Natl Acad Sci U S A. 120(11):e2210480120MYC determines lineage commitment in kras driven primary liver cancer development.
J Hepatol.Robust and Easy-to-Use One-Pot Workflow for Label-Free Single-Cell Proteomics.
Anal Chem. 95(9):4435-4445A de novo transcription-dependent TAD boundary underpins critical multiway interactions during antibody class switch recombination.
Show Preprint Mol Cell. 83(5):681-697.e7Label-free single cell proteomics utilizing ultrafast LC and MS instrumentation: A valuable complementary technique to multiplexing.
Proteomics. :e2200162Topological morphogenesis of neuroepithelial organoids.
Nat Phys. 19(2):177-183Generating human blastoids modeling blastocyst-stage embryos and implantation.
Nat Protoc.Shuffled ATG8 interacting motifs form an ancestral bridge between UFMylation and autophagy.
EMBO J. :e112053SBNO2 is a critical mediator of STAT3-driven hematological malignancies.
Blood.EVI1 drives leukemogenesis through aberrant ERG activation.
Blood. 141(5):453-466MS Ana: Improving Sensitivity in Peptide Identification with Spectral Library Search.
J Proteome Res. 22(2):462-470Systematic identification and characterization of repressive domains in Drosophila transcription factors.
EMBO J. 42(3):e112100X-linked inhibitor of apoptosis protein represents a promising therapeutic target for relapsed/refractory ALL.
EMBO Mol Med. 15(1):e14557A molecular network of conserved factors keeps ribosomes dormant in the egg.
Show Preprint Nature.Reply to: Assessment of 3D MINFLUX data for quantitative structural biology in cells.
Nat Methods. 20(1):52-54StarMap: a user-friendly workflow for Rosetta-driven molecular structure refinement.
Nat Protoc. 18(1):239-264Developmental cell fate choice in neural tube progenitors employs two distinct cis-regulatory strategies.
Dev Cell. 58(1):3-17.e8Frozen in time: analyzing molecular dynamics with time-resolved cryo-EM.
Structure. 31(1):4-19Human Papillomavirus 42 Drives Digital Papillary Adenocarcinoma and Elicits a Germ Cell-like Program Conserved in HPV-Positive Cancers.
Cancer Discov. 13(1):70-84ZFP462 safeguards neural lineage specification by targeting G9A/GLP-mediated heterochromatin to silence enhancers.
Nat Cell Biol.Correction: Biallelic PAX5 mutations cause hypogammaglobulinemia, sensorimotor deficits, and autism spectrum disorder.
J Exp Med. 220(1)Chromosome Conformation Capture for Large Genomes.
Methods Mol Biol. 2562:291-318Artificial Insemination in Axolotl.
Methods Mol Biol. 2562:417-423Ethyl Cinnamate-Based Tissue Clearing Strategies.
Methods Mol Biol. 2562:123-133Navigation and Use of Custom Tracks within the Axolotl Genome Browser.
Methods Mol Biol. 2562:273-289Baculovirus Production and Infection in Axolotls.
Methods Mol Biol. 2562:369-387The Xbp1-regulated transcription factor Mist1 restricts antibody secretion by restraining Blimp1 expression in plasma cells.
Front Immunol. 13:859598SCON-a Short Conditional intrON for conditional knockout with one-step zygote injection.
Show Preprint Exp Mol Med.Altered developmental programs and oriented cell divisions lead to bulky bones during salamander limb regeneration.
Nat Commun. 13(1):6949Deep Proteome Profiling with Reduced Carryover Using Superficially Porous Microfabricated nanoLC Columns.
Anal Chem.The HUSH complex controls brain architecture and protocadherin fidelity.
Sci Adv. 8(44):eabo7247DNA sequence and chromatin modifiers cooperate to confer epigenetic bistability at imprinting control regions.
Nat Genet.Different Gene Sets Are Associated With Azacitidine Response In Vitro Versus in Myelodysplastic Syndrome Patients.
Hemasphere. 6(11):e792Muscles are barely required for the patterning and cell dynamics in axolotl limb regeneration.
Front Genet. 13:1036641Sororin is an evolutionary conserved antagonist of WAPL
bioRxiv. 2022.10.24.513534SMC complexes can traverse physical roadblocks bigger than their ring size.
Show Preprint Cell Rep. 41(3):111491Developmental and housekeeping transcriptional programs in Drosophila require distinct chromatin remodelers.
Mol Cell. 82(19):3598-3612.e7Deep Single-Shot NanoLC-MS Proteome Profiling with a 1500 Bar UHPLC System, Long Fully Porous Columns, and HRAM MS.
J Proteome Res. 21(10):2545-2551Lysosomal enzyme trafficking factor LYSET enables nutritional usage of extracellular proteins.
Science. 378(6615):eabn5637Comprehensive CRISPR-Cas9 screen identifies factors which are important for plasmablast development.
Front Immunol. 13:979606A self-generated Toddler gradient guides mesodermal cell migration.
Show Preprint Sci Adv. 8(37):eadd2488Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase Drg1.
Nat Struct Mol Biol. 29(9):942-953Urinary Collectrin (TMEM27) as Novel Marker for Acute Kidney Injury.
Life (Basel). 12(9)Cohesin mediates DNA loop extrusion and sister chromatid cohesion by distinct mechanisms
bioRxiv. 2022.09.23.509019DNA replication timing directly regulates the frequency of oncogenic chromosomal translocations.
Science. 377(6612):eabj5502Single-cell analyses of axolotl telencephalon organization, neurogenesis, and regeneration.
Science. 377(6610):eabp9262Protocol for Human Blastoids Modeling Blastocyst Development and Implantation.
J Vis Exp. (186)Structural basis of mRNA maturation: Time to put it together.
Curr Opin Struct Biol. 75:102431BRD4 degradation blocks expression of MYC and multiple forms of stem cell resistance in Ph+ chronic myeloid leukemia.
Am J Hematol. 97(9):1215-1225Biallelic PAX5 mutations cause hypogammaglobulinemia, sensorimotor deficits, and autism spectrum disorder.
J Exp Med. 219(9)Gruffi: an algorithm for computational removal of stressed cells from brain organoid transcriptomic datasets.
EMBO J. :e111118Mechanism-based combination therapies for metastatic cancer.
Sci Transl Med. 14(655):eadd0887Discovery of potent and selective HER2 inhibitors with efficacy against HER2 exon 20 insertion-driven tumors, which preserve wild-type EGFR signaling.
Nat Cancer. 3(7):821-836The specialist in regeneration-the Axolotl-a suitable model to study bone healing?
NPJ Regen Med. 7(1):35Mimicked synthetic ribosomal protein complex for benchmarking crosslinking mass spectrometry workflows.
Nat Commun. 13(1):3975Inducible and tissue-specific cell labeling in Cre-ERT2 transgenic Xenopus lines.
Dev Growth Differ. 64(5):243-253BacPROTACs mediate targeted protein degradation in bacteria.
Show Preprint Cell. 185(13):2338-2353.e18Positional Memory in Vertebrate Regeneration: A Century's Insights from the Salamander Limb.
Cold Spring Harb Perspect Biol. 14(6)Nucleome programming is required for the foundation of totipotency in mammalian germline development.
EMBO J. :e110600Differential cofactor dependencies define distinct types of human enhancers.
Nature. 606(7913):406-413Gene and transgenics nomenclature for the laboratory axolotl-Ambystoma mexicanum.
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