A genetic mosaic mouse model illuminates the pre-malignant progression of basal-like breast cancer.
View ORCID ProfileJianhao Zeng, Shambhavi Singh, Ying Jiang, Eli Casarez, Kristen A. Atkins, Kevin A. Janes, View ORCID ProfileHui Zong.
bioRxiv. 2023; .
PubMed   DOI
Nucleocytoplasmic transport of active HER2 causes fractional escape from the DCIS-like state.
Lixin Wang, B. Bishal Paudel, R. Anthony McKnight, Kevin A. Janes.
Nature Communications. 2023; 14(1):2110.
PubMed   DOI
Opa1 and Drp1 reciprocally regulate cristae morphology, ETC function, and NAD+ regeneration in KRas-mutant lung adenocarcinoma.
Dane T. Sessions, Kee-Beom Kim, Jennifer A. Kashatus, Nikolas Churchill, Kwon-Sik Park, Marty W. Mayo, Hiromi Sesaki, David F. Kashatus.
Cell Reports. 2022; 41(11):111818.
PubMed   DOI
KSTAR: An algorithm to predict patient-specific kinase activities from phosphoproteomic data.
Crowl S, Jordan B, Ma C, Naegle KM.
Nature Communications. 2022; 13:4283.
PubMed   DOI
A reaction-diffusion model predicts the intracellular length scale over which EGFR-initiated GAB1-SHP2 complexes persist.
Myers PJ, Furcht CM, Deen WM, Lazzara MJ.
bioRxiv. 2021; 2021.11.08.467801.
Radon Cumulative Distribution Transform Subspace Modeling for Image Classification.
Shifat-E-Rabbi M, Yin X, Rubaiyat AHM, Li S, Kolouri S, Aldroubi A, Nichols JM, Rohde GK.
Journal of Mathematical Imaging and Vision. 2021; 63(9):1185-203.
Modeling the complete kinetics of coxsackievirus B3 reveals human determinants of host-cell feedback.
Lopacinski AB, Sweatt AJ, Smolko CM, Gray-Gaillard E, Borgman CA, Shah M, Janes KA.
Cell Syst. 2021; 2021;12(4):304-23 e13.
PubMed   DOI
Mechanistic models of microbial community metabolism.
Dillard LR, Payne DD, Papin JA.
Mol Omics. 2021; 2021;17(3):365-75.
PubMed   DOI
Identifying functional metabolic shifts in heart failure with the integration of omics data and a heart-specific, genome-scale model.
Dougherty BV, Rawls KD, Kolling GL, Vinnakota KC, Wallqvist A, Papin JA.
Cell Rep. 2021; 34(10):108836.
Epigenetic modulation reveals differentiation state specificity of oncogene addiction.
Khaliq M, Manikkam M, Martinez ED, Fallahi-Sichani M.
Nat Commun. 2021; 12(1):1536.
PubMed   DOI
Data-Driven Computational Modeling Identifies Determinants of Glioblastoma Response to SHP2 Inhibition.
Day EK, Zhong Q, Purow B, Lazzara MJ.
Cancer Res. 2021; 81(8):2056-70.
PubMed   DOI
Premalignant oligodendrocyte precursor cells stall in a heterogeneous state of replication stress prior to gliomagenesis.
Sutcliffe MD, Galvao RP, Wang L, Kim J, Rosenfeld LK, Singh S, Zong H, Janes KA.
Cancer Res. 2021; 81(7):1868-1882.
PubMed   DOI
KinPred: A unified and sustainable approach for harnessing proteome-level human kinase-substrate predictions.
Xue B, Jordan B, Rizvi S, Naegle KM.
PLoS Comput Biol. 2021; 17(2):e1008681.
PubMed   DOI
Ten simple rules for being a faculty advocate of first-year graduate students.
Janes KA.
PLoS Comput Biol. 2021; 17(9):e1009379.
PubMed   DOI
Mito Hacker: a set of tools to enable high-throughput analysis of mitochondrial network morphology.
Rohani A, Kashatus JA, Sessions DT, Sharmin S, Kashatus DF.
Sci Rep. 2020; 10(1):18941.
PubMed   DOI
A linear optimal transportation framework for quantifying and visualizing variations in sets of images.
Wang W, Slepcev D, Basu S, Ozolek JA, Rohde GK.
Int J Comput Vis. 2020; 101(2):254-69.
PubMed   DOI
Enabling early detection of osteoarthritis from presymptomatic cartilage texture maps via transport- based learning.
Kundu S, Ashinsky BG, Bouhrara M, Dam EB, Demehri S, Shifat-E-Rabbi M, Spencer RG, Urish KL, Rohde GK.
Proceedings of the National Academy of Sciences. 2020; 117(40):24709.
New analysis pipeline for high-throughput domain-peptide affinity experiments improves SH2 interaction data.
Ronan T, Garnett R, Naegle KM.
J Biol Chem. 2020; 295(32):11346-63.
PubMed   DOI
Medusa: Software to build and analyze ensembles of genome- scale metabolic network reconstructions.
Medlock GL, Moutinho TJ, Papin JA.
PLoS Comput Biol. 2020; 16(4):e1007847.
PubMed   DOI
Transcriptome-guided parsimonious flux analysis improves predictions with metabolic networks in complex environments.
Jenior ML, Moutinho TJ, Jr., Dougherty BV, Papin JA.
PLoS Comput Biol. 2020; 16(4):e1007099.
PubMed   DOI
Sporadic activation of an oxidative stress-dependent NRF2-p53 signaling network in breast epithelial spheroids and premalignancies.
Pereira EJ, Burns JS, Lee CY, Marohl T, Calderon D, Wang L, Atkins KA, Wang CC, Janes KA.
Sci Signal. 2020; 13(627):eaba4200.
PubMed   DOI
Glioblastoma Cell Resistance to EGFR and MET Inhibition Can Be Overcome via Blockade of FGFR-SPRY2 Bypass Signaling.
Day EK, Sosale NG, Xiao A, Zhong Q, Purow B, Lazzara MJ.
Cell Rep. 2020; 30(10):3383-96 e7.
PubMed   DOI
Phenotype-based probabilistic analysis of heterogeneous responses to cancer drugs and their combination efficacy.
Comandante-Lou N, Khaliq M, Venkat D, Manikkam M, Fallahi-Sichani.
PLoS Comput Biol. 2020; 16(2):e1007688.
PubMed   DOI
Cell Image Classification: A Comparative Overview.
Shifat ERM, Yin X, Fitzgerald CE, Rohde GK.
Cytometry Part A : the journal of the International Society for Analytical Cytology. 2020; 97(4):347-62.
PubMed   DOI
Guiding the Refinement of Biochemical Knowledgebases with Ensembles of Metabolic Networks and Machine Learning.
Medlock GL, Papin JA.
Cell Syst. 2020; 10(1):109-19 e3.
PubMed   DOI
Robust latent-variable interpretation of in vivo regression models by nested resampling.
Caulk AW, Janes KA.
Sci Rep. 2019; 9(1):19671.
PubMed   DOI
The inner centromere is a biomolecular condensate scaffolded by the chromosomal passenger complex.
Trivedi P, Palomba F, Niedzialkowska E, Digman MA, Gratton E, Stukenberg PT.
Nat Cell Biol. 2019; 21(9):1127-37.
PubMed   DOI
Drp1 Promotes KRas-Driven Metabolic Changes to Drive Pancreatic Tumor Growth.
Nagdas S, Kashatus JA, Nascimento A, Hussain SS, Trainor RE, Pollock SR, Adair SJ, Michaels AD, Sesaki H, Stelow EB, Bauer TW, Kashatus DF.
Cell Rep. 2019; 28(7):1845-59 e5.
PubMed   DOI
Mechanistic identification of biofluid metabolite changes as markers of acetaminophen-induced liver toxicity in rats.
Pannala VR, Vinnakota KC, Rawls KD, Estes SK, O'Brien TP, Printz RL, Papin JA, Reifman J, Shiota M, Young JD, Wallqvist A.
Toxicol Appl Pharmacol. 2019; 372:19-32.
PubMed   DOI
In situ 10-cell RNA sequencing in tissue and tumor biopsy samples.
Singh S, Wang L, Schaff DL, Sutcliffe MD, Koeppel AF, Kim J, Onengut-Gumuscu S, Park KS, Zong H, Janes KA.
Sci Rep. 2019; 9(1):4836.
PubMed   DOI
Genome-Scale Characterization of Toxicity-Induced Metabolic Alterations in Primary Hepatocytes.
Rawls KD, Blais EM, Dougherty BV, Vinnakota KC, Pannala VR, Wallqvist A, Kolling GL, Papin JA.
Toxicol Sci. 2019; 172(2):279-91.
PubMed   DOI
TGIF transcription factors repress acetyl CoA metabolic gene expression and promote intestinal tumor growth.
Shah A, Melhuish TA, Fox TE, Frierson HF, Jr., Wotton D.
Genes Dev. 2019; 33(7-8):388-402.
PubMed   DOI
Localization dynamics of endogenous fluorescently-labeled RAF1 in EGF-stimulated cells.
Surve SV, Myers PJ, Clayton SA, Watkins SC, Lazzara MJ, Sorkin A.
Mol Biol Cell. 2018; mbcE18080512.
PubMed   DOI
Inferring Metabolic Mechanisms of Interaction within a Defined Gut Microbiota.
Medlock GL, Carey MA, McDuffie DG, Mundy MB, Giallourou N, Swann JR, Kolling GL, Papin JA.
Cell Syst. 2018; 7(3):245-57 e7.
PubMed   DOI
Combined c-Met/Trk Inhibition Overcomes Resistance to CDK4/6 Inhibitors in Glioblastoma.
Olmez I, Zhang Y, Manigat L, Benamar M, Brenneman B, Nakano I, Godlewski J, Bronisz A, Lee J, Abbas T, Abounader R, Purow B.
Cancer Res. 2018; 78(15):4360-9.
PubMed   DOI
Identification of Drivers of Aneuploidy in Breast Tumors.
Pfister K, Pipka JL, Chiang C, Liu Y, Clark RA, Keller R, Skoglund P, Guertin MJ, Hall IM, Stukenberg PT.
Cell Rep. 2018; 23(9):2758-69.
PubMed   DOI
Automated brightfield morphometry of 3D organoid populations by OrganoSeg.
Borten MA, Bajikar SS, Sasaki N, Clevers H, Janes KA.
Sci Rep. 2018; 8(1):5319.
PubMed   DOI
OpenEnsembles: A Python Resource for Ensemble Clustering.
Ronan T, Anastasio S, Qi ZJ, Sloutsky R, Naegle KM, Tavares PHSV.
J Mach Learn Res. 2018; 19.
FHL2 interacts with EGFR to promote glioblastoma growth.
Sun L, Yu S, Xu H, Zheng Y, Lin J, Wu M, Wang J, Wang A, Lan Q, Furnari F, Cavenee W, Purow B, Li M.
Oncogene. 2018; 37(10):1386-98.
PubMed   DOI
CD47 Blockade as an Adjuvant Immunotherapy for Resectable Pancreatic Cancer.
Michaels AD, Newhook TE, Adair SJ, Morioka S, Goudreau BJ, Nagdas S, Mullen MG, Persily JB, Bullock TNJ, Slingluff CL, Jr., Ravichandran KS, Parsons JT, Bauer TW.
Clin Cancer Res. 2017; 24(6):1415-25.
PubMed   DOI
The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.
Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, Forlin M, Koleti A, Vidovic D, Chung C, Schurer SC, Vasiliauskas J, Pilarczyk M, Shamsaei.
Cell Syst. 2017; 6(1):13-24.
PubMed   DOI
Tumor-Suppressor Inactivation of GDF11 Occurs by Precursor Sequestration in Triple-Negative Breast Cancer.
Bajikar SS, Wang CC, Borten MA, Pereira EJ, Atkins KA, Janes KA.
Dev Cell. 2017; 43(4):418-35 e13.
PubMed   DOI
Reconciled rat and human metabolic networks for comparative toxicogenomics and biomarker predictions.
Blais EM, Rawls KD, Dougherty BV, Li ZI, Kolling GL, Ye P, Wallqvist A, Papin JA.
Nat Commun. 2017; 8:14250.
Ensemble clustering of phosphoproteomic data identifies differences in protein interactions and cell-cell junction integrity of HER2- overexpressing cells.
Schaberg KE, Shirure VS, Worley EA, George SC, Naegle KM.
Integr Biol (Camb). 2017; 9(6):539-47.
PubMed   DOI
Epithelium-Stroma Classification via Convolutional Neural Networks and Unsupervised Domain Adaptation in Histopathological Images.
Huang Y, Zheng H, Liu C, Ding X, Rohde GK.
IEEE J Biomed Health Inform. 2017; 21(6):1625-32.
PubMed   DOI
Managing uncertainty in metabolic network structure and improving predictions using EnsembleFBA.
Biggs MB, Papin JA.
PLoS Comput Biol. 2017; 13(3):e1005413.
PubMed   DOI
Adaptive resistance of melanoma cells to RAF inhibition via reversible induction of a slowly dividing de-differentiated state.
Fallahi-Sichani M, Becker V, Izar B, Baker GJ, Lin JR, Boswell SA, Shah P, Rotem A, Garraway LA, Sorger PK.
Mol Syst Biol. 2017; 13(1):905.
PubMed   DOI
Detecting and segmenting cell nuclei in two-dimensional microscopy images.
Liu C, Shang F, Ozolek JA, Rohde GK.
J Pathol Inform. 2017; 7:42.
PubMed   DOI
Cyclic Immunofluorescence (CycIF), A Highly Multiplexed Method for Single-cell Imaging.
Lin JR, Fallahi-Sichani M, Chen JY, Sorger PK.
Curr Protoc Chem Biol. 2016; 8(4):251-64.
PubMed   DOI
Systems-level metabolism of the altered Schaedler flora, a complete gut microbiota.
Biggs MB, Medlock GL, Moutinho TJ, Lees HJ, Swann JR, Kolling GL, Papin JA.
ISME J. 2016; 11(2):426-38.
PubMed   DOI
TNF-insulin crosstalk at the transcription factor GATA6 is revealed by a model that links signaling and transcriptomic data tensors.
Chitforoushzadeh Z, Ye Z, Sheng Z, LaRue S, Fry RC, Lauffenburger DA, Janes KA.
Sci Signal. 2016; 9(431):ra59.
PubMed   DOI
Adjuvant Trametinib Delays the Outgrowth of Occult Pancreatic Cancer in a Mouse Model of Patient-Derived Liver Metastasis.
Newhook TE, Lindberg JM, Adair SJ, Kim AJ, Stelow EB, Rahma OE, Parsons JT, Bauer TW.
Ann Surg Oncol. 2016; 23(6):1993-2000.
PubMed   DOI
Different Epidermal Growth Factor Receptor (EGFR) Agonists Produce Unique Signatures for the Recruitment of Downstream Signaling Proteins.
Ronan T, Macdonald-Obermann JL, Huelsmann L, Bessman NJ, Naegle KM, Pike LJ.
J Biol Chem. 2016; 291(11):5528-40.
PubMed   DOI
A Centromere-Signaling Network Underlies the Coordination among Mitotic Events.
Trivedi P, Stukenberg PT.
Trends Biochem Sci. 2015; 41(2):160-74.
PubMed   DOI
The Radon Cumulative Distribution Transform and Its Application to Image Classification.
Kolouri S, Park SR, Rohde GK.
IEEE Trans Image Process. 2015; 25(2):920-34.
PubMed   DOI
Reproducible Analysis of Post-Translational Modifications in Proteomes– Application to Human Mutations.
Holehouse AS, Naegle KM.
PLoS One. 2015; 10(12):e0144692.
PubMed   DOI
Automated Learning of Subcellular Variation among Punctate Protein Patterns and a Generative Model of Their Relation to Microtubules.
Johnson GR, Li J, Shariff A, Rohde GK, Murphy RF.
PLoS Comput Biol. 2015; 11(12):e1004614.
PubMed   DOI
Sprouty2 Drives Drug Resistance and Proliferation in Glioblastoma.
Walsh AM, Kapoor GS, Buonato JM, Mathew LK, Bi Y, Davuluri RV, Martinez-Lage M, Simon MC, O'Rourke DM, Lazzara MJ.
Mol Cancer Res. 2015; 13(8):1227-37.
PubMed   DOI
An analysis of critical factors for quantitative immunoblotting.
Janes KA.
Sci Signal. 2015; 8(371):rs2.
PubMed   DOI
Highly multiplexed imaging of single cells using a high-throughput cyclic immunofluorescence method.
Lin JR, Fallahi-Sichani M, Sorger PK.
Nat Commun. 2015; 6:8390.
PubMed   DOI
EGFR-activated Src family kinases maintain GAB1-SHP2 complexes distal from EGFR.
Furcht CM, Buonato JM, Lazzara MJ.
Sci Signal. 2015; 8(376):ra46.
PubMed   DOI
Mitochondrial control by DRP1 in brain tumor initiating cells.
Xie Q, Wu Q, Horbinski CM, Flavahan WA, Yang K, Zhou W, Dombrowski SM, Huang Z, Fang X, Shi Y, Ferguson AN, Kashatus DF, Bao S, Rich JN.
Nat Neurosci. 2015; 18(4):501-10.
PubMed   DOI
Erk2 phosphorylation of Drp1 promotes mitochondrial fission and MAPK-driven tumor growth.
Kashatus JA, Nascimento A, Myers LJ, Sher A, Byrne FL, Hoehn KL, Counter CM, Kashatus DF.
Mol Cell. 2015; 57(3):537-51.
Systematic analysis of BRAF(V600E) melanomas reveals a role for JNK/c-Jun pathway in adaptive resistance to drug-induced apoptosis.
Fallahi-Sichani M, Moerke NJ, Niepel M, Zhang T, Gray NS, Sorger PK.
Mol Syst Biol. 2015; 11(3):797.
PubMed   DOI
Localizing and extracting filament distributions from microscopy images.
Basu S, Liu C, Rohde GK.
J Microsc. 2015; 258(1):13-23.
PubMed   DOI
ProteomeScout: a repository and analysis resource for post- translational modifications and proteins.
Matlock MK, Holehouse AS, Naegle KM.
Nucleic Acids Res. 2014; 43(Database issue):D521-30.
PubMed   DOI
Identifying Determinants of EGFR-Targeted Therapeutic Biochemical Efficacy Using Computational Modeling.
Monast CS, Lazzara MJ.
CPT Pharmacometrics Syst Pharmacol. 2014; 3:e141.
PubMed   DOI
Diversity in Dimerization Topologies Enables Differential Control of Receptor Tyrosine Kinase Phosphorylation Dynamics.
Monast C, Mehta N, Lazzara MJ.
Cellular and Molecular Bioengineering. 2014; 7:86-98.
Transformation of quiescent adult oligodendrocyte precursor cells into malignant glioma through a multistep reactivation process.
Galvao RP, Kasina A, McNeill RS, Harbin JE, Foreman O, Verhaak RG, Nishiyama A, Miller CR, Zong H.
Proc Natl Acad Sci U S A. 2014; 111(40):E4214-23.
PubMed   DOI
Multivariate signaling regulation by SHP2 differentially controls proliferation and therapeutic response in glioma cells.
Furcht CM, Buonato JM, Skuli N, Mathew LK, Munoz Rojas AR, Simon MC, Lazzara MJ.
J Cell Sci. 2014; 127(Pt 16):3555-67.
PubMed   DOI
A time- and matrix-dependent TGFBR3-JUND- KRT5 regulatory circuit in single breast epithelial cells and basal-like premalignancies.
Wang CC, Bajikar SS, Jamal L, Atkins KA, Janes KA.
Nat Cell Biol. 2014; 16(4):345-56.
PubMed   DOI
Detecting and visualizing cell phenotype differences from microscopy images using transport-based morphometry.
Basu S, Kolouri S, Rohde GK.
Proc Natl Acad Sci U S A. 2014; 111(9):3448-53.
PubMed   DOI
Learning and visualizing statistical relationships between protein distributions from microscopy images.
Kolouri S, Basu S, Rohde GK, editors.
2014 IEEE 11th International Symposium on Biomedical Imaging (ISBI). 2014; 29 April-2 May 2014.
Parameterizing cell-to-cell regulatory heterogeneities via stochastic transcriptional profiles.
Bajikar SS, Fuchs C, Roller A, Theis FJ, Janes KA.
Proc Natl Acad Sci U S A. 2014; 111(5):E626-35.
PubMed   DOI
Differential parsing of EGFR endocytic flux among parallel internalization pathways in lung cancer cells with EGFR-activating mutations.
Walsh AM, Lazzara MJ.
Integr Biol (Camb). 2014; 6(3):312-23.
PubMed   DOI
MetDraw: automated visualization of genome-scale metabolic network reconstructions and high-throughput data.
Jensen PA, Papin JA.
Bioinformatics. 2014; 30(9):1327-8.
PubMed   DOI
Simultaneous profiling of 194 distinct receptor transcripts in human cells.
Kang BH, Jensen KJ, Hatch JA, Janes KA.
Sci Signal. 2013; 6(287):rs13.
PubMed   DOI
Regulation of EGFR trafficking and cell signaling by Sprouty2 and MIG6 in lung cancer cells.
Walsh AM, Lazzara MJ.
J Cell Sci. 2013; 102(9):2012-21.
PubMed   DOI
A flexible and robust approach for segmenting cell nuclei from 2D microscopy images using supervised learning and template matching.
Chen C, Wang W, Ozolek JA, Rohde GK.
Cytometry Part A : the journal of the International Society for Analytical Cytology. 2013; 83(5):495-507.
PubMed   DOI
Stochastic profiling of transcriptional regulatory heterogeneities in tissues, tumors and cultured cells.
Wang L, Janes KA.
Nat Protoc. 2013; 8(2):282-301.
PubMed   DOI
Estimating microtubule distributions from 2D immunofluorescence microscopy images reveals differences among human cultured cell lines.
Li J, Shariff A, Wiking M, Lundberg E, Rohde GK, Murphy RF.
PLoS One. 2012; 7(11):e50292.
PubMed   DOI
Computational analysis of the regulation of EGFR by protein tyrosine phosphatases.
Monast CS, Furcht CM, Lazzara MJ.
Biophys J. 2012; 102(9):2012-21.
PubMed   DOI
Robust co-regulation of tyrosine phosphorylation sites on proteins reveals novel protein interactions.
Naegle KM, White FM, Lauffenburger DA, Yaffe MB.
Mol Biosyst. 2012; 8(10):2771-82.
PubMed   DOI
Joint modeling of cell and nuclear shape variation.
Johnson GR, Buck TE, Sullivan DP, Rohde GK, Murphy RF.
Mol Biol Cell. 2012; 26(22):4046-56.
PubMed   DOI
Toward the virtual cell: automated approaches to building models of subcellular organization “learned” from microscopy images.
Buck TE, Li J, Rohde GK, Murphy RF.
Bioessays. 2012; 34(9):791-9.
PubMed   DOI
Intersection of FOXO- and RUNX1-mediated gene expression programs in single breast epithelial cells during morphogenesis and tumor progression.
Wang L, Brugge JS, Janes KA.
Proc Natl Acad Sci U S A. 2011; 108(40):E803-12.
PubMed   DOI
A general system for automatic biomedical image segmentation using intensity neighborhoods.
Chen C, Ozolek JA, Wang W, Rohde GK.
Int J Biomed Imaging. 2011; 606857.
PubMed   DOI
Mosaic analysis with double markers reveals tumor cell of origin in glioma.
Liu C, Sage JC, Miller MR, Verhaak RG, Hippenmeyer S, Vogel H, Foreman O, Bronson RT, Nishiyama A, Luo L, Zong H.
Cell. 2011; 146(2):209-21.
PubMed   DOI
TIGER: Toolbox for integrating genome-scale metabolic models, expression data, and transcriptional regulatory networks.
Jensen PA, Lutz KA, Papin JA.
BMC Syst Biol. 2011; 5:147.
PubMed   DOI
Functional integration of a metabolic network model and expression data without arbitrary thresholding.
Jensen PA, Papin JA.
Bioinformatics. 2010; 27(4):541-7.
PubMed   DOI
An optimal transportation approach for nuclear structure-based pathology.
Wang W, Ozolek JA, Slepcev D, Lee AB, Chen C, Rohde GK.
IEEE Trans Med Imaging. 2010; 30(3):621-31.
PubMed   DOI
Histone H3 Thr-3 phosphorylation by Haspin positions Aurora B at centromeres in mitosis.
Wang F, Dai J, Daum JR, Niedzialkowska E, Banerjee B, Stukenberg PT, Gorbsky GJ, Higgins JM.
Science. 2010; 330(6001):231-5.
PubMed   DOI
Identifying single-cell molecular programs by stochastic profiling.
Janes KA, Wang CC, Holmberg KJ, Cabral K, Brugge JS.
Nat Methods. 2010; 7(4):311-7.
PubMed   DOI
A generative model of microtubule distributions, and indirect estimation of its parameters from fluorescence microscopy images.
Shariff A, Murphy RF, Rohde GK.
Cytometry Part A : the journal of the International Society for Analytical Cytology. 2010; 77(5):457-66.
PubMed   DOI
Detection and classification of thyroid follicular lesions based on nuclear structure from histopathology images.
Wang W, Ozolek JA, Rohde GK.
Cytometry Part A : the journal of the International Society for Analytical Cytology. 2010; 77(5):485-94.
PubMed   DOI
Interpolation artifacts in sub-pixel image registration. IEEE Trans Image Process.
Rohde GK, Aldroubi A, Healy DM, Jr.
IEEE Trans Image Process. 2009; 18(2):333-45.
PubMed   DOI
microRNA-7 inhibits the epidermal growth factor receptor and the Akt pathway and is down- regulated in glioblastoma.
Kefas B, Godlewski J, Comeau L, Li Y, Abounader R, Hawkinson M, Lee J, Fine H, Chiocca EA, Lawler S, Purow B.
Cancer Res. 2008; 68(10):3566-72.
PubMed   DOI
Combined CDK4/6 and mTOR Inhibition Is Synergistic against Glioblastoma via Multiple Mechanisms.
Olmez I, Brenneman B, Xiao A, Serbulea V, Benamar M, Zhang Y, Manigat L, Abbas T, Lee J, Nakano I, Godlewski J, Bronisz A, Abounader R, Leitinger N, Purow B.
Clin Cancer Res. 2008; 23(22):6958-68.
PubMed   DOI
Centromeric Aurora-B activation requires TD-60, microtubules, and substrate priming phosphorylation.
Rosasco-Nitcher SE, Lan W, Khorasanizadeh S, Stukenberg PT.
Science. 2008; 319(5862):469-72.
PubMed   DOI
Common effector processing mediates cell- specific responses to stimuli.
Miller-Jensen K, Janes KA, Brugge JS, Lauffenburger DA.
Nature. 2007; 448(7153):604-8.
Decreased internalisation of erbB1 mutants in lung cancer is linked with a mechanism conferring sensitivity to gefitinib.
Hendriks BS, Griffiths GJ, Benson R, Kenyon D, Lazzara M, Swinton J, Beck S, Hickinson M, Beusmans JM, Lauffenburger D, de Graaf D.
Syst Biol (Stevenage). 2006; 153(6):457-66.
PubMed   DOI
Data-driven modelling of signal-transduction networks.
Janes KA, Yaffe MB.
Nat Rev Mol Cell Biol. 2006; 7(11):820-8.
Aurora B is enriched at merotelic attachment sites, where it regulates MCAK.
Knowlton AL, Lan W, Stukenberg PT.
Curr Biol. 2006; 16(17):1705-10.
PubMed   DOI
A systems model of signaling identifies a molecular basis set for cytokine-induced apoptosis.
Janes KA, Albeck JG, Gaudet S, Sorger PK, Lauffenburger DA, Yaffe MB.
Science. 2005; 310(5754):1646-53.
Registration Methods for Quantitative Imaging [PhD]..
Rohde GK.
Digital Repository at the University of Maryland: University of Maryland (College Park, Md.). 2005; .
Mechanism of Aurora B activation by INCENP and inhibition by hesperadin.
Sessa F, Mapelli M, Ciferri C, Tarricone C, Areces LB, Schneider TR, Stukenberg PT, Musacchio A.
Mol Cell. 2005; 18(3):379-91.
PubMed   DOI
Correction of motion artifact in cardiac optical mapping using image registration.
Rohde GK, Dawant BM, Lin SF.
IEEE Trans Biomed Eng. 2005; 52(2):338-41.
PubMed   DOI
Multi-channel registration of diffusion tensor images using directional information.
Rohde GK, Pajevic S, Pierpaoli C, editors.
2004 2nd IEEE International Symposium on Biomedical Imaging: Nano to Macro (IEEE Cat No 04EX821). 2004; .
Aurora B phosphorylates centromeric MCAK and regulates its localization and microtubule depolymerization activity.
Lan W, Zhang X, Kline-Smith SL, Rosasco SE, Barrett-Wilt GA, Shabanowitz J, Hunt DF, Walczak CE, Stukenberg PT.
Curr Biol. 2004; 14(4):273-86.
PubMed   DOI
Comprehensive approach for correction of motion and distortion in diffusion-weighted MRI.
Rohde GK, Barnett AS, Basser PJ, Marenco S, Pierpaoli C.
Magn Reson Med. 2004; 51(1):103-14.
PubMed   DOI
The adaptive bases algorithm for intensity-based nonrigid image registration.
Rohde GK, Aldroubi A, Dawant BM.
IEEE Trans Med Imaging. 2003; 22(11):1470-9.
PubMed   DOI
A Comprehensive Approach for Multi-channel Image Registration.
Rohde GK, Pajevic S, Pierpaoli C, Basser PJ, editors.
Biomedical Image Registration; Berlin, Heidelberg: Springer Berlin Heidelberg. 2003; .
Inhibition of aurora B kinase blocks chromosome segregation, overrides the spindle checkpoint, and perturbs microtubule dynamics in mitosis.
Kallio MJ, McCleland ML, Stukenberg PT, Gorbsky GJ.
Curr Biol. 2002; 12(11):900-5.
PubMed   DOI