Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 490

1.

Single-cell transcriptomic profiling of the aging mouse brain.

Ximerakis M, Lipnick SL, Innes BT, Simmons SK, Adiconis X, Dionne D, Mayweather BA, Nguyen L, Niziolek Z, Ozek C, Butty VL, Isserlin R, Buchanan SM, Levine SS, Regev A, Bader GD, Levin JZ, Rubin LL.

Nat Neurosci. 2019 Oct;22(10):1696-1708. doi: 10.1038/s41593-019-0491-3. Epub 2019 Sep 24.

PMID:
31551601
2.

Rewiring of the Human Mitochondrial Interactome during Neuronal Reprogramming Reveals Regulators of the Respirasome and Neurogenesis.

Moutaoufik MT, Malty R, Amin S, Zhang Q, Phanse S, Gagarinova A, Zilocchi M, Hoell L, Minic Z, Gagarinova M, Aoki H, Stockwell J, Jessulat M, Goebels F, Broderick K, Scott NE, Vlasblom J, Musso G, Prasad B, Lamantea E, Garavaglia B, Rajput A, Murayama K, Okazaki Y, Foster LJ, Bader GD, Cayabyab FS, Babu M.

iScience. 2019 Sep 27;19:1114-1132. doi: 10.1016/j.isci.2019.08.057. Epub 2019 Sep 4.

3.

Evaluation of methods to assign cell type labels to cell clusters from single-cell RNA-sequencing data.

Diaz-Mejia JJ, Meng EC, Pico AR, MacParland SA, Ketela T, Pugh TJ, Bader GD, Morris JH.

Version 2. F1000Res. 2019 Mar 15 [revised 2019 Jan 1];8. pii: ISCB Comm J-296. doi: 10.12688/f1000research.18490.2. eCollection 2019.

4.

SMARCA2-deficiency confers sensitivity to targeted inhibition of SMARCA4 in esophageal squamous cell carcinoma cell lines.

Ehrenhöfer-Wölfer K, Puchner T, Schwarz C, Rippka J, Blaha-Ostermann S, Strobl U, Hörmann A, Bader G, Kornigg S, Zahn S, Sommergruber W, Schweifer N, Zichner T, Schlattl A, Neumüller RA, Shi J, Vakoc CR, Kögl M, Petronczki M, Kraut N, Pearson MA, Wöhrle S.

Sci Rep. 2019 Aug 12;9(1):11661. doi: 10.1038/s41598-019-48152-x.

5.

Effect of angiotensin receptor blockers on blood pressure and renal function in patients with concomitant hypertension and chronic kidney disease: a systematic review and meta-analysis.

Burnier M, Lin S, Ruilope L, Bader G, Durg S, Brunel P.

Blood Press. 2019 Aug 8:1-17. doi: 10.1080/08037051.2019.1644155. [Epub ahead of print]

PMID:
31392910
6.

Intracellular Trapping of the Selective Phosphoglycerate Dehydrogenase (PHGDH) Inhibitor BI-4924 Disrupts Serine Biosynthesis.

Weinstabl H, Treu M, Rinnenthal J, Zahn SK, Ettmayer P, Bader G, Dahmann G, Kessler D, Rumpel K, Mischerikow N, Savarese F, Gerstberger T, Mayer M, Zoephel A, Schnitzer R, Sommergruber W, Martinelli P, Arnhof H, Peric-Simov B, Hofbauer KS, Garavel G, Scherbantin Y, Mitzner S, Fett TN, Scholz G, Bruchhaus J, Burkard M, Kousek R, Ciftci T, Sharps B, Schrenk A, Harrer C, Haering D, Wolkerstorfer B, Zhang X, Lv X, Du A, Li D, Li Y, Quant J, Pearson M, McConnell DB.

J Med Chem. 2019 Sep 12;62(17):7976-7997. doi: 10.1021/acs.jmedchem.9b00718. Epub 2019 Aug 14.

PMID:
31365252
7.

Benchmarking to the Gold Standard: Hyaluronan-Oxime Hydrogels Recapitulate Xenograft Models with In Vitro Breast Cancer Spheroid Culture.

Baker AEG, Bahlmann LC, Tam RY, Liu JC, Ganesh AN, Mitrousis N, Marcellus R, Spears M, Bartlett JMS, Cescon DW, Bader GD, Shoichet MS.

Adv Mater. 2019 Sep;31(36):e1901166. doi: 10.1002/adma.201901166. Epub 2019 Jul 19.

PMID:
31322299
8.

EPIC: software toolkit for elution profile-based inference of protein complexes.

Hu LZ, Goebels F, Tan JH, Wolf E, Kuzmanov U, Wan C, Phanse S, Xu C, Schertzberg M, Fraser AG, Bader GD, Emili A.

Nat Methods. 2019 Aug;16(8):737-742. doi: 10.1038/s41592-019-0461-4. Epub 2019 Jul 15.

PMID:
31308550
9.

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019.

Schreiber F, Sommer B, Bader GD, Gleeson P, Golebiewski M, Hucka M, Keating SM, König M, Myers C, Nickerson D, Waltemath D.

J Integr Bioinform. 2019 Jul 13;16(2). pii: /j/jib.2019.16.issue-2/jib-2019-0035/jib-2019-0035.xml. doi: 10.1515/jib-2019-0035.

PMID:
31301675
10.

Publisher Correction: BAF complex vulnerabilities in cancer demonstrated via structure-based PROTAC design.

Farnaby W, Koegl M, Roy MJ, Whitworth C, Diers E, Trainor N, Zollman D, Steurer S, Karolyi-Oezguer J, Riedmueller C, Gmaschitz T, Wachter J, Dank C, Galant M, Sharps B, Rumpel K, Traxler E, Gerstberger T, Schnitzer R, Petermann O, Greb P, Weinstabl H, Bader G, Zoephel A, Weiss-Puxbaum A, Ehrenhöfer-Wölfer K, Wöhrle S, Boehmelt G, Rinnenthal J, Arnhof H, Wiechens N, Wu MY, Owen-Hughes T, Ettmayer P, Pearson M, McConnell DB, Ciulli A.

Nat Chem Biol. 2019 Aug;15(8):846. doi: 10.1038/s41589-019-0329-z.

PMID:
31267096
11.

[Assessment of pelvic floor muscle training programs and urinary incontinence in women: A literature Review].

Flandin-Crétinon S, Roelens I, Sellier Y, Bader G, Carbonnel M, Ayoubi JM.

Gynecol Obstet Fertil Senol. 2019 Jul - Aug;47(7-8):591-598. doi: 10.1016/j.gofs.2019.06.009. Epub 2019 Jun 27. French.

PMID:
31255837
12.

Towards reliable named entity recognition in the biomedical domain.

Giorgi JM, Bader GD.

Bioinformatics. 2019 Jun 20. pii: btz504. doi: 10.1093/bioinformatics/btz504. [Epub ahead of print]

PMID:
31218364
13.

BAF complex vulnerabilities in cancer demonstrated via structure-based PROTAC design.

Farnaby W, Koegl M, Roy MJ, Whitworth C, Diers E, Trainor N, Zollman D, Steurer S, Karolyi-Oezguer J, Riedmueller C, Gmaschitz T, Wachter J, Dank C, Galant M, Sharps B, Rumpel K, Traxler E, Gerstberger T, Schnitzer R, Petermann O, Greb P, Weinstabl H, Bader G, Zoephel A, Weiss-Puxbaum A, Ehrenhöfer-Wölfer K, Wöhrle S, Boehmelt G, Rinnenthal J, Arnhof H, Wiechens N, Wu MY, Owen-Hughes T, Ettmayer P, Pearson M, McConnell DB, Ciulli A.

Nat Chem Biol. 2019 Jul;15(7):672-680. doi: 10.1038/s41589-019-0294-6. Epub 2019 Jun 10. Erratum in: Nat Chem Biol. 2019 Jul 2;:.

PMID:
31178587
14.

The Mitochondrial Transacylase, Tafazzin, Regulates AML Stemness by Modulating Intracellular Levels of Phospholipids.

Seneviratne AK, Xu M, Aristizabal Henao JJ, Fajardo VA, Hao Z, Voisin V, Xu GW, Hurren R, Kim S, MacLean N, Wang X, Gronda M, Jeyaraju D, Jitkova Y, Ketela T, Mullokandov M, Sharon D, Thomas G, Chouinard-Watkins R, Hawley JR, Schafer C, Yau HL, Khuchua Z, Aman A, Al-Awar R, Gross A, Claypool SM, Bazinet RP, Lupien M, Chan S, De Carvalho DD, Minden MD, Bader GD, Stark KD, LeBlanc P, Schimmer AD.

Cell Stem Cell. 2019 Jun 6;24(6):1007. doi: 10.1016/j.stem.2019.04.020. No abstract available.

PMID:
31173706
15.

A pre-specified statistical analysis plan for the VERIFY study: Vildagliptin efficacy in combination with metformin for early treatment of T2DM.

Matthews DR, Paldánius PM, Stumvoll M, Han J, Bader G, Chiang Y, Proot P, Del Prato S.

Diabetes Obes Metab. 2019 Oct;21(10):2240-2247. doi: 10.1111/dom.13800. Epub 2019 Jun 30.

16.

Bmi1 regulates human glioblastoma stem cells through activation of differential gene networks in CD133+ brain tumor initiating cells.

Vora P, Seyfrid M, Venugopal C, Qazi MA, Salim S, Isserlin R, Subapanditha M, O'Farrell E, Mahendram S, Singh M, Bakhshinyan D, Chokshi C, McFarlane N, Dvorkin-Gheva A, Brown KR, Murty N, Moffat J, Bader GD, Singh SK.

J Neurooncol. 2019 Jul;143(3):417-428. doi: 10.1007/s11060-019-03192-1. Epub 2019 May 21.

PMID:
31115870
17.

scClustViz - Single-cell RNAseq cluster assessment and visualization.

Innes BT, Bader GD.

Version 2. F1000Res. 2018 Sep 21 [revised 2019 Jan 1];7. pii: ISCB Comm J-1522. doi: 10.12688/f1000research.16198.2. eCollection 2018.

18.

Perineal ultrasound for the measurement of urethral mobility: a study of inter- and intra-observer reliability.

Pizzoferrato AC, Nyangoh Timoh K, Bader G, Fort J, Fritel X, Fauconnier A.

Int Urogynecol J. 2019 Sep;30(9):1551-1557. doi: 10.1007/s00192-019-03933-w. Epub 2019 Apr 6.

PMID:
30955055
19.

The Mitochondrial Transacylase, Tafazzin, Regulates for AML Stemness by Modulating Intracellular Levels of Phospholipids.

Seneviratne AK, Xu M, Henao JJA, Fajardo VA, Hao Z, Voisin V, Xu GW, Hurren R, Kim S, MacLean N, Wang X, Gronda M, Jeyaraju D, Jitkova Y, Ketela T, Mullokandov M, Sharon D, Thomas G, Chouinard-Watkins R, Hawley JR, Schafer C, Yau HL, Khuchua Z, Aman A, Al-Awar R, Gross A, Claypool SM, Bazinet RP, Lupien M, Chan S, De Carvalho DD, Minden MD, Bader GD, Stark KD, LeBlanc P, Schimmer AD.

Cell Stem Cell. 2019 Apr 4;24(4):621-636.e16. doi: 10.1016/j.stem.2019.02.020. Epub 2019 Mar 28. Erratum in: Cell Stem Cell. 2019 Jun 6;24(6):1007.

PMID:
30930145
20.
21.

Exploring targets of TET2-mediated methylation reprogramming as potential discriminators of prostate cancer progression.

Kamdar S, Isserlin R, Van der Kwast T, Zlotta AR, Bader GD, Fleshner NE, Bapat B.

Clin Epigenetics. 2019 Mar 27;11(1):54. doi: 10.1186/s13148-019-0651-z.

22.

Werner syndrome helicase is a selective vulnerability of microsatellite instability-high tumor cells.

Lieb S, Blaha-Ostermann S, Kamper E, Rippka J, Schwarz C, Ehrenhöfer-Wölfer K, Schlattl A, Wernitznig A, Lipp JJ, Nagasaka K, van der Lelij P, Bader G, Koi M, Goel A, Neumüller RA, Peters JM, Kraut N, Pearson MA, Petronczki M, Wöhrle S.

Elife. 2019 Mar 25;8. pii: e43333. doi: 10.7554/eLife.43333.

23.

Medium-term outcomes of laparoscopic sacropexy on symptoms and quality of life. Predictive factors for postoperative dissatisfaction.

Pizzoferrato AC, Fermaut M, Varas C, Fauconnier A, Bader G.

Int Urogynecol J. 2019 Mar 19. doi: 10.1007/s00192-019-03923-y. [Epub ahead of print]

PMID:
30888455
24.

Powerful gene set analysis in GWAS with the Generalized Berk-Jones statistic.

Sun R, Hui S, Bader GD, Lin X, Kraft P.

PLoS Genet. 2019 Mar 15;15(3):e1007530. doi: 10.1371/journal.pgen.1007530. eCollection 2019 Mar.

25.

netDx: interpretable patient classification using integrated patient similarity networks.

Pai S, Hui S, Isserlin R, Shah MA, Kaka H, Bader GD.

Mol Syst Biol. 2019 Mar 14;15(3):e8497. doi: 10.15252/msb.20188497.

26.

Concurrent JAK2-Positive Myeloproliferative Disorder and Chronic Myelogenous Leukemia: A Novel Entity? A Case Report With Review of the Literature.

Bader G, Dreiling B.

J Investig Med High Impact Case Rep. 2019 Jan-Dec;7:2324709619832322. doi: 10.1177/2324709619832322.

27.

Laparoscopic promontofixation: Where to stop the anterior dissection?

Habib N, Centini G, Pizzoferrato AC, Bui C, Argay I, Bader G.

Med Hypotheses. 2019 Mar;124:60-63. doi: 10.1016/j.mehy.2019.02.006. Epub 2019 Feb 2.

PMID:
30798918
28.

Highly Selective PTK2 Proteolysis Targeting Chimeras to Probe Focal Adhesion Kinase Scaffolding Functions.

Popow J, Arnhof H, Bader G, Berger H, Ciulli A, Covini D, Dank C, Gmaschitz T, Greb P, Karolyi-Özguer J, Koegl M, McConnell DB, Pearson M, Rieger M, Rinnenthal J, Roessler V, Schrenk A, Spina M, Steurer S, Trainor N, Traxler E, Wieshofer C, Zoephel A, Ettmayer P.

J Med Chem. 2019 Mar 14;62(5):2508-2520. doi: 10.1021/acs.jmedchem.8b01826. Epub 2019 Feb 22.

PMID:
30739444
29.

ARGLU1 is a transcriptional coactivator and splicing regulator important for stress hormone signaling and development.

Magomedova L, Tiefenbach J, Zilberman E, Le Billan F, Voisin V, Saikali M, Boivin V, Robitaille M, Gueroussov S, Irimia M, Ray D, Patel R, Xu C, Jeyasuria P, Bader GD, Hughes TR, Morris QD, Scott MS, Krause H, Angers S, Blencowe BJ, Cummins CL.

Nucleic Acids Res. 2019 Apr 8;47(6):2856-2870. doi: 10.1093/nar/gkz010.

30.

Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap.

Reimand J, Isserlin R, Voisin V, Kucera M, Tannus-Lopes C, Rostamianfar A, Wadi L, Meyer M, Wong J, Xu C, Merico D, Bader GD.

Nat Protoc. 2019 Feb;14(2):482-517. doi: 10.1038/s41596-018-0103-9.

31.

Induction of rod versus cone photoreceptor-specific progenitors from retinal precursor cells.

Khalili S, Ballios BG, Belair-Hickey J, Donaldson L, Liu J, Coles BLK, Grisé KN, Baakdhah T, Bader GD, Wallace VA, Bernier G, Shoichet MS, van der Kooy D.

Stem Cell Res. 2018 Dec;33:215-227. doi: 10.1016/j.scr.2018.11.005. Epub 2018 Nov 13.

32.

The Relative Contributions of Cell-Dependent Cortical Microcircuit Aging to Cognition and Anxiety.

Shukla R, Prevot TD, French L, Isserlin R, Rocco BR, Banasr M, Bader GD, Sibille E.

Biol Psychiatry. 2019 Feb 1;85(3):257-267. doi: 10.1016/j.biopsych.2018.09.019. Epub 2018 Oct 5.

PMID:
30446205
33.
34.

Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations.

MacParland SA, Liu JC, Ma XZ, Innes BT, Bartczak AM, Gage BK, Manuel J, Khuu N, Echeverri J, Linares I, Gupta R, Cheng ML, Liu LY, Camat D, Chung SW, Seliga RK, Shao Z, Lee E, Ogawa S, Ogawa M, Wilson MD, Fish JE, Selzner M, Ghanekar A, Grant D, Greig P, Sapisochin G, Selzner N, Winegarden N, Adeyi O, Keller G, Bader GD, McGilvray ID.

Nat Commun. 2018 Oct 22;9(1):4383. doi: 10.1038/s41467-018-06318-7.

35.

Single-Cell RNA Sequencing: A New Window into Cell Scale Dynamics.

Dasgupta S, Bader GD, Goyal S.

Biophys J. 2018 Aug 7;115(3):429-435. doi: 10.1016/j.bpj.2018.07.003. Epub 2018 Jul 11. Review.

36.

The Cytoscape Automation app article collection.

Demchak B, Otasek D, Pico AR, Bader GD, Ono K, Settle B, Sage E, Morris JH, Longabaugh W, Lopes C, Kucera M, Treister A, Schwikowski B, Molenaar P, Ideker T.

F1000Res. 2018 Jun 20;7:800. doi: 10.12688/f1000research.15355.1. eCollection 2018.

37.

RIOK1 kinase activity is required for cell survival irrespective of MTAP status.

Hörmann A, Hopfgartner B, Köcher T, Corcokovic M, Krammer T, Reiser C, Bader G, Shi J, Ehrenhöfer K, Wöhrle S, Schweifer N, Vakoc CR, Kraut N, Pearson M, Petronczki M, Neumüller RA.

Oncotarget. 2018 Jun 19;9(47):28625-28637. doi: 10.18632/oncotarget.25586. eCollection 2018 Jun 19.

38.

Mammary molecular portraits reveal lineage-specific features and progenitor cell vulnerabilities.

Casey AE, Sinha A, Singhania R, Livingstone J, Waterhouse P, Tharmapalan P, Cruickshank J, Shehata M, Drysdale E, Fang H, Kim H, Isserlin R, Bailey S, Medina T, Deblois G, Shiah YJ, Barsyte-Lovejoy D, Hofer S, Bader G, Lupien M, Arrowsmith C, Knapp S, De Carvalho D, Berman H, Boutros PC, Kislinger T, Khokha R.

J Cell Biol. 2018 Aug 6;217(8):2951-2974. doi: 10.1083/jcb.201804042. Epub 2018 Jun 19.

39.

GeneMANIA update 2018.

Franz M, Rodriguez H, Lopes C, Zuberi K, Montojo J, Bader GD, Morris Q.

Nucleic Acids Res. 2018 Jul 2;46(W1):W60-W64. doi: 10.1093/nar/gky311.

40.

Transfer learning for biomedical named entity recognition with neural networks.

Giorgi JM, Bader GD.

Bioinformatics. 2018 Dec 1;34(23):4087-4094. doi: 10.1093/bioinformatics/bty449.

41.

Patient Similarity Networks for Precision Medicine.

Pai S, Bader GD.

J Mol Biol. 2018 Sep 14;430(18 Pt A):2924-2938. doi: 10.1016/j.jmb.2018.05.037. Epub 2018 Jun 1. Review.

42.

Comparison of glycopyrronium versus tiotropium on the time to clinically important deteriorations in patients with COPD: a post-hoc analysis of randomized trials.

D'Urzo A, Bader G, Shen S, Goyal P, Altman P.

NPJ Prim Care Respir Med. 2018 May 24;28(1):18. doi: 10.1038/s41533-018-0084-8.

43.

Expansion of DUB functionality generated by alternative isoforms - USP35, a case study.

Leznicki P, Natarajan J, Bader G, Spevak W, Schlattl A, Abdul Rehman SA, Pathak D, Weidlich S, Zoephel A, Bordone MC, Barbosa-Morais NL, Boehmelt G, Kulathu Y.

J Cell Sci. 2018 May 16;131(10). pii: jcs212753. doi: 10.1242/jcs.212753.

44.

Identification of CDC25 as a Common Therapeutic Target for Triple-Negative Breast Cancer.

Liu JC, Granieri L, Shrestha M, Wang DY, Vorobieva I, Rubie EA, Jones R, Ju Y, Pellecchia G, Jiang Z, Palmerini CA, Ben-David Y, Egan SE, Woodgett JR, Bader GD, Datti A, Zacksenhaus E.

Cell Rep. 2018 Apr 3;23(1):112-126. doi: 10.1016/j.celrep.2018.03.039.

45.

Automated Computational Inference of Multi-protein Assemblies from Biochemical Co-purification Data.

Goebels F, Hu L, Bader G, Emili A.

Methods Mol Biol. 2018;1764:391-399. doi: 10.1007/978-1-4939-7759-8_25.

PMID:
29605929
46.

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2017.

Schreiber F, Bader GD, Gleeson P, Golebiewski M, Hucka M, Keating SM, Novère NL, Myers C, Nickerson D, Sommer B, Waltemath D.

J Integr Bioinform. 2018 Mar 29;15(1). pii: /j/jib.2018.15.issue-1/jib-2018-0013/jib-2018-0013.xml. doi: 10.1515/jib-2018-0013.

47.

Whole transcriptome analysis reveals differential gene expression profile reflecting macrophage polarization in response to influenza A H5N1 virus infection.

Zhang N, Bao YJ, Tong AH, Zuyderduyn S, Bader GD, Malik Peiris JS, Lok S, Lee SM.

BMC Med Genomics. 2018 Feb 23;11(1):20. doi: 10.1186/s12920-018-0335-0.

48.

Efficacy of the highly selective focal adhesion kinase inhibitor BI 853520 in adenocarcinoma xenograft models is linked to a mesenchymal tumor phenotype.

Hirt UA, Waizenegger IC, Schweifer N, Haslinger C, Gerlach D, Braunger J, Weyer-Czernilofsky U, Stadtmüller H, Sapountzis I, Bader G, Zoephel A, Bister B, Baum A, Quant J, Kraut N, Garin-Chesa P, Adolf GR.

Oncogenesis. 2018 Feb 23;7(2):21. doi: 10.1038/s41389-018-0032-z.

49.

Safety of Vaginal Mesh Surgery Versus Laparoscopic Mesh Sacropexy for Cystocele Repair: Results of the Prosthetic Pelvic Floor Repair Randomized Controlled Trial.

Lucot JP, Cosson M, Bader G, Debodinance P, Akladios C, Salet-Lizée D, Delporte P, Savary D, Ferry P, Deffieux X, Campagne-Loiseau S, de Tayrac R, Blanc S, Fournet S, Wattiez A, Villet R, Ravit M, Jacquetin B, Fritel X, Fauconnier A.

Eur Urol. 2018 Aug;74(2):167-176. doi: 10.1016/j.eururo.2018.01.044. Epub 2018 Feb 19.

50.

Association of Hysteroscopic vs Laparoscopic Sterilization With Procedural, Gynecological, and Medical Outcomes.

Bouillon K, Bertrand M, Bader G, Lucot JP, Dray-Spira R, Zureik M.

JAMA. 2018 Jan 23;319(4):375-387. doi: 10.1001/jama.2017.21269.

Supplemental Content

Support Center