Object Colocalization FL Module

Simultaneously analyze an unlimited number of fluorescent stains with the HALO® Object Colocalization FL module. This module excels in neuroscience applications that require counting and measuring multiple object types, such as amyloid plaques, neurofibrillary tangles, or microglia. With the option to output data on a per-object level, in-depth analysis of object density, area, diameter, and intensity, as well as colocalizations, if applicable, are just a click away. 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)
KFBIO (KFB, KFBF)
DICOM (DCM*)
*whole-slide images

Announcing the Object Colocalization 2.1 modules for BF and FL

In this blog post, you can learn about some of the new features in these modules, where to find the user guides, tutorial videos, and

Masterclass Webinar: Neurobiology Image Analysis with HALO and HALO AI

29 September 2022 | Join us for this 1-hour webinar for a live demonstration of neurobiology image analysis using HALO^® and HALO AI. Dr. Levi

Optimizing quantitative analysis of highly multiplexed CODEX images in HALO

31 March 2022 | In this webinar, Dr. Noemi Kedei, a staff scientist at the Collaborative Protein Technology Resource core of the Center for Cancer

Webinar | HALO® Image Analysis Masterclass Series: Object-based Analysis

28 January 2021 | 8:00 AM – 9:00 AM PST | 11:00 AM – 12:00 PM EST | 4:00 PM – 5:00 PM GMT |

HALO® Analysis Applications in Neuroscience Research

15 August 2018 | In this one hour webinar, Indica Labs’ Application Scientist, Alyssa Myers, will discuss how the HALO platform can be used for

Publication Spotlight

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

Your publication not on the list? Drop us an email to let us know about it!

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, SchrÀÜder 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+‚Ä†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 AŒ≤ plaque deposition in aged APPNL-F/NL-F mice by blocking AŒ≤ 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‚Äôs 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

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