2024
Contreras W, Groenendyk J, Gentzel M, Schönberg PY, Buchholz F, Michalak M, Schröder B, Mentrup T (2024). Selective regulation of aspartyl intramembrane protease activity by calnexin. Cell Mol Life Sci. 2024 Oct 26;81(1):441. doi: 10.1007/s00018-024-05478-8. PubMed
Tretbar US, Rurik JG, Rustad EH, Sürün D, Köhl U, Olweus J, Buchholz F, Ivics Z, Fricke S, Blache U (2024). Non-viral vectors for chimeric antigen receptor immunotherapy. Nat Rev Methods Primers 4, 74 (2024). https://doi.org/10.1038/s43586-024-00348-w. Nature reviews
Kronstein-Wiedemann R, Thiel J, Sürün D, Teichert M, Künzel SR, Zimmermann S, Wagenführ L, Buchholz F, Tonn T (2024). Characterization of immortalized bone marrow erythroid progenitor adult (imBMEP-A) – The first inducible immortalized red blood cell progenitor cell line derived from bone marrow CD71-positive cells. Cytotherapy. 2024 Jul 2:S1465-3249(24)00767-9. doi: 10.1016/j.jcyt.2024.06.009. Online ahead of print. PubMed
Hoersten J, Ruiz-Gómez G, Paszkowski-Rogacz M, Gilioli G, Guillem-Gloria PM, Lansing F, Pisabarro MT, Buchholz F (2024). Engineering spacer specificity of the Cre/loxP system. Nucleic Acids Research 2024 Jun 13. doi: 10.1093/nar/gkae481. Online ahead of print. PubMed
Beschorner N, Künzle P, Voges M, Hauber I, Indenbirken D, Nakel J, Virdi S, Bradtke P, Lory NC, Rothe M, Paszkowski-Rogacz M, Buchholz F, Grundhoff A, Schambach A, Thirion C, Mittrücker H-W, Schulze Zur Wiesch J, Hauber J, Chemnitz J (2024). Preclinical toxicity analyses of lentiviral vectors expressing the HIV-1 LTR-specific designer-recombinase Brec1. PLoS One. 2024 Mar 8;19(3):e0298542. doi: 10.1371/journal.pone.0298542. eCollection 2024. PubMed
Döring M, Brux M, Paszkowski-Rogacz M, Guillem-Gloria PM, Buchholz F, Pisabarro MT, Theis M (2024). Nucleolar protein TAAP1/C22orf46confers pro-survival signaling in non-small cell lung cancer. Life Sci Alliance. 2024 Jan 16;7(4):e202302257. doi: 10.26508/lsa.202302257. PubMed
Pasch T, Bäumer N, Bäumer S, Buchholz F, Mootz HD (2024). Towards targeted Cas9 (CRISPR-Cas) delivery: Preparation of IgG antibody-Cas9 conjugates using a split intein. J Pept Sci. 2024 Mar 6. doi: 10.1002/psc.3592. Online ahead of print. PubMed
Mukhametzyanova L, Schmitt LT, Torres-Rivera J, Rojo-Romanos T, Lansing F, Paszkowski-Rogacz M, Hollak H, Brux M, Augsburg M, Schneider PM, Buchholz F (2024). Activation of recombinases at specific DNA loci by zinc-finger domain insertions. Nature Biotechnology. 2024 Jan 31. doi: 10.1038/s41587-023-02121-y. Nature Biotechnology
2023
Schmitt LT, Schneider A, Posorski J, Lansing F, Jelicic M, Jain M, Sayed S, Buchholz F, Sürün D (2023). Quantification of evolved DNA-editing enzymes at scale with DEQSeq. Genome Biol. 2023 Nov 6;24(1):254. doi: 10.1186/s13059-023-03097-3. PubMed
Aich M, Ansari AH, Ding L, Iesmantavicius V, Paul D, Choudhary C, Maiti S, Buchholz F, Chakraborty D (2023). TOBF1 modulates mouse embryonic stem cell fate through regulating alternative splicing of pluripotency genes. Cell Rep. 2023 Oct 31;42(10):113177. doi: 10.1016/j.celrep.2023.113177. PubMed
Klotz DM, Schwarz FM, Dubrovska A, Schuster K, Theis M, Krüger A, Kutz O, Link T, Wimberger P, Drukewitz S, Buchholz F, Thomale J, Kuhlmann JD (2023). Establishment and Molecular Characterization of an In Vitro Model for PARPi-Resistant Ovarian Cancer. Cancers 2023, 15(15), 3774. doi: 10.3390/cancers15153774. PubMed
Jelicic M, Schmitt LT, Paszkowski-Rogacz M, Walder A, Schubert N, Hoersten J, Sürün D, Buchholz F (2023). Discovery and characterization of novel Cre-type tyrosine site-specific recombinases for advanced genome engineering. Nucleic Acids Res. 2023 May 9;gkad366. doi: 10.1093/nar/gkad366. Online ahead of print. PubMed
Donato E, Correia N, Andresen C, Karpova D, Würth R, Klein C, Sohn M, Przybylla A, Zeisberger P, Rothfelder K, Salih H, Bonig H, Stasik S, Röllig C, Dolnik A, Bullinger L, Buchholz F, Thiede C, Hübschmann D, Trumpp A (2023). Retained functional normal and preleukemic HSCs at diagnosis are associated with good prognosis in DNMT3AmutNPM1mut AMLs. Blood Adv. 2023 Mar 28; 7(6): 1011–1018. Published online 2022 Dec 5. doi: 10.1182/bloodadvances.2022008497. PubMed
Okonechnikov K, Camgöz A, Chapman O, Wani S, Park DE, Hübner JM, Chakraborty A, Pagadala M, Bump R, Chandran S, Kraft K, Acuna-Hidalgo R, Reid D, Sikkink K, Mauermann M, Juarez EF, Jenseit A, Robinson JT, Pajtler KW, Milde T, Jäger N, Fiesel P, Morgan L, Sridhar S, Coufal NG, Levy M, Malicki D, Hobbs C, Kingsmore S, Nahas S, Snuderl M, Crawford J, Wechsler-Reya RJ, Davidson TB, Cotter J, Michaiel G, Fleischhack G, Mundlos S, Schmitt A, Carter H, Michealraj KA, Kumar SA, Taylor MD, Rich J, Buchholz F, Mesirov JP, Pfister SM, Ay F, Dixon JR, Kool M, Chavez L (2023). 3D genome mapping identifies subgroup-specific chromosome conformations and tumor-dependency genes in ependymoma. Nat Commun. 2023; 14: 2300. Published online 2023 Apr 21. doi: 10.1038/s41467-023-38044-0. PubMed
Rojo-Romanos T, Karpinski J, Millen S, Beschorner N, Simon F, Paszkowski-Rogacz M, Lansing F, Schneider PM, Sonntag J, Hauber J, Thoma-Kress AK, Buchholz F (2023). Precise excision of HTLV-1 provirus with a designer-recombinase. Mol Ther. 2023 Mar 17:S1525-0016(23)00135-1. doi: 10.1016/j.ymthe.2023.03.014. Online ahead of print. PubMed
Mircetic J, Camgöz A, Abohawya M, Ding L, Dietzel J, Tobar SG, Paszkowski-Rogacz M, Seidlitz T, Schmäche T, Mehnert MC, Sidorova O, Weitz J, Buchholz F, Stange DE (2023). CRISPR/Cas9 Screen in Gastric Cancer Patient-Derived Organoids Reveals KDM1A-NDRG1 Axis as a Targetable Vulnerability. Small Methods. 2023 Mar 12:e2201605. doi: 10.1002/smtd.202201605. Online ahead of print. PubMed
Schönberg P, Ding L, Buchholz F (2023). Genom-Editierung ohne die DNA-Sequenz zu verändern – geht das? BIOspektrum. 2023 Jan; 46-48. doi: 10.1007/s12268-023-1882-2. Springer link
2022
Sayed S, Sidorova OA, Hennig A, Augsburg M, Cortes Vesga CP, Abohawya M, Schmitt LT, Sürün D, Stange DE, Mircetic J, Buchholz F (2022). Efficient correction of oncogenic KRAS and TP53 mutations through CRISPR base editing. Cancer Res. 2022 Jul 8;can.21.2519. doi: 10.1158/0008-5472.CAN-21-2519. PubMed
Ding L, Schmitt LT, Brux M, Sürün D, Augsburg M, Lansing F, Mircetic J, Theis M, Buchholz F (2022). DNA methylation-independent long-term epigenetic silencing with dCRISPR/Cas9 fusion proteins. Life Sci Alliance. 2022 Mar 14;5(6):e202101321. doi: 10.26508/lsa.202101321. Print 2022 Jun. PubMed
Sidorova OA, Sayed S, Paszkowski-Rogacz M, Seifert M, Camgöz A, Roeder I, Bornhäuser M, Thiede C, Buchholz F (2022). RNAi-Mediated Screen of Primary AML Cells Nominates MDM4 as a Therapeutic Target in NK-AML with DNMT3A Mutations. Cells. 2022 Mar 2;11(5):854. doi: 10.3390/cells11050854. PubMed
Guillén-Pingarrón C, Guillem-Gloria PM, Soni A, Ruiz-Gómez G, Augsburg M, Buchholz F, Anselmi M, Pisabarro MT (2022). Conformational dynamics promotes disordered regions from function-dispensable to essential in evolved site-specific DNA recombinases. Comput Struct Biotechnol J. 2022 Jan 22;20:989-1001. doi: 10.1016/j.csbj.2022.01.010. eCollection 2022. PubMed
Lansing F, Mukhametzyanova L, Rojo-Romanos T, Iwasawa K, Kimura M, Paszkowski-Rogacz M, Karpinski J, Grass T, Sonntag J, Schneider PM, Günes C, Hoersten J, Schmitt LT, Rodriguez-Muela N, Knöfler R, Takebe T, Buchholz F (2022). Correction of a Factor VIII genomic inversion with designer-recombinases. Nature Communications volume 13, Article number: 422. doi: 10.1038/s41467-022-28080-7. PubMed
2021
Hoersten J, Ruiz-Gómez G, Lansing F, Rojo-Romanos T, Schmitt LT, Sonntag J, Pisabarro MT, Buchholz F (2021). Pairing of single mutations yields obligate Cre-type site-specific recombinases. Nucleic Acids Res. 2021 Dec 24:gkab1240. doi: 10.1093/nar/gkab1240. Online ahead of print. PMID: 34951450. PubMed
Bernhard SV, Seget-Trzensiok K, Kuffer C, Krastev DB, Stautmeister LM, Theis M, Keuper K, Boekenkamp JE, Kschischo M, Buchholz F, Storchova Z (2021). Loss of USP28 and SPINT2 expression promotes cancer cell survival after whole genome doubling. Cell Oncol (Dordr). 2021 Dec 28. doi: 10.1007/s13402-021-00654-5. Online ahead of print. PMID: 34962618. PubMed
Uvizl A, Goswami R, Gandhi SD, Augsburg M, Buchholz F, Guck J, Mansfeld J, Girardo S (2021). Efficient and gentle delivery of molecules into cells with different elasticity via Progressive Mechanoporation. Lab Chip. 2021 Jun 15;21(12):2437-2452. doi: 10.1039/d0lc01224f. PubMed
2020
Sreevalsan S, Döring M, Paszkowski-Rogacz M, Brux M, Blanck C, Meyer M, Momburg F, Buchholz F, Theis M (2020). MLLT6 maintains PD-L1 expression and mediates tumor immune resistance. EMBO Rep. 2020 Oct 15:e50155. doi: 10.15252/embr.202050155. PubMed
Soni A, Augsburg M, Buchholz F, Pisabarro MT (2020). Nearest-neighbor amino acids of specificity-determining residues influence the activity of engineered Cre-type recombinases. Sci Rep. Aug 19;10(1):13985. doi: 10.1038/s41598-020-70867-5. PubMed
Graindorge A, Pinheiro I, Nawrocka A, Mallory AC, Tsvetkov P, Gil N, Carolis C,Buchholz F, Ulitsky I, Heard E, Taipale M, Shkumatava A (2020). Author Correction: In-cell identification and measurement of RNA-protein interactions. Nat Commun. Jul 8;11(1):3498. doi: 10.1038/s41467-020-17282-6. PubMed
Schmidt S, Linge A, Grosser M, Lohaus F, Gudziol V, Nowak A, Tinhofer I, Budach V, Sak A, Stuschke M, Balermpas P, Rödel C, Schäfer H, Grosu AL, Abdollahi A, Debus J, Ganswindt U, Belka C, Pigorsch S, Combs SE, Mönnich D, Zips D, Baretton GB, Buchholz F, Baumann M, Krause M, Löck S, German Cancer Consortium Radiation Oncology Group (2020). Comparison of GeneChip, nCounter, and Real-Time PCR-Based Gene Expressions Predicting Locoregional Tumor Control after Primary and Postoperative Radiochemotherapy in Head and Neck Squamous Cell Carcinoma. J Mol Diagn Jun;22(6):801-810. doi: 10.1016/j.jmoldx.2020.03.005. Epub 2020 Apr 2. PubMed
Sürün D, Schneider A, Mircetic J, Neumann K, Lansing F, Paszkowski-Rogacz M, Hänchen V, Lee-Kirsch MA, Buchholz F (2020). Efficient Generation and Correction of Mutations in Human iPS Cells Utilizing mRNAs of CRISPR Base Editors and Prime Editors. Genes (Basel) May 6;11(5):511. doi: 10.3390/genes11050511. PubMed
Lansing F, Paszkowski-Rogacz M, Schmitt LT, Schneider PM, Romanos TR, Sonntag J, Buchholz F (2020). A heterodimer of evolved designer-recombinases precisely excises a human genomic DNA locus. Nucleic Acids Res 48(1): 472-485. doi: 10.1093/nar/gkz1078. PubMed
Mayer D, Stadler MB, Rittirsch M, Hess D, Lukonin I, Winzi M, Smith A, Buchholz F, Betschinger J (2020). Zfp281 orchestrates interconversion of pluripotent states by engaging Ehmt1 and Zic2. EMBO J 39(2): e102591. doi: 10.15252/embj.2019102591. PubMed
2019
Graindorge A, Pinheiro I, Nawrocka A, Mallory AC, Tsvetkov P, Gil N, Carolis C, Buchholz F, Ulitsky I, Heard E, Taipale M, Shkumatava A (2019). In-cell identification and measurement of RNA-protein interactions. Nat Commun 10(1): 5317. PubMed
Gunes C, Paszkowski-Rogacz M, Rahmig S, Khattak S, Camgoz A, Wermke M, Dahl A, Bornhauser M, Waskow C and Buchholz F (2019). Comparative RNAi Screens in Isogenic Human Stem Cells Reveal SMARCA4 as a Differential Regulator. Stem Cell Reports 12(5): 1084-1098. PubMed
Lansing F, Paszkowski-Rogacz M, Schmitt LT, Schneider PM, Romanos TR, Sonntag J, Buchholz F (2020). A heterodimer of evolved designer-recombinases precisely excises a human genomic DNA locus. Nucleic Acids Res 48(1): 472-485. PubMed
Linge A, Schmidt S, Lohaus F, Krenn C, Bandurska-Luque A, Platzek I, von Neubeck C, Appold S, Nowak A, Gudziol V, Buchholz F, Baretton GB, Baumann M, Lock S, Krause M (2019). Independent validation of tumour volume, cancer stem cell markers and hypoxia-associated gene expressions for HNSCC after primary radiochemotherapy. Clin Transl Radiat Oncol 16: 40-47. PubMed
Lock S, Linge A, Seidlitz A, Bandurska-Luque A, Nowak A, Gudziol V, Buchholz F, Aust DE, Baretton GB, Zophel K, Steinbach J, Kotzerke J, Overgaard J, Zips D, Krause M, Baumann M and Troost EGC (2019). Repeat FMISO-PET imaging weakly correlates with hypoxia-associated gene expressions for locally advanced HNSCC treated by primary radiochemotherapy. Radiother Oncol 135: 43-50. PubMed
Niwayama R, Moghe P, Liu YJ, Fabreges D, Buchholz F, Piel M, Hiiragi T (2019). A Tug-of-War between Cell Shape and Polarity Controls Division Orientation to Ensure Robust Patterning in the Mouse Blastocyst. Dev Cell 51(5): 564-574 e566. PubMed
Noack F, Pataskar A, Schneider M, Buchholz F, Tiwari VK, Calegari F (2019). Assessment and site-specific manipulation of DNA (hydroxy-)methylation during mouse corticogenesis. Life Sci Alliance 2(2). PubMed
Sayed S, Paszkowski-Rogacz M, Schmitt LT, Buchholz F (2019). CRISPR/Cas9 as a tool to dissect cancer mutations. Methods 164-165: 36-48. PubMed
Schneider A, Hiller M, Buchholz F (2019). Large-scale dissection suggests that ultraconserved elements are dispensable for mouse embryonic stem cell survival and fitness. doi.org/10.1101/683565
2018
Karimova M, Baker O, Camgoz A, Naumann R, Buchholz F*, Anastassiadis K* (2018). A single reporter mouse line for Vika, Flp, Dre, and Cre-recombination. Sci Rep. 2018 Sep 27;8(1):14453. doi: 10.1038/s41598-018-32802-7. PubMed
* Co-corresponding authors
Senserrich J, Batsivari A, Rybtsov S, Gordon-Keylock S, Souilhol C, Buchholz F, Hills D, Zhao S, Medvinsky A (2018). Analysis of Runx1 Using Induced Gene Ablation Reveals Its Essential Role in Pre-liver HSC Development and Limitations of an In Vivo Approach. Stem Cell Reports. 2018 Sep 11;11(3):784-794. doi: 10.1016/j.stemcr.2018.08.004. PubMed
Bäumer N, Rehkämper J, Appel N, Terheyden L, Hartmann W, Wardelmann E, Buchholz F, Müller-Tidow C, Berdel WE, Bäumer S (2018). Downregulation of PIK3CA via antibody-esiRNA-complexes suppresses human xenograft tumor growth. PLoS One. 2018 Jul 12;13(7):e0200163. doi: 10.1371/journal.pone.0200163. eCollection 2018. PubMed
Linge A, Schmidt S, Krenn C, Lohaus F, Valentini C, von Neubeck C, Appold S, Gudziol V, Nowak A, Baretton GB, Buchholz F, Baumann M, Krause M, Lock S (2018). HPV Status, and Cancer Stem Cell Marker Expression as prognostic Markers for the locoregional Tumor Control in Patients with locally advanced Head and Neck Squamous Cell Carcinoma after primary Chemoradiotherapy. STRAHLENTHERAPIE UND ONKOLOGIE. Volume: 194; Supplement: 1; Pages: S52-S53. PubMed
Schmidt S, Linge A, Zwanenburg A, Leger S, Großer M, Lohaus F, Gudziol V, Nowak A, Tinhofer I, Budach V, Stuschke M, Balermpas P, Rödel C, Grosu AL, Abdollahi A, Debus J, Belka C, Combs SE, Mönnich D, Zips D, Baretton GB, Buchholz F, Baumann M, Krause M, Löck S (2018). Combining different genomic signatures to improve the prognostic power for LRC after PORT-C in HNSCC. Radiother Oncol, 127, 140-141. doi:10.1016/s0167-8140(18)30586-3
Camgoz A, Paszkowski-Rogacz M, Satpathy S, Wermke M, Hamann MV, von Bonin M, Choudhary C, Knapp S, Buchholz F (2018). STK3 is a therapeutic target for a subset of acute myeloid leukemias. Oncotarget. 2018 May 22;9(39):25458-25473. doi: 10.18632/oncotarget.25238. eCollection 2018 May 22. PubMed
Aleksandrov R, Dotchev A, Poser I, Krastev D, Georgiev G, Panova G, Babukov Y, Danovski G, Dyankova T, Hubatsch L, Ivanova A, Atemin A, Nedelcheva-Veleva MN, Hasse S, Sarov M, Buchholz F, Hyman AA, Grill SW, Stoynov SS (2018). Protein Dynamics in Complex DNA Lesions. Mol Cell. 2018 Mar 15;69(6):1046-1061.e5. doi: 10.1016/j.molcel.2018.02.016. PubMed
Winzi M, Casas Vila N, Paszkowski-Rogacz M, Ding L, Noack S, Theis M, Butter F, Buchholz F (2018). The long noncoding RNA lncR492 inhibits neural differentiation of murine embryonic stem cells. PLoS One. 2018 Jan 24;13(1):e0191682. doi: 10.1371/journal.pone.0191682. eCollection 2018. PubMed
Fukui H, Rünker A, Fabel K, Buchholz F, Kempermann G (2018). Transcription factor Runx1 is pro-neurogenic in adult hippocampal precursor cells. PLoS One. 2018 Jan 11;13(1):e0190789. doi: 10.1371/journal.pone.0190789. eCollection 2018. PubMed
Schmidt S, Linge A, Zwanenburg A, Leger S, Lohaus F, Krenn C, Appold S, Gudziol V, Nowak A, von Neubeck C, Tinhofer I, Budach V, Sak A, Stuschke M, Balermpas P, Rödel C, Bunea H, Grosu AL, Abdollahi A, Debus J, Ganswindt U, Belka C, Pigorsch S, Combs SE, Mönnich D, Zips D, Baretton GB, Buchholz F, Baumann M, Krause M, Löck S; DKTK-ROG (2018). Development and Validation of a Gene Signature for Patients with Head and Neck Carcinomas Treated by Postoperative Radio(chemo)therapy. Clin Cancer Res. 2018 Mar 15;24(6):1364-1374. doi: 10.1158/1078-0432.CCR-17-2345. Epub 2018 Jan 3. PubMed
Linge A, Schötz U, Löck S, Lohaus F, von Neubeck C, Gudziol V, Nowak A, Tinhofer I, Budach V, Sak A, Stuschke M, Balermpas P, Rödel C, Bunea H, Grosu AL, Abdollahi A, Debus J, Ganswindt U, Lauber K, Pigorsch S, Combs SE, Mönnich D, Zips D, Baretton GB, Buchholz F, Krause M, Belka C, Baumann M; DKTK-ROG (2018). Comparison of detection methods for HPV status as a prognostic marker for loco-regional control after radiochemotherapy in patients with HNSCC. Radiother Oncol. 2018 Apr;127(1):27-35. doi: 10.1016/j.radonc.2017.12.007. Epub 2017 Dec 30. PubMed
Kumar M, Joseph SR, Augsburg M, Bogdanova A, Drechsel D, Vastenhouw NL, Buchholz F, Gentzel M, Shevchenko A (2018). MS Western, a Method of Multiplexed Absolute Protein Quantification is a Practical Alternative to Western Blotting. Mol Cell Proteomics. 2018 Feb;17(2):384-396. doi: 10.1074/mcp.O117.067082. Epub 2017 Nov 30. PubMed
Frimmel J, Camgoz A, von Bonin M, Paszkowski-Rogacz M, Kuhnert R, Bornhauser M, Buchholz F, Wermke M (2018). Pharmacologic ROCK1-inhibition as potential novel therapeutic approach in acute myeloid leukemia. ONCOLOGY RESEARCH AND TREATMENT. Volume: 41; Supplement: 4; Pages: 78-79
2017
Mircetic J, Dietrich A, Paszkowski-Rogacz M, Krause M, Buchholz F (2017). Development of a genetic sensor that eliminates p53 deficient cells. Nat Commun. 2017 Nov 13;8(1):1463. doi: 10.1038/s41467-017-01688-w. PubMed
Toyoda Y, Cattin CJ, Stewart MP, Poser I, Buchholz F, Müller DJ, Hyman AA (2017). Genome-scale single-cell mechanical phenotyping reveals disease-related genes involved in mitotic rounding. Nat Commun. 2017 Nov 2;8(1):1266. doi: 10.1038/s41467-017-01147-6. PubMed
Meinke G, Karpinski J, Buchholz F, Bohm A (2017). Crystal structure of an engineered, HIV-specific recombinase for removal of integrated proviral DNA. Nucleic Acids Res. 2017 Sep 19;45(16):9726-9740. doi: 10.1093/nar/gkx603. PubMed
Korotkevich E, Niwayama R, Courtois A, Friese S, Berger N, Buchholz F, Hiiragi T(2017). The Apical Domain Is Required and Sufficient for the First Lineage Segregation in the Mouse Embryo. Dev Cell. 2017 Feb 6;40(3):235-247.e7. doi: 10.1016/j.devcel.2017.01.006. PubMed
Jahn A, Rane G, Paszkowski-Rogacz M, Sayols S, Bluhm A, Han CT, Draškovič I, Londoño-Vallejo JA, Kumar AP, Buchholz F, Butter F, Kappei D (2017). ZBTB48 is both a vertebrate telomere-binding protein and a transcriptional activator. EMBO Rep. Jun;18(6):929-946. doi: 10.15252/embr.201744095. PubMed
Mircetic J, Steinebrunner I, Ding L, Fei JF, Bogdanova A, Drechsel D, Buchholz F (2017). Purified Cas9 Fusion Proteins for Advanced Genome Manipulation. Small Methods.160052. DOI: 10.1002/smtd.201600052. PubMed
Kappei D, Scheibe M, Paszkowski-Rogacz M, Bluhm A, Gossmann TI, Dietz S, Dejung M, Herlyn H, Buchholz F, Mann M, Butter F (2017). Phylointeractomics reconstructs functional evolution of protein binding. Nat Commun. Feb 8;8:14334. doi: 10.1038/ncomms14334. PubMed
2016
Karpinski J, Hauber I, Chemnitz J, Schäfer C, Paszkowski-Rogacz M, Chakraborty D, Beschorner N, Hofmann-Sieber H, Lange UC, Grundhoff A, Hackmann K, Schrock E, Abi-Ghanem J, Pisabarro MT, Surendranath V, Schambach A, Lindner C, van Lunzen J, Hauber J, Buchholz F (2016). Directed evolution of a recombinase that excises the provirus of most HIV-1 primary isolates with high specificity. Nature Biotechnology. On-line Feb 22. doi: 10.1038/nbt.3467. PubMed
Gebler C, Lohoff T, Paszkowski-Rogacz M, Mircetic J, Chakraborty D, Camgoz A, Hamann MV, Theis M, Thiede C, Buchholz F (2016). Inactivations of cancer mutations utilizing CRISPR/Cas9. JNCI. doi: 10.1093/jnci/djw183. PubMed
Karimova M, Splith V, Karpinski J, Pisabarro MT, Buchholz F (2016). Discovery of Nigri/nox and Panto/pox site-specific recombinase systems facilitates advanced genome engineering. Sci Rep. 2016 Jul 22;6:30130. doi: 10.1038/srep30130. PubMed
Meinke G, Bohm A, Hauber J, Pisabarro MT, Buchholz F (2016). Cre Recombinase and Other Tyrosine Recombinases. Chem Rev. May 10. PubMed
Herberg M, Glauche I, Zerjatke T, Winzi M, Buchholz F, Roeder I (2016). Dissecting mechanisms of mouse embryonic stem cells heterogeneity through a model-based analysis of transcription factor dynamics. J R Soc Interface. Apr;13(117). pii: 20160167. doi: 10.1098/rsif.2016.0167. PubMed
Linge A, Lohaus F, Löck S, Nowak A, Gudziol V, Valentini C, von Neubeck C, Jütz M, Tinhofer I, Budach V, Sak A, Stuschke M, Balermpas P, Rödel C, Grosu AL, Abdollahi A, Debus J, Ganswindt U, Belka C, Pigorsch S, Combs SE, Mönnich D, Zips D, Buchholz F, Aust DE, Baretton GB, Thames HD, Dubrovska A, Alsner J, Overgaard J, Krause M, Baumann M; DKTK-ROG (2016). HPV status, cancer stem cell marker expression, hypoxia gene signatures and tumour volume identify good prognosis subgroups in patients with HNSCC after primary radiochemotherapy: A multicentre retrospective study of the German Cancer Consortium Radiation Oncology Group (DKTK-ROG). Radiother Oncol. Dec;121(3):364-373. doi: 10.1016/j.radonc.2016.11.008. PubMed
Linge A, Löck S, Gudziol V, Nowak A, Lohaus F, von Neubeck C, Jütz M, Abdollahi A, Debus J, Tinhofer I, Budach V, Sak A, Stuschke M, Balermpas P, Rödel C, Avlar M, Grosu AL, Bayer C, Belka C, Pigorsch S, Combs SE, Welz S, Zips D, Buchholz F, Aust DE, Baretton GB, Thames HD, Dubrovska A, Alsner J, Overgaard J, Baumann M, Krause M; DKTK-ROG (2016). Low Cancer Stem Cell Marker Expression and Low Hypoxia Identify Good Prognosis Subgroups in HPV(-) HNSCC after Postoperative Radiochemotherapy: A Multicenter Study of the DKTK-ROG. Clin Cancer Res. Jun 1;22(11):2639-49. doi: 10.1158/1078-0432.CCR-15-1990. PubMed
Bäumer N, Appel N, Terheyden L, Buchholz F, Rossig C, Müller-Tidow C, Berdel WE, Bäumer S (2016). Antibody-coupled siRNA as an efficient method for in vivo mRNA knockdown. Nat Protoc. Jan;11(1):22-36. doi: 10.1038/nprot.2015.137. PubMed
Buchholz F, HauberJ (2016). Antiviral therapy of persistent viral infection using genome editing. Curr Opin Viro. Oct 7;20:85-91. doi: 10.1016/j.coviro.2016.09.012. PubMed
2015
Schmitt-Engel C, Schultheis D, Schwirz J, Ströhlein N, Troelenberg N, Majumdar U, Anh Dao V, Grossmann D, Richter T, Tech M, Dönitz J, Gerischer L, Theis M, Schild I, Trauner J, Koniszewski NDB, Küster E, Kittelmann S, Hu Y, Lehmann S, Siemanowski J, Ulrich J, Panfilio KA, Schröder R, Morgenstern B, Stanke M, Buchholz F, Frasch M, Roth S, Wimmer EA, Schoppmeier M, Klingler M, Bucher G (2015). The iBeetle large-scale RNAi screen reveals gene functions for insect development and physiology. Nature Communications. Jul 28. PubMed
Bäumer S, Bäumer N, Appel N, Terheyden L, Fremerey J, Schelhaas S, Wardelmann E, Buchholz F, Berdel WE, Müller-Tidow C (2015). Antibody-mediated delivery of anti-KRAS-siRNA in vivo overcomes therapy resistance in colon cancer. Clinical Cancer Research. Mar 15. PubMed
Theis M, Paszkowski-Rogacz M, Weisswange I, Chakraborty D, Buchholz F (2015). Targeting Human Long Noncoding Transcripts by Endoribonuclease-Prepared siRNAs. J Biomol Screen Mar 15;21(6):1383-94 PubMed
Wermke M, Camgoz A, Paszkowski-Rogacz M, Thieme S, von Bonin M, Dahl A, Platzbecker U, Theis M, Ehninger G, Brenner S, Bornhäuser M, Buchholz F (2015). RNAi profiling of primary human AML cells identifies ROCK1 as a therapeutic target and nominates fasudil as an antileukemic drug. Blood Jun 11;125(24):3760-8. PubMed
Karimova M, Beschorner N, Dammermann W, Chemnitz J, Indenbirken D, Bockmann JH, Grundhoff A, Lüth S, Buchholz F, Schulze zur Wiesch J, Hauber J (2015). CRISPR/Cas9 nickase-mediated disruption of hepatitis B virus open reading frame S and X. Science Reports Sep 3;5:13734. PubMed
Hein MY, Hubner NC, Poser I, Cox J, Nagaraj N, Toyoda Y, Gak IA, Weisswange I, Mansfeld J, Buchholz F, Hyman AA, Mann M (2015). A human interactome in three quantitative dimensions organized by stoichiometries and abundances. Cell Oct 22; 163(3):712-23. PubMed
Bäumer N, Appel N, Terheyden L, Buchholz F., Rossig C, Müller-Tidow C, Berdel WE, Bäumer S (2015). Antibody-coupled siRNA as an efficient method for in vivo mRNA knockdown. Nature Protocols Dec 3; (1):22-36. PubMed
Ding L, Paszkowski-Rogacz M, Winzi M, Chakraborty D, Theis M, Singh S, Ciotta G, Poser I, Roguev A, Chu WK, Choudhary C, Mann M, Stewart AF, Krogan N, Buchholz F (2015). Systems Analyses Reveal Shared and Diverse Attributes of Oct4 Regulation in Pluripotent Cells. Cell Systems Aug 26. PubMed
Appel N, Bäumer N, Wardelmann E, Buchholz F, Müller-Tidow C, Berdel WE, Bäumer S (2015). Molecular targeting of EGFR-downstream effectors in colorectal cancer cells by antibody-mediated siRNA treatment. Oncol Res. Treat Aug 26;38(suppl 5):1-288. Oncol Res Treat
2014
Machyna M, Kehr S, Straube K, Kappai D, Buchholz F, Butter F, Ule J, Hertel J, Stadler PF, Neugebauer KM (2014). The Coilin Interactome Identifies Hundreds of Small Noncoding RNAs that Traffic through Cajal Bodies. Molecular Cell Nov. 6, Vol 56, Issue 3, p389-399. PubMed
Karpinski J, Chemnitz J, Hauber I, Abi-Ghanem J, Paszkowski-Rogacz M, Surendranath V, Chakrabort D, Hackmann K, Schröck E, Pisabarro MT, Hauber J, Buchholz F (2014). Universal Tre (uTre) recombinase specifically targets the majority of HIV-1 isolates. J Int AIDS Soc. Nov 2, 17(Suppl 3):19706. PubMed
Günal-Sadık G, Paszkowski-Rogacz M, Singaravelu K, Beyer A, Buchholz F, Jessberger R. (2014). Stage-specific binding profiles of cohesin in resting and activated B lymphocytes suggest a role for cohesin in immunoglobulin class switching and maturation. PLoS One Nov 6;9(11):e111748. PubMed
Liakhovitskaia A, Rybtsov S, Smith T, Batsivari A, Rybtsova N, Rode C, de Bruijn M, Buchholz F, Gordon-Keylock S, Zhao S, Medvinsky A (2014). Runx1 is required for progression of CD41+ embryonic precursors into HSCs but not prior to this. Development. Sep;141(17):3319-23. PubMed
Winzi M, Paszkowski-Rogacz M, Buchholz F (2014). Another brick in the wall: RNAi Screens identify new barriers in iPSC reprogramming. Cell Stem Cell. Aug 7;15(2):116-8. PubMed
Raychaudhuri S, Loew C, Körner R, Pinkert S, Theis M, Hayer-Hartl M, Buchholz F, Hartl FU (2014). Interplay of Acetyltransferase EP300 and the Proteasome System in Regulating Heat Shock Transcription Factor 1. Cell. Feb 27;156(5):975-85. doi: 10.1016/j.cell.2014.01.055. PubMed
2013
Hauber I, Hofmann-Sieber H, Chemnitz J, Dubrau D, Chusainow J, Stucka R, Hartjen P, Schambach A, Ziegler P, Hackmann K, Schröck E, Schumacher U, Lindner C, Grundhoff A, Baum C, Manz MG, Buchholz F, Hauber J (2013). Highly significant antiviral activity of HIV-1 LTR-specific tre-recombinase in humanized mice. PLoS Pathogens. Sep;9(9):e1003587. PubMed
Scheibe M, Arnoult N, Kappei D, Buchholz F, Decottignies A, Butter F, Mann M (2013). Quantitative interaction screen of telomeric repeat-containing RNA reveals novel TERRA regulators. Genome Res. Dec;23(12):2149-57. PubMed
Hirst J, Borner GH, Edgar J, Hein MY, Mann M, Buchholz F, Antrobus R, Robinson MS (2013). Interaction Between AP-5 and the Hereditary Spastic Paraplegia Proteins SPG11 and SPG15. Mol Biol Cell. Aug;24(16):2558-69. PubMed
Kappei D, Butter F, Scheibe M, Draskovic I, Krastev DB, Kittler R, Londono-Vallejo JA, Mann M, Buchholz F (2013). Hot1, a novel direct telomere-repeat binding protein, controls telomere length through interaction with active telomerase. EMBO J. Jun 12;32(12):1681-701. PubMed
Niebuhr B, Kriebitzsch N, Fischer M, Behrens K, Günther T, Alawi M, Bergholz U, Müller U, Roscher S, Ziegler M, Buchholz F, Grundhoff A, Stocking C (2013). Runx1 is essential at two stages of early murine B-cell development. Blood, Jul 18;122(3):413-23. PubMed
Caldarelli A, Müller JP, Paskowski-Rogacz M, Herrmann K, Bauer R, Koch S, Henninger AK, Krastev D, Ding L, Kasper S, Fischer T, Brodhun M, Böhmer FD, Buchholz F (2013). A genome-wide RNAi screen identifies proteins modulating aberrant FLT3-ITD signaling. Leukemia, Mar 19. doi: 10.1038/leu.2013.83. PubMed
Thieme S, Gyárfás T, Richter C, Ozhan G, Fu J, Alexopulou D, Muders MH, Michalk I, Jakob C, Dahl A, Klink B, Bandola J, Bachmann M, Schröck E, Buchholz F, Stewart AF, Weidinger G, Anastassiadis K, Brenner S (2013). The histone demethylase UTX regulates stem cell migration and hematopoiesis. Blood, Mar 28;121(13):2462-73. PubMed
Karimova M, Abi-Ghanem J, Berger N, Surendranath V, Pisabarro MT, Buchholz F (2013). Vika/vox, a novel efficient and specific Cre/IoxP-like site-specific recombination system. Nucleic Acids Res. 41(2):e37. PubMed
Abi-Ghanem J, Chusainow J, Karimova M, Spiegel C, Hofmann-Sieber H, Hauber J, Buchholz F, Pisabarro MT (2013). Engineering of a target site-specific recombinase by a combined evolution- and structure-guided approach. Nucleic Acids Res. Feb 1;41(4):2394-403. PubMed
Buchholz F, Hauber J (2013). Engineered DNA modifying enzymes: Components of a future strategy to cure HIV/AIDS. Antiviral Res. Feb;97(2):211-7. PubMed
Surendranath V, Theis M, Habermann BH, Buchholz F (2013). Designing efficient and specific endoribonuclease-prepared siRNAs. Methods Mol Biol. 2013;942:193-204. PubMed
Hauber J, Hauber I, Buchholz F (2013). Revolutionizing HIV-therapy by Tre-Recombinase? Initial observations and current state of development. MW Fortschr Med. Jun 13;155 Suppl 1:22-3. PubMed
2012
Tomczak A, Sontheimer J, Drechsel D, Hausdorf R, Gentzel M, Shevchenko A, Eichler S, Fahmy K, Buchholz F, Pisabarro MT (2012). 3D Profile-Based Approach to Proteome-Wide Discovery of Novel Human Chemokines. PLoS One. 2012;7(5):e36151. Epub 2012 May 7. PubMed
Ross K, Sedello AK, Putz G, Paszkowski-Rogacz M, Bird AW, Hubner N, Mann M, Waskow C, Stocking C, Buchholz F (2012). Polycomb group ring finger 1 cooperates with Runx1 in regulating differentiation and self renewal of hematopoietic cells. Blood, 2012; 3;119(18):4152-61. PubMed
Mariyanna L, Priyadarshini P, Hofmann-Sieber H, Krepstakies M, Walz N, Grundhoff A, Buchholz F, Hildt E, Hauber J (2012). Excision of HIV-1 proviral DNA by recombinant cell permeable tre-recombinase. PLoS One. 2012;7(2):e31576. Epub 2012 Feb 13. PubMed
Chakraborty D, Kappei D, Theis M, Nitzsche A, Ding L, Paskowski-Rogacz M, Surendranath V, Berger N, Schulz H, Saar K, Huebner N, Buchholz F (2012). Combined RNAi and localization for functionally dissecting long noncoding RNAs. Nature Methods. 12:9(4):360-2. PubMed
Gunal G, Paszkowski-Rogacz M, Singaravelu K, Beyer A Buchholz F, Jessberger R (2012). Cohesin’s potential role in immunoglobulin class switching. FEBS JOURNAL. Volume: 279, Special Issue: SI, Supplement: 1, Pages: 494-494, Published: SEP 2012
Ding L, Poser I, Paszkowski-Rogacz M, Buchholz F (2012). From RNAi Screens to Molecular Function in Embryonic Stem Cells. Stem Cell Rev. 2012 Mar;8(1):32-42. PubMed
2011
Leushacke M, Spörle R, Bernemann C, Brouwer-Lehmitz A, Fritzmann J, Theis M, Buchholz F, Herrmann BG, Morkel M (2011). An RNA interference phenotypic screen identifies a role for FGF signals in colon cancer progression. PLoS One. 6(8):e23381. Epub 2011 Aug 11. PubMed
Krastev DB, Slabicki M, Paszkowski-Rogacz M, Hubner NC, Junqueira M, Shevchenko A, Mann M, Neugebauer KM, Buchholz F (2011). A systematic RNAi synthetic interaction screen reveals a link between p53 and snoRNP assembly. Nat Cell Biol. Jun 5;13(7):809-18. doi: 10.1038/ncb2264. PubMed
Nitzsche A, Paszkowski-Rogacz M, Matarese F, Janssen-Megens EM, Hubner NC, Schulz H, de Vries I, Ding L, Huebner N, Mann M, Stunnenberg HG, Buchholz F (2011). RAD21 cooperates with pluripotency transcription factors in the maintenance of embryonic stem cell identity. PLoS One. May 12;6(5):e19470. PubMed
Krastev DB, Buchholz F (2011). Ribosome biogenesis and p53: Who is regulating whom? Cell Cycle. Oct 15;10(20):3417-8. PubMed
Theis M, Buchholz F (2011). High-throughput RNAi screening in mammalian cells with esiRNAs. Methods. Apr;53(4):424-9. PubMed
Buchholz F, Hauber J (2011). In Vitro Evolution and Analysis of HIV-1 LTR-Specific Recombinases. Methods. 53 (1): 102-9. PubMed
2010
Surendranath V, Chusainow J, Hauber J, Buchholz F, Habermann BH (2010). SeLOX–a locus of recombination site search tool for the detection and directed evolution of site-specific recombination systems. Nucleic Acids Res. 1;38 Suppl:W293-8. PubMed
Slabicki MM, Theis M, Krastev DB, Samsonov EM, Junqueira M, Paszkowski-Rogacz M, Teyra J, Heninger AK, Poser I, Prieur F, Truchetto J, Confavreux C, Marelli C, Durr A, Camdessanche JP, Brice A, Shevchenko A, Pisabarro MT, Stevanin G, Buchholz F (2010). A genome-scale DNA repair RNAi screen identifies SPG47 as a novel gene associated with hereditary spastic paraplegia. PLoS Biology. 29;8(6):e1000408. PubMed
Hutchins JRA, Toyoda Y, Hegemann B, Poser I, Heriche JK, Sykora MM, Augsburg M, Hudecz O, Buschhorn BA, Bulkescher J, Comartin D, Schleiffer A, Sarov M, Pozniakovsky A, Slabicki MM, Schloissnig S, Lawo S, Pelletier L, Stark H, Nasmyth K, Ellenberg J, Durbin R, Buchholz F, Mechtler K, Hyman AA, Peters JM (2010). Mitotic Protein Complexes in Human Cells. Science. 30;328(5978):593-9. PubMed
Collinet C, Stöter M, Bradshaw C R, Samusik N, Rink JC, Kenski D, Habermann B, Buchholz F, Henschel R, Mueller M, Nagel WE, Fava E, Kalaidzidis Y, Zerial M (2010). System Survey of Endocytosis by Functional Genomics and Quantitative Multi-Parametric Image Analysis. Nature. 11;464(7286):243-9. PubMed
Theis M, Buchholz F (2010). MISSION esiRNA for RNAi screening in mammalian cells. J Vis Exp. May 12;(39). pii: 2008. doi: 10.3791/2008. PubMed
Butter F, Kappei D, Buchholz F, Vermeulen M, Mann M (2010). A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth. EMBO Rep. Apr;11(4):305-11. PubMed
Paszkowski-Rogacz M, Slabicki M, Pisabarro MT, Buchholz F (2010). PhenoFam-gene set enrichment analysis through protein structural information. BMC Bioinformatics. May 17;11:254. PubMed
2009
Theis M, Paszkowski-Rogacz M, Buchholz F (2009). SKAnking with Ska3: essential role of Ska3 in cell division revealed by combined phenotypic profiling. Cell Cycle. 1;8(21):3435-7. PubMed
Schulz H, Kolde R, Adler P, Aksoy I, Anastassiadis K, Bader M, Billon N, Boeuf H, Bourillot PY, Buchholz F, Dani C, Doss MX, Forrester L, Gitton M, Henrique D, Hescheler J, Himmelbauer H, Hübner N, Karantzali E, Kretsovali A, Lubitz S, Pradier L, Rai M, Reimand J, Rolletschek A, Sachinidis A, Savatier P, Stewart F, Storm MP, Trouillas M, Vilo J, Welham MJ, Winkler J, Wobus AM, Hatzopoulos AK (2009). Functional Genomics in Embryonic Stem Cells Consortium. The FunGenES database: a genomics resource for mouse embryonic stem cell differentiation. PLoS One. 3;4(9):e6804. PubMed
Anastassiadis K, Fu J, Patsch C, Hu S, Weidlich S, Duerschke K, Buchholz F, Edenhofer F, Stewart AF (2009). Dre recombinase, like Cre, is a highly efficient site-specific recombinase in E. coli, mammalian cells and mice. Dis Model Mech. 2(9-10):508-15. PubMed
Lawo S, Bashkurov M, Mullin M, Ferreria MG, Kittler R, Habermann B, Tagliaferro A, Poser I, Hutchins JRA, Hegemann B, Pinchev D, Buchholz F, Peters JM, Hyman AA, Gingras AC, Pelletier L (2009). HAUS, the 8-Subunit Human Augmin Complex, Regulates Centrosome and Spindle Integrity. Current Biology. 19(10):816-26. PubMed
Ding L, Paszkowski-Rogacz, M, Nitzsche A, Slabicki MM, Heninger AK, Kittler R, Junqueira M, Shevchenko A, Schulz H, Hubner N, Doss MX, Sachinidis A, Hescheler J, Caldarelli A, Poser I, Theis M, Buchholz F (2009). A genome-scale RNAi screen for Oct4 modulators defines a role of the Paf1 complex for embryonic stem cell identity. Cell Stem Cell. 8;4(5):403-15. PubMed
Theis M, Slabicki M, Junqueira M, Paszkowski-Rogacz M, Sontheimer J, Kittler R, Heninger AH, Glatter T, Kruusmaa K, Poser I, Hyman AA, Pisabarro MT, Gstaiger M, Aebersold R, Shevchenko A, Buchholz F (2009). Comparative Profiling Identifies C13orf3 as a Novel Component of the Ska Complex Required for Mammalian Cell Division. EMBO J. 28(10):1453-65. PubMed
Buchert M, Darido C, Lagerqvist E, Sedello A, Cazevieille C, Buchholz F, Pannequin J, Joubert D, Hollande F (2009). The symplekin/ZONAB complex inhibits intestinal cell differentiation via the repression of AML1/Runx1. Gastroenterology. 137(1):156-64. PubMed
Trouillas M, Saucourt C, Guillotin B, Gauthereau X, Ding L, Buchholz F, Doss MX, Sachinidis A, Hescheler J, Hummel O, Huebner N, Kolde R, Vilo J, Schultz H, Boeuf H (2009). Three LIF-dependent signatures and competency genes identified by gene profiling studies in mouse ES cells and early derivatives. BMC Genomics. 9;10(1):73. PubMed
Buchholz F (2009). Engineering DNA processing enzymes for the postgenomic era. Curr Opin Biotechnol. 20(4):383-9. PubMed
2008
Buchholz F (2008). Principles of Site-Specific Recombinase (SSR) Technology. J Vis Exp. May 29;(15). PubMed
Kittler R, Pelletier L, Buchholz F (2008). Systems biology of mammalian cell division. Cell Cycle. 7(14):2123-8. PubMed
Poser I, Sarov M, Hutchins J, Heriche JK, Toyoda Y, Nitzche A, Pozniakovsky A, Hegemann B, Bird A, Pelletier L, Kittler R, Naumann R, Mechtler K, Durbin R, Stewart AF, Peters JM, Buchholz F, Hyman AA (2008). BAC TransgeneOmics: A high-throughput method for exploration of protein function in mammals. Nature Methods. 5(5):409-15. PubMed
2007
Kittler R, Pelletier L, Heninger AK Slabicki M, Theis M, Miroslaw L, Poser I, Grabner H, Kozak K, Wagner J, Surendranath V, Richter C, Bowen W, Habermann B, Hyman AA, Buchholz F (2007). Genome-wide RNAi profiling of cell cycle progression in human tissue culture cells. Nature Cell Biology. 9(12):1401-1412. PubMed
Gregan J, Riedel CG, Petronczki M, Cipak,L, Rumpf C, Poser I, Buchholz F, Mechtler K, Nasmyth K (2007). Tandem affinity purification of functional TAP-tagged proteins from human cells. Nature Protocols. 2(5):1145-51. PubMed
Sarkar I, Hauber I, Hauber J, Buchholz F (2007). HIV-1 Proviral DNA Excision Using an Evolved Recombinase. Science. 29;316(5833):1912-5. PubMed
Kittler R, Surendranath V, Heninger AK, Slabicki M, Theis M, Putz G, FrankeK, Caldareli A, Grabner H, Kozak K, Wagner J, Rees E, Korn B, Sachse C, Sönnichsen B, Guo J, Schelter J, Burchard J, Linsley PS, Jackson AL, Habermann B, Buchholz F (2007). Genome-wide resources of endoribonuclease-prepared short interfering RNAs for specific loss-of-function studies. Nature Methods. 4(4):337-344. PubMed
Cammenga J, Niebuhr B, Horn S, Bergholz U, Putz G, Buchholz F, Lohler J, Stocking C (2007). RUNX1 DNA-binding mutants, associated with minimally differentiated acute myelogenous leukemia, disrupt myeloid differentiation. Cancer Research. 15;67(2):537-45. PubMed
2006
Echeverri CJ, Beachy PA, Baum B, Boutros M, Buchholz F, Chanda SK, Downward J, Ellenberg J, Fraser AG, Hacohen N, Hahn WC, Jackson AL, Kiger A, Linsley PS, Lum L, Ma Y, Mathey-Prevot B, Root DE, Sabatini DM, Taipale J, Perrimon N, Bernards R (2006). Minimizing the risk of reporting false positives in large-scale RNAi screens. Nature Methods. 3(10):777-9. PubMed
Riedel CG, Katis VL, Katou Y, Mori S, Itoh T, Helmhart W, Galova M, Petronczki M, Gregan J, Cetin B, Mudrak I, Ogris E, Mechtler K, Pelletier L, Buchholz F, Shirahige K, Nasmyth K (2006). Protein phosphatase 2A protects centromeric sister chromatid cohesion during meiosis I. Nature. 441(7089):53-61. PubMed
Putz G, Rosner A, Nuesslein I, Schmitz N, Buchholz F (2006). AML1 deletion in adult mice causes splenomegaly and lymphomas. Oncogene. 25(6):929-39. PubMed
Ding L, Buchholz F (2006). RNAi in embryonic stem cells. Stem Cell Reviews. 2 (1): 11-18. PubMed
Buchholz F, Kittler R, Slabicki M, Theis M (2006). Enzymatically prepared RNAi libraries. Nature Methods. 3(9):696-700. PubMed
Poser I, Buchholz F (2006). A new approach to specify RNAi experiments. European Pharmaceutical review. 3, 12-17.
2005
Kittler R, Heninger AK, Franke K, Habermann B, Buchholz F (2005). Production of endoribonuclease-prepared short interfering RNAs for gene silencing in mammalian cells. Nat Methods. 2, 779-784. PubMed
Zhang DJ, Wang Q, Wei J, Baimukanova G, Buchholz F, Stewart AF, Mao X, Killeen N (2005). Selective expression of the Cre recombinase in late-stage thymocytes using the distal promoter of the Lck gene. J Immunol. 174, 6725-6731. PubMed
Kittler R, Buchholz F (2005). Functional genomic analysis of cell division by endoribonuclease-prepared siRNAs. Cell Cycle. 4, 564-567. PubMed
Kittler R, Pelletier L, Ma C, Poser I, Fischer S, Hyman AA, Buchholz F (2005). RNA interference rescue by bacterial artificial chromosome transgenesis in mammalian tissue culture cells. Proc Natl Acad Sci U S A. 102, 2396-2401. PubMed
Buchholz F (2005). RNA-Interference in Mammalian Cells. European Biotech News. 4, 39-42.
Krausz E, Heninger AK, Kittler R, Lohmann A, Poser I, Wagner J, Franke K, Kozak K, Grabner H, Buchholz F (2005). A genome-wide RNA-Interference library for the functional characterization of genes in cultured mammalian cells. BioSpektrum. 4, 436-441.
Buchholz F (2005). Functional Genomics in Mammalian Cells by RNAi: Opportunities and Challenges. Laborwelt. 6, 18-21.
2004
Kittler R, Putz G, Pelletier L, Poser I, Heninger AK, Drechsel D, Fischer S, Konstantinova I, Habermann B, Grabner H, Yaspo ML, Himmelbauer H, Korn B, Neugebauer K, Pisabarro MT, Buchholz F (2004). An endoribonuclease-prepared siRNA screen in human cells identifies genes essential for cell division. Nature. 432, 1036-1040. PubMed
Henschel A, Buchholz F, Habermann B (2004). DEQOR: a web-based tool for the design and quality control of siRNAs. Nucleic Acids Res. 32, W113-120.
Kronke J, Kittler R, Buchholz F, Windisch MP, Pietschmann T, Bartenschlager R, Frese M (2004). Alternative approaches for efficient inhibition of hepatitis C virus RNA replication by small interfering RNAs. J Virol. 78, 3436-3446. PubMed
Calegari F, Marzesco AM, Kittler R, Buchholz F, Huttner WB (2004). Tissue-specific RNA interference in post-implantation mouse embryos using directional electroporation and whole embryo culture. Differentiation. 72, 92-102. PubMed
2003
Ennifar E, Meyer J E, Buchholz F, Stewart AF, Suck D (2003). Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation. Nucleic Acids Res. 31, 5449-5460. PubMed
Kittler R, Buchholz F (2003). RNA interference: gene silencing in the fast lane. Semin Cancer Biol. 13, 259-265. PubMed
2002
Calegari F, Haubensak W, Yang D, Huttner WB, Buchholz F (2002). Tissue-specific RNA interference in postimplantation mouse embryos with endoribonuclease-prepared short interfering RNA. Proc Natl Acad Sci U S A. 99, 14236-14240. PubMed
Yang D, Buchholz F, Huang Z, Goga A, Chen CY, Brodsky FM, Bishop JM (2002). Short RNA duplexes produced by hydrolysis with Escherichia coli RNase III mediate effective RNA interference in mammalian cells. Proc Natl Acad Sci U S A. 99, 9942-9947. PubMed
Shimshek DR, Kim J, Hubner MR, Spergel DJ, Buchholz F, Casanova E, Stewart AF, Seeburg PH, Sprengel R (2002). Codon-improved Cre recombinase (iCre) expression in the mouse. Genesis. 32, 19-26. PubMed
2001
Buchholz F, Stewart AF (2001). Alteration of Cre recombinase site specificity by substrate-linked protein evolution. Nat Biotechnol. 19, 1047-1052. PubMed
Buchholz F, Bishop M (2001). LoxP-directed cloning: use of Cre recombinase as a universal restriction enzyme. Biotechniques. 31, 906-908, 910, 912, 914, 916, 918. PubMed
2000
Buchholz F, Refaeli Y, Trumpp A, Bishop JM (2000). Inducible chromosomal translocation of AML1 and ETO genes through Cre/loxP-mediated recombination in the mouse. EMBO Rep. 1, 133-139. PubMed
Muyrers JP, Zhan, Y, Buchholz F, Stewart AF (2000). RecE/RecT and Redalpha/Redbeta initiate double-stranded break repair by specifically interacting with their respective partners. Genes Dev. 14, 1971-1982. PubMed
Rodriguez CI, Buchholz F, Galloway J, Sequerra R, Kasper J, Ayala R, Stewart AF, Dymecki SM (2000). High-efficiency deleter mice show that FLPe is an alternative to Cre-loxP. Nat Genet. 25, 139-140. PubMed
1998
Ringrose L, Lounnas V, Ehrlich L, Buchholz F, Wade R, Stewart AF (1998). Comparative kinetic analysis of FLP and cre recombinases: mathematical models for DNA binding and recombination. J Mol Biol. 284, 363-384. PubMed
Zhang Y, Buchholz F, Muyrers JP, Stewart AF (1998). A new logic for DNA engineering using recombination in Escherichia coli. Nat Genet. 20, 123-128. PubMed
Angrand PO, Woodroofe CP, Buchholz F, Stewart AF (1998). Inducible expression based on regulated recombination: a single vector strategy for stable expression in cultured cells. Nucleic Acids Res. 26, 3263-3269. PubMed
Buchholz F, Angrand PO, Stewart AF (1998). Improved properties of FLP recombinase evolved by cycling mutagenesis. Nat Biotechnol. 16, 657-662. PubMed
1996
Buchholz F, Ringrose L, Angrand PO, Rossi F, Stewart AF (1996). Different thermostabilities of FLP and Cre recombinases: implications for applied site-specific recombination. Nucleic Acids Res. 24, 4256-4262. PubMed
Buchholz F, Angrand PO, Stewart AF (1996). A simple assay to determine the functionality of Cre or FLP recombination targets in genomic manipulation constructs. Nucleic Acids Res. 24, 3118-3119. PubMed
Jiang Y, Yu VC, Buchholz F, O’Connell S, Rhodes SJ, Candeloro C, Xia YR, Lusis AJ, Rosenfeld MG (1996). A novel family of Cys-Cys, His-Cys zinc finger transcription factors expressed in developing nervous system and pituitary gland. J Biol Chem. 271, 10723-10730. PubMed