Joseph D. Szustakowski, Ph.D. - Publications

2003 Boston University, Boston, MA, United States 
Biomedical Engineering, Computer Science, Molecular Biology

2/22 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2005 Szustakowski JD, Kasif S, Weng Z. Less is more: towards an optimal universal description of protein folds. Bioinformatics (Oxford, England). 21: ii66-71. PMID 16204127 DOI: 10.1093/bioinformatics/bti1111  0.32
2002 Resendes BL, Robertson NG, Szustakowski JD, Resendes RJ, Weng Z, Morton CC. Gene discovery in the auditory system: characterization of additional cochlear-expressed sequences. Journal of the Association For Research in Otolaryngology : Jaro. 3: 45-53. PMID 12083723 DOI: 10.1007/s101620020005  0.32
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2013 Gong T, Szustakowski JD. DeconRNASeq: a statistical framework for deconvolution of heterogeneous tissue samples based on mRNA-Seq data. Bioinformatics (Oxford, England). 29: 1083-5. PMID 23428642 DOI: 10.1093/bioinformatics/btt090  0.16
2005 Ma Q, Chirn GW, Cai R, Szustakowski JD, Nirmala NR. Clustering protein sequences with a novel metric transformed from sequence similarity scores and sequence alignments with neural networks. Bmc Bioinformatics. 6: 242. PMID 16202129 DOI: 10.1186/1471-2105-6-242  0.12
2002 Zheng Y, Szustakowski JD, Fortnow L, Roberts RJ, Kasif S. Computational identification of operons in microbial genomes. Genome Research. 12: 1221-30. PMID 12176930 DOI: 10.1101/gr.200602  0.12
2015 Bizet AA, Becker-Heck A, Ryan R, Weber K, Filhol E, Krug P, Halbritter J, Delous M, Lasbennes MC, Linghu B, Oakeley EJ, Zarhrate M, Nitschké P, Garfa-Traore M, Serluca F, ... ... Szustakowski JD, et al. Mutations in TRAF3IP1/IFT54 reveal a new role for IFT proteins in microtubule stabilization. Nature Communications. 6: 8666. PMID 26487268 DOI: 10.1038/ncomms9666  0.08
2014 Kaufman KM, Linghu B, Szustakowski JD, Husami A, Yang F, Zhang K, Filipovich AH, Fall N, Harley JB, Nirmala NR, Grom AA. Whole-exome sequencing reveals overlap between macrophage activation syndrome in systemic juvenile idiopathic arthritis and familial hemophagocytic lymphohistiocytosis. Arthritis & Rheumatology (Hoboken, N.J.). 66: 3486-95. PMID 25047945 DOI: 10.1002/art.38793  0.08
2013 Boyer O, Woerner S, Yang F, Oakeley EJ, Linghu B, Gribouval O, Tête MJ, Duca JS, Klickstein L, Damask AJ, Szustakowski JD, Heibel F, Matignon M, Baudouin V, Chantrel F, et al. LMX1B mutations cause hereditary FSGS without extrarenal involvement. Journal of the American Society of Nephrology : Jasn. 24: 1216-22. PMID 23687361 DOI: 10.1681/ASN.2013020171  0.08
2013 Khokhlovich E, Wahl D, Masiello A, Parisot P, El-Ghatta S, Szustakowski JD, Nirmala N, Tuch DS. RAMP: A bioinformatics framework for researching imaging agents through molecular pathways Molecular Imaging. 12: 2-7. PMID 23348786 DOI: 10.2310/7290.2012.00041  0.08
2009 Chatterjee S, Szustakowski JD, Nanguneri NR, Mickanin C, Labow MA, Nohturfft A, Dev KK, Sivasankaran R. Identification of novel genes and pathways regulating SREBP transcriptional activity. Plos One. 4: e5197. PMID 19381295 DOI: 10.1371/journal.pone.0005197  0.08
2018 Hellmann MD, Callahan MK, Awad MM, Calvo E, Ascierto PA, Atmaca A, Rizvi NA, Hirsch FR, Selvaggi G, Szustakowski JD, Sasson A, Golhar R, Vitazka P, Chang H, Geese WJ, et al. Tumor Mutational Burden and Efficacy of Nivolumab Monotherapy and in Combination with Ipilimumab in Small-Cell Lung Cancer. Cancer Cell. PMID 29731394 DOI: 10.1016/j.ccell.2018.04.001  0.04
2008 Ma Q, Chirn GW, Szustakowski JD, Bakhtiarova A, Kosinski PA, Kemp D, Nirmala N. Uncovering mechanisms of transcriptional regulations by systematic mining of cis regulatory elements with gene expression profiles. Biodata Mining. 1: 4. PMID 18822150 DOI: 10.1186/1756-0381-1-4  0.04
2006 Szustakowski JD, Lee JH, Marrese CA, Kosinski PA, Nirmala NR, Kemp DM. Identification of novel pathway regulation during myogenic differentiation. Genomics. 87: 129-38. PMID 16300922 DOI: 10.1016/j.ygeno.2005.08.009  0.04
2019 Ready N, Hellmann MD, Awad MM, Otterson GA, Gutierrez M, Gainor JF, Borghaei H, Jolivet J, Horn L, Mates M, Brahmer J, Rabinowitz I, Reddy PS, Chesney J, Orcutt J, ... ... Szustakowski JD, et al. First-Line Nivolumab Plus Ipilimumab in Advanced Non-Small-Cell Lung Cancer (CheckMate 568): Outcomes by Programmed Death Ligand 1 and Tumor Mutational Burden as Biomarkers. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. JCO1801042. PMID 30785829 DOI: 10.1200/JCO.18.01042  0.01
2019 Hellmann MD, Callahan MK, Awad MM, Calvo E, Ascierto PA, Atmaca A, Rizvi NA, Hirsch FR, Selvaggi G, Szustakowski JD, Sasson A, Golhar R, Vitazka P, Chang H, Geese WJ, et al. Tumor Mutational Burden and Efficacy of Nivolumab Monotherapy and in Combination with Ipilimumab in Small-Cell Lung Cancer. Cancer Cell. 35: 329. PMID 30753829 DOI: 10.1016/j.ccell.2019.01.011  0.01
2017 Siemers NO, Holloway JL, Chang H, Chasalow SD, Ross-MacDonald PB, Voliva CF, Szustakowski JD. Genome-wide association analysis identifies genetic correlates of immune infiltrates in solid tumors. Plos One. 12: e0179726. PMID 28749946 DOI: 10.1371/journal.pone.0179726  0.01
2014 Hartmann N, Luesink E, Khokhlovich E, Szustakowski JD, Baeriswyl L, Peterson J, Scherer A, Nanguneri NR, Staedtler F. The use of haplotype-specific transcripts improves sample annotation consistency. Biomarker Research. 2: 17. PMID 25285214 DOI: 10.1186/2050-7771-2-17  0.01
2011 Gong T, Hartmann N, Kohane IS, Brinkmann V, Staedtler F, Letzkus M, Bongiovanni S, Szustakowski JD. Optimal deconvolution of transcriptional profiling data using quadratic programming with application to complex clinical blood samples. Plos One. 6: e27156. PMID 22110609 DOI: 10.1371/journal.pone.0027156  0.01
2009 Scherer A, Gwinner W, Mengel M, Kirsch T, Raulf F, Szustakowski JD, Hartmann N, Staedtler F, Engel G, Klupp J, Korn A, Kehren J, Haller H. Transcriptome changes in renal allograft protocol biopsies at 3 months precede the onset of interstitial fibrosis/tubular atrophy (IF/TA) at 6 months. Nephrology, Dialysis, Transplantation : Official Publication of the European Dialysis and Transplant Association - European Renal Association. 24: 2567-75. PMID 19398767 DOI: 10.1093/ndt/gfp183  0.01
2007 Szustakowski JD, Kosinski PA, Marrese CA, Lee JH, Elliman SJ, Nirmala N, Kemp DM. Dynamic resolution of functionally related gene sets in response to acute heat stress. Bmc Molecular Biology. 8: 46. PMID 17550601 DOI: 10.1186/1471-2199-8-46  0.01
2007 Kemp DM, Nirmala NR, Szustakowski JD. Extending the pathway analysis framework with a test for transcriptional variance implicates novel pathway modulation during myogenic differentiation. Bioinformatics (Oxford, England). 23: 1356-62. PMID 17392327 DOI: 10.1093/bioinformatics/btm116  0.01
2007 Wilson L, Yang Q, Szustakowski JD, Gullicksen PS, Halse R. Pyruvate induces mitochondrial biogenesis by a PGC-1 alpha-independent mechanism. American Journal of Physiology. Cell Physiology. 292: C1599-605. PMID 17182725 DOI: 10.1152/ajpcell.00428.2006  0.01
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