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Object Colocalization​ Module

Simultaneously analyze up to five chromogenic stains with the HALO® Object Colocalization module. This module is ideally suited for neuroscience applications that require counting and measuring multiple object types, such as amyloid plaques, neurofibrillary tangles, or microglia. Choose to output data on a per-object level for in-depth analysis of object density, area, diameter, and optical density, as well as colocalizations, if applicable. After analysis, use the intuitive Figure Maker tool to easily export original and markup images as publication-ready graphics.

Try it out! Click here to initiate your free proof-of-concept HALO image analysis.

File formats supported by the HALO image analysis platform:

  • Non-proprietary (JPG, TIF, OME.TIFF)
  • Nikon (ND2)
  • 3D Histech (MRXS)
  • Akoya (QPTIFF, component TIFF)
  • Olympus / Evident (VSI)
  • Hamamatsu (NDPI, NDPIS)
  • Aperio (SVS, AFI)
  • Zeiss (CZI)
  • Leica (SCN, LIF)
  • Ventana (BIF)
  • Philips (iSyntax, i2Syntax)
  • DICOM (DCM*)
    *whole-slide images

Publication Spotlight

The table below includes publications that cite the Object Colocalization module. 

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Title Authors Year Journal Application HALO Modules Product
Photoacoustic imaging biomarkers for monitoring biophysical changes during nanobubble-mediated radiation treatment Hysi E, Fadhel MN, Wang Y, Sebastian JA, Giles A, Czarnota GJ, Exner AA, Kolios MC 2020 Photoacoustics Other Classifier, Area Quantification, Object Colocalization HALO
Automated macrophage counting in DLBCL tissue samples: a ROF filter based approach Wagner M, Hansel R, Reinke S, Richter J, Altenbuchinger M, Braumann U-D, Spang R, Loffler Mk Klapper W 2019 Biological Proectures Online Oncology Object Colocalization HALO
Relationship between mismatch repair immunophenotype and long-term survival in patients with resected periampullary adenocarcinoma Heby M, Lundgren S, Nodin B, Elebro J, Eberhard J, JirstrÀÜm K 2018 Journal of Translational Medicine Oncology, Immuno-oncology Object Colocalization HALO
Age-related pathology after adenoviral overexpression of the leucine-rich repeat kinase 2 in the mouse striatum Kritzingerab A, Ferger B, Gillardon F, Stierstorfer B, Birk G, Kochanek S, Ciossek T 2018 Neurobiology of Aging Neuroscience Area Quantification, Object Colocalization, Microglia HALO
Pharmacogenetic neuronal stimulation increases human tau pathology and trans-synaptic spread of tau to distal brain regions in mice Schultz MK, Gentzel R, Usenovic M, Gretzul C, Ware C, Parmentier-Batteur S, Schachter JB, Zariwala HA 2018 Neurobiology of Disease Neuroscience Object Colocalization HALO
Comparison of Biologic Effect and Particulate Embolization after Femoral Artery Treatment with Three Drug-Coated Balloons in Healthy Swine Model Torii S, Jinnouchi H, Sakamoto A, Romero ME, Kolodgie FD, Virmani R, Finn AV 2018 Journal of Vascular and Interventional Radiology Other Object Colocalization HALO
Aging African green monkeys manifest transcriptional, pathological, and cognitive hallmarks of human Alzheimer's disease Cramer PE, Gentzel RC, Tanis KQ, Vardigan J, Wang Y, Connolly B, Manfre P, Lodge K, Renger JJ, Zerbinatti C, Uslaner JM 2017 Neurobiology of Aging Neuroscience Object Colocalization HALO
Chronic Verubecestat Treatment Suppresses Amyloid Accumulation in Advanced Aged Tg2576-A?PPswe Mice Without Inducing Microhemorrhage Villarreal S, Zhao F, Hyde LA, Holder D, Forest T, Sondey M, Chen X, Sur C, Parker EM, Kennedy ME 2017 Journal of Alzheime's Disease Neuroscience Object Colocalization HALO
The integrative clinical impact of tumor-infiltrating T lymphocytes and NK cells in relation to B lymphocyte and plasma cell density in esophageal and gastric adenocarcinoma Svensson MC, Warfvinge CF, Fristedt R, Hedner C, Borg D, Eberhard J, Micke P, Nodin B, Leandersson K, Jirstrom K 2017 Oncotarget Immuno-oncology Object Colocalization HALO
Resistance to Anti-VEGF Therapy Mediated by Autocrine IL6/STAT3 Signaling and Overcome by IL6 Blockade Eichten A, Su J, Adler AP, Zhang L, Ioffe E, Parveen AA, Yancopoulos GD, Rudge J, Lowy I, Lin HC, MacDonald D, Daly C, Duan X, Thurston G 2016 Cancer Research Oncology, Immuno-oncology Cytonuclear, Object Colocalization HALO
Cerebral Protection During MitraClip Implantation: Initial Experience at 2 Centers Frerker C, Schl¸ter M, Sanchez OD, Reith S, Romero ME, Ladich E, Schrˆder J, Schmidt T, Kreidel F, Joner M 2016 JACC: Cardiovascular Interventions Myology Object Colocalization HALO
The Prognostic Impact of NK/NKT Cell Density in Periampullary Adenocarcinoma Differs by Morphological Type and Adjuvant Treatment Lundgren S, Warfvinge CF, Elebro J, Heby M, Nodin B, Krzyzanowska A, Bjartell A, Leandersson K, Eberhard J, Jirstrom K 2016 PLOS ONE Oncology, Immuno-oncology Object Colocalization HALO
Semi-Automated Digital Image Analysis of Pick's Disease and TDP-43 Proteinopathy Irwin DJ, Byrne MD, McMillan CT, Cooper F, Arnold SE, Lee EB, Van Deerlin VM, Xie SX, Lee VM, Grossman M, Trojanowski JQ 2015 Journal of Histochemistry & Cytochemistry Neuroscience Object Colocalization, Layer Thickness HALO
Engineered red blood cells as an off-the-shelf allogeneic anti-tumor therapeutic Zhang X, Lou M, Dastagir SR, Nixon M, Khamhoung A, Schmidt A, Lee A, Subbiah N, McLaughlin DC, Moore CL, Gribble M, Bayhi N, Amin V, Pepi R, Pawar S, Lyford TJ, Soman V, Mellen J, Carpenter CL, Turka LA, Wickham Tj, Chen TF 2021 Nature Communications Oncology Object Colocalization, Highplex FL HALO
Wound healing with topical BRAF inhibitor therapy in a diabetic model suggests tissue regenerative effects Escuin-Ordinas H, Liu Y, Hufo W, Dimatteo R, Huang R, Krystofinski P, Azhdam A, Lee J, Comin-Anduix B, Cochran A, Lo R, Segura T, Scumpia P, Ribas A 2021 PLOS ONE Dermatology Object Colocalization, Multiplex IHC HALO
Acute brain inflammation, white matter oxidative stress, and myelin deficiency in a model of neonatal intraventricular hemorrhage Goulding DS, Vogel RC, Gensel JC, Morganti JM, Stromberg AJ, Miller BA 2020 Journal of Neuroscience Immunology, Neuroscience Area Quantification, Object Colocalization HALO
Promyelocytic leukemia protein promotes the phenotypic switch of smooth muscle cells in atherosclerotic plaques of human coronary arteries Karle W, Becker S, Stenzel P, Knosalla C, Siegel G, Baum O, Zakrzewicz A, Berkholz J 2021 Clinical Science Myology Area Quantification, Object Colocalization HALO
Mitochondria exert age-divergent effects on recovery from spinal cord injury Stewart A, McFarlane K, Vekaria H, Bailey W, Slone S, Tranthem L, Zhang B, Patel S, Sullivan P, Gensel J 2021 Experimental Neurology Neuroscience Object Colocalization HALO
The GBA1 D409V mutation exacerbates synuclein pathology to differing extents in two alpha-synuclein models Polinski N, Martinez T, Ramboz S, Sasner M, Herberth M, Switzer R, Ahmad S, Pelligrino L, Clark S, Marcus J, Smith S, Dave K, Frasier M 2022 Disease Models & Mechanisms Neuroscience Object Colocalization HALO
Intraoperative abobotulinumtoxinA alleviates pain after surgery and improves general wellness in a translational animal model Cornet S, Carre D, Limana L, Castel D, Meilin S, Horn R, Pons L, Evans S, Lezmi S, Kalinichev M 2022 Research Square Other Area Quantification, Object Colocalization HALO
Combined Blockade of GARP:TGF-?1 and PD-1 Increases Infiltration of T Cells and Density of Pericyte-Covered GARP+†Blood Vessels in Mouse MC38 Tumors Bertrand C, Van Meerbeeck P, de Streel G, Vaherto-Bleeckx N, Benhaddi F, Rouaud L, Noel A, Coulie P, van Baren N, Lucas S 2022 Frontiers of Immunology Immuno-oncology Cytonuclear, Object Colocalization HALO
Inflammatory Pathways Are Impaired in Alzheimer Disease and Differentially Associated With Apolipoprotein E Status Kloske C, Dugan A, Weekman E, Winder Z, Patel E, Nelson P, Fardo D, Wilcock D 2021 Journal of Neuropathology & Experimental Neurology Neuroscience Object Colocalization HALO
Aristolochic acid I promoted clonal expansion but did not induce hepatocellular carcinoma in adult rats Liu Y, Lu H, Qi X, Xing G, Wang X, Yu P, Liu L, Yang F, Ding X, Deng Z, Gong L, Ren J 2021 Acta Pharmacologica Sinica Oncology Object Colocalization HALO
High endothelial venules associated with better prognosis in esophageal squamous cell carcinoma Li H, Tang L, Han X, Zhong L, Gao W, Chen Y, Huang J, Wen Z 2022 Annals of Diagnostic Pathology Oncology Object Colocalization, Spatial Analysis, Highplex FL HALO
Somatostatin slows Aβ plaque deposition in aged APPNL-F/NL-F mice by blocking Aβ aggregation Williams D, Yan B, Wang H, Negm L, Sackmann C, Verkuyl C, Rezai-Stevens V, Eid S, Vediya N, Sato C, Watts J, Wille H, Schmitt-Ulms G 2023 Scientific Reports Neuroscience Object Colocalization HALO
The localization of molecularly distinct microglia populations to Alzheimer's disease pathologies using QUIVER Shahidehpour R, Nelson A, Sanders L, Embry C, Nelson P, Bachstetter A 2023 Acta Neuropathologica Communications Neuroscience Area Quantification, Object Colocalization, Spatial Analysis, Registration
Soluble TNF mediates amyloid-independent, diet-induced alterations to immune and neuronal functions in an Alzheimer’s disease mouse model MacPherson K, Eidson L, Houser M, Weiss B, Gollihue J, Herrick M, Rodrigues M, Sniffen L, Weekman E, Hamilton A, Kelly S, Oliver D, Yang Y, Chang J, Sampson T, Norris C, Tansey M 2023 Frontiers in Cellular Neuroscience Neuroscience Object Colocalization HALO
Chronic immune activation and gut barrier dysfunction is associated with neuroinflammation in ART-suppressed SIV+ rhesus macaques Byrnes S, Busman-Sahay K, Angelovich T, Younger S, Taylor-Brill S, Nekorchuk M, Bondoc S, Dannay R, Terry M, Cochrane C, Jenkins T, Roche M, Deleage C, Bosinger S, Paiardini M, Brew B, Estes J, Churchill M 2023 PLOS Pathogens Infectious Disease Area Quantification, Object Colocalization, ISH, Highplex FL HALO
Early chronic suppression of microglial p38α in a model of Alzheimer’s disease does not significantly alter amyloid-associated neuropathology Braun D, Frazier H, Davis V, Coleman M, Rogers C, Van Eldik L 2023 PLOS One Neuroscience Object Colocalization HALO
Modifying antibody-FcRn interactions to increase the transport of antibodies through the blood-brain barrier Tien J, Leonoudakis D, Petrova R, Trinh V, Taura T, Sengupta D, Jo L, Sho A, Yun Y, Doan E, Jamin A, Hallak H, Wilson D, Stratton J 2023 mABS Neuroscience Classifier, Area Quantification, Object Colocalization HALO
Atorvastatin rescues hyperhomocysteinemia-induced cognitive deficits and neuroinflammatory gene changes Weekman E, Johnson S, Rogers C, Sudduth T, Xie K, Qiao Q, Fardo D, Bottiglieri T, Wilcock D 2023 Journal of Neuroinflammation Neuroscience Object Colocalization HALO
Altered expression, but small contribution, of the histone demethylase KDM6A in obstructive uropathy in mice Hong LYQ, Yeung ESH, Tran DT, Yerra VGY, Kaur HK, Kabir MDG, Advani SL, Liu Y, Batchu SN, Advani A 2023 Disease Models & Mechanisms Gastroenterology Area Quantification, Object Colocalization HALO
LINC01638 Sustains Human Mesenchymal Stem Cell Self-Renewal and Competency for Osteogenic Cell Fate Gordon J, Tye C, Banerjee B, Ghule P, Wijnen A, Kabala F, Page N, Falcone M, Stein J, Stein G, Lian J 2023 Research Square Other Object Colocalization, FISH HALO
Distinct Patterns of Hippocampal Pathology in Alzheimer's Disease with Transactive Response DNA-binding Protein 43 Minogue G, Kawles A, Zouridakis A, Keszycki R, Macomber A, Lubbat V, Gill N, Mao Q, Flanagan ME, Zhang H, Castellani R, Bigio EH, Mesulam M-M, Geula C, Gefen T 2023 Annals of Neurology Neuroscience Object Colocalization HALO
Regional and cellular iron deposition patterns predict clinical subtypes of multiple system atrophy Lee S, Martinez-Valbuena I, Lang AE, Kovacs GG 2023 Research Square Neuroscience Area Quantification, Object Colocalization HALO
Empowering Renal Cancer Management with AI and Digital Pathology: Pathology, Diagnostics and Prognosis Ivanova E, Fayzullin A, Grinin V, Ermilov D, Arutyunyan A, Timashev P, Shekhter A 2023 Biomedicines Review Classifier, Area Quantification, Object Colocalization HALO, HALO AI
Association between APOE genotype and microglial cell morphology Kloske C, Gearon M, Weekman E, Rogers C, Patel E, Bachstetter A, Nelson P, Wilcock D 2023 Journal of Neuropathology & Experimental Neurology neuroscience Object Colocalization, Microglia HALO
Disease pathology signatures in a mouse model of Mucopolysaccharidosis type IIIB Petrova R, Patil AR, Trinh V, McElroy KE, Bhakta M, Tien J, Wilson DS, Warren L, Stratton JR 2023 Scientific Reports Neuroscience, Metabolism Classifier, Area Quantification, Object Colocalization HALO
Distinct Involvement of the Cranial and Spinal Nerves in Progressive Supranuclear Palsy Tanaka H, Martinez-Valbuena I, Forrest SL, Couto B, Reyes NG, Morales-Rivero A, Lee S, Li J, Karakani AM, Tang-Wai DF, Tator C, Khadadadi M, Sadia N, Tartaglia MC, Lang AE, Kovacs GG 2023 Brain Neuroscience Object Colocalization HALO
A proteome-wide screen identifies the calcium binding proteins, S100A8/S100A9, as clinically relevant therapeutic targets in aortic dissection Jiang H, Zhao Y, Su M, Sun L, Chen M, Zhang Z, Ilyas I, Wang Z, Little P J, Wang L, Weng J, Ge J, Xu S 2023 Pharmacological Research Other Object Colocalization HALO
ApoER2-Dab1 disruption as the origin of pTau-associated neurodegeneration in sporadic Alzheimer’s disease Ramsden C, Zamora D, Horowitz M, Jahanipour J, Calzada E, Li X, Keyes G, Murray H, Curtis M, Faull R, Sedlock A, Maric D 2023 Acta Neuropathologica Communications Neuroscience Area Quantification, Object Colocalization HALO
Induction of double-strand breaks with the non-steroidal androgen receptor ligand flutamide in patients on androgen suppression: a study protocol for a randomized, double-blind prospective trial Lee E, Coulter J, Mishra A, Caramella-Pereira F, Demarzo A, Rudek M, Hu C, Han M, DeWeese TL, Yegnasubramanian S, Song DY 2023 Trials Oncology Object Colocalization, ISH HALO
A microtubule stabilizer ameliorates protein pathogenesis and neurodegeneration in mouse models of repetitive traumatic brain injury Zhao X, Zeng W, Xu H, Sun Z, Hu Y, Peng B, McBride JD, Duan J, Deng J, Zhang B, Kim SJ, Zoll B, Saito T, Sasaguri H, Saido TC, Ballatore C, Yao H, Wang Z, Trojanowski JQ, Brunden KR, Lee VMY, He Z 2023 Science Translational Medicine neuroscience Area Quantification, Object Colocalization, Multiplex IHC HALO
Amelioration of Tumor-Promoting Microenvironment via Vascular Remodeling and CAF Suppression using E7130: Biomarker Analysis by Multi-modal Imaging Modalities Ito K, Yamaguchi M, Semba T, Tabata K, Tamura M, Aoyama M, Abe T, Asano O, Terada Y, Funashashi Y, Fujii H 2023 Molecular Cancer Therapeutics Oncology Area Quantification, Object Colocalization HALO
Retinoic acid signaling regulates spatiotemporal specification of human green and red cones Hadyniak SE, Hagen JF, Eldred KC, Brenerman B, Hussey KA, McCoy RC, Sauria MEG, Kuchenbecker JA, Reh T, Glass I, Neitz M, Neitz J, Taylor J, Johnston Jr RJ 2024 Plos Biology Other Object Colocalization HALO
Female mice display sex-specific differences in cerebrovascular function and subarachnoid haemorrhage-induced injury Dinh DD, Wan H, Lidington D, Bolz SS 2024 EBioMedicine Neuroscience Object Colocalization, Microglia HALO

Related HALO Modules

Tissue Classifier Add-On

Separate multiple tissue classes across a tissue using a learn-by-example approach. Can be used in conjunction with all other modules (fluorescent and brightfield) to select specific tissue classes for further analysis.

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Spatial Analysis

Plot cells and objects from one or more images and perform nearest neighbor analysis, proximity analysis, and tumor infiltration analysis.

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Area Quantification

Deconvolve up to five colors in brightfield and measure positive area and average optical density for each stain and stain colocalization (where applicable).

Learn More

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