Indica
Backed by cutting edge technology, an uncompromising focus on ease-of-use and dedicated customer service, Indica Labs’ software and services are being used to make vital discoveries in pathology labs and research organizations around the world.
+1 (505) 492 0979
sales: info@indicalab.com
support: support@indicalab.com

Area Quantification Brightfield

Area Quantification

 

Product Overview

Area Quantification IHC quantifies up to five brightfield stains on a per area rather than per cell or object basis. It is a flexible alternative for analyzing tissues where cell structure cannot be readily identified or where tissue area-based outputs are more reliable or meaningful measure. Area Quantification quantifies and reports stain positive area, average stain optical density for each stain, binned positivity based on optical density (0, 1+, 2+ and 3+), and area of colocalization (when multiple stains are analyzed).

In the first example shown above, an intensity markup is generated such that weak positive pixels (1+) are highlighted in yellow, moderate positive pixels (2+) are highlighted in orange, and strong positive pixels (3+) are in red. In the second example, a co-localization markup is generated such that brown positive pixels are red, pink positive pixels are green, and co-localized pixels are yellow.

Note that the Indica Labs’ Area Quantification module is included with any HALO package at no extra cost.

The Area Quantification FL module integrates seamlessly into the HALO™ platform which is compatible with a number of third party systems and  file formats.

Contact info@indicalab.com for product demonstration and pricing information or upload some images for a free trial.

Area Quantification Brightfield

Area Quantification IHC quantifies up to five brightfield stains on a per area rather than per cell or object basis. It is a flexible alternative for analyzing tissues where cell structure cannot be readily identified or where tissue area-based outputs are more reliable or meaningful measure. Area Quantification quantifies and reports stain positive area, average stain optical density for each stain, binned positivity based on optical density (0, 1+, 2+ and 3+), and area of colocalization (when multiple stains are analyzed).

In the first example shown above, an intensity markup is generated such that weak positive pixels (1+) are highlighted in yellow, moderate positive pixels (2+) are highlighted in orange, and strong positive pixels (3+) are in red. In the second example, a co-localization markup is generated such that brown positive pixels are red, pink positive pixels are green, and co-localized pixels are yellow.

Note that the Indica Labs’ Area Quantification module is included with any HALO package at no extra cost.

HALO is compatible with a broad spectrum of image and digital slide formats.  Yours not on the list? Email us your requirements.

Non-proprietary (JPG, TIF)
Nikon (ND2)
3D Histech (MRXS)
Perkin Elmer (QPTIFF, component TIFF)
Olympus (VSI)
Hamamatsu (NDPI, NDPIS)
Aperio (SVS, AFI)
Zeiss (CZI)
Leica (SCN, LIF)
Philips (Requires Philips IMS)

Here are a few publications that cite use of the Area Quantification Brightfield or FL modules.  Your publication not on the list?  Drop us an email to let us know about it!

TitleAuthorYearJournal
Age-related pathology after adenoviral overexpression of the leucine-rich repeat kinase 2 in the mouse striatumKritzingerab A, Ferger B, Gillardon F, Stierstorfer B, Birk G, Kochanek S, Ciossek T2018Neurobiology of Aging
Evaluation of PD-L1 expression on vortex-isolated circulating tumor cells in metastatic lung cancerDhar M, Wong J, Che J, Matsumoto M, Grogan T, Elashof D, Garon EB, Goldman JW, Christen ES, Carlo DD, Kulkarni RP2018Scientific Reports
Glucagon contibutes to liver zonationCheng X, Kim SK, Okamoto H, Xin Y, Yancopoulos GD, Murphy AJ, Gromada J2018Proceedings of the National Academy of Sciences
Ossabaw Pigs With a PCSK9 Gain‐of‐Function Mutation Develop Accelerated Coronary Atherosclerotic Lesions: A Novel Model for Preclinical StudiesYuan F, Guo L, Park K-H, Woollard JR, Taek‐Geun K, Jiang K, Melkamu T, Zang B, Smith SL, Fahrenkrug SC, Kolodgie FD, Lerman A, Virmani R, Lerman LO, Carlson DF2018Journal of the American Heart Association
The neurotrophic tyrosine kinase
receptor TrkA and its ligand NGF
are increased in squamous cell
carcinomas of the lung
Gao F, Griffin N, Faulkner S, Rowe CW, Williams L, Roselli S, Thorne RF, Ferdoush A, Jobling P, Walker MM, Hondermarck H2018Scientific Reports
The novel ATM inhbitior (AZ31) enhances antitumor activity in patient derived xenografts that are resistant to irinotecan montherapyGreene J, Nguyen A, Bagby SM, Jones GN, Tai WM, Quackenbush KS, Schreiber A, Messersmith WA, Devaraj KM, Blatchford P, Eckhardt SG, Cadogan EB, Hughes GD, Smith A, Pitts TM, Arcaroli JJ2018Oncotarget
Tough Composite Hydrogels with High Loading and Local Release of Biological DrugsLi J, Weber E, Guth‐Gundel S, Schuleit M, Kuttler A, Halleux C, Accart N, Doelemeyer A, Basler A, Tigani B, Wuersch K, Fornaro M, Kneissel M, Stafford A, Freedman BR, Mooney DJ2018Advanced Healthcare Materials
Amyloid-β plaques enhance Alzheimer’s brain tau-seeded pathologies by facilitating neuritic plaque tau aggregationHe Z, Guo JL, McBride JD, Narasimhan S, Kim H, Changolkar L, Zhang B, Gathagan RJ, Yue C, Dengler C, Stieber A, Nitla M, Coulter DA, Abel T, Brunden KR, Trojanowski JQ, Lee V M-Y2017Nature Medicine
Both brown adipose tissue and skeletal muscle thermogenesis processes are activated during mild to severe cold adaptation in miceBal NC, Singh S, Reis FCG, Maurya SK, Pani S, Rowland LA, Periasamy M2017Journal of Biological Chemistry
Efficacy of injectable praziquantel for elimination of trematode metacercariae in bluegills (Lepomis macrochirus) and quantification of parasite death by propidium iodide stainingBader C, Chelladurai JJ, Starling DE, Jones DE, Brewer MT2017Parasitology Research
Expression of protein disulfide isomerase family members correlates with tumor progression and patient survival in ovarian cancerSamanta S, Tamura S, Dubeau L, Mhawech-Fauceglia P, Miyagi Y, Kato H, Lieberman R, Buckanovich RJ, Lin YG, Neamati N2017Oncotarget
Glucagon receptor inhibition normalizes blood glucose in severe insulin-resistant miceOkamotoa H, Cavinoa K, Na E, Krumm E, Kim SY, Cheng X, Murphy AJ, Yancopoulos GD, Gromada J2017Proceedings of the National Academy of Sciences
Neuron loss and degeneration in the progression of TDP-43 in frontotemporal lobar degenerationYousef A, Robinson JL, Irwin DJ, Byrne MD, Kwong LK, Lee EB, Xu Y, Xie SX, Rennert L, Suh ER, Van Deerlin VM, Grossman M, Lee VM-Y, Trojanowski JQ2017Acta Neuropathologica Communications
Neutorphils dominate the immune cell composition in non-small cell lung cancerKargl J, Busch SE, Yang GHY, Kim K-H, Hanke ML, Metz HE, Hubbard JJ, Lee SM, Madtes DK, McIntosh MW, Houghton AM2017Nature Communications
Plant-based vaccines for oral delivery of type 1 diabetes-related autoantigens: Evaluating oral tolerance mechanisms and disease prevention in NOD micePosgai AL, Wasserfall CH, Kwon K-C, Daniell H, Schatz DA, Atkinson MA2017Scientific Reports
Retinoic-acid-orphan-receptor-C inhibition suppresses Th17 cells and induces thymic aberrationsGuntermann C, Piaia A, Hamel M-L, Theil D, Rubic-Schneider T, del Rio-Espinola A, Dong L, Billich A, Kaupmann K, Dawson J, Hoegenauer K, Orain D, Hintermann S, Stringer R, Pate DD, Doelemeyer A, Deurinck M, and Schümann J2017JCI Insight
Selective imaging of internalized proteopathic α-synuclein seeds in primary neurons reveals mechanistic insight into transmission of synucleinopathiesKarpowicz RJ, Haney CM, Mihaila TS, Sandler RM, Petersson EJ, and Lee VM-Y2017Journal of Biological Chemistry
Sex- and Dose-Specific Effects of Maternal Bisphenol A Exposure on Pancreatic Islets of First- and Second-Generation Adult Mice OffspringBansal A, Rashid C, Xin F, Li C, Polyak E, Duemler A, van der Meer T, Stefaniak M, Wajid S, Doliba N, Bartolomei MS, Simmons RA2017Environmental Health Perspectives
CNS-accessible inhibitor of glucosylceramide synthase for substrate reduction therapy of neuronopathic Gaucher diseaseMarshall J, Sun Y, Bangari DS, Budman E, Park H, Nietupski JB, Allaire A, Cromwell MA, Wang B, Grabowski GA, Leonard JP, Cheng SH2016Molecular Therapy
Epigenetic regulation of the thioredoxin-interacting protein (TXNIP) gene by hyperglycemia in kidneyDe Marinis Y, Cai M, Bompada P, Atac D, Kotova O, Johansson ME, Garcia-Vaz E, Gomez MF, Laakso M, Groop L2016Kidney International
Evaluation of the brain-penetrant microtubule-stabilizing agent, dictyostatin, in the PS19 tau transgenic mouse model of tauopathy Makani V, Zhang B, Han H, Yao Y, Lassalas P, Lou K, Paterson I, Lee VMY, Trojanowski JQ, Ballatore C, Smith AB, Brunden KR2016Acta Neuropatholgica Communications
ProNGF is a potential diagnostic biomarker for thyroid cancerFaulkner S, Roselli S, Demont Y, Pundavela J, Choquet G, Leissner P, Oldmeadow C, Attia J, Walker MM, Hondermarck H2016Oncotarget
Solid-state NMR structure of a pathogenic fibril of full-length human [alpha]-synucleinTuttle MD, Comellas G, Nieuwkoop AJ, Covell DJ, Berthold DA, Kloepper KD, Courtney JM, Kim JK, Barclay AM, Kendall A, Wan W, Stubbs G, Schwieters CD, Lee VMY, George JM, Rienstra CM2016Structural & Molecular Biology
Synergistic targeted inhibition of MEK and dual PI3K/mTOR diminishes viability and inhibits tumor growth of canine melanoma underscoring its utility as a preclinical model for human mucosal melanomaGeorge D.Yancopoulos, John Rudge, Israel Lowy, Hsin Chieh Lin, Douglas MacDonald,2016Pigment Cell & Melanoma Research
The Dynamics and Turnover of Tau Aggregates in Cultured Cells: Insights into Therapies for TauopathiesGuo JL, Buist A, Soares A, Callaerts K, Calafate S, Stevenaert F, Daniels JP, Zoll BE, Crowe A, Brunden KR, Moechars D, Lee VMY2016The Journal of Biological Chemistry
Unique pathological tau conformers from Alzheimer’s brains transmit tau pathology in nontransgenic miceGuo JL, Narasimhan S, Changolkar L, He Z, Stieber Z, Zhang B, Gathagan RJ, Iba M, McBride JD, Trojanowski JQ, Lee VMY2016Journal of Experimental Medicine
Glucagon Receptor Blockade With a Human Antibody Normalizes Blood Glucose in Diabetic Mice and MonkeysOkamoto H, Kim J, Aglione JP, Lee J, Cavino K, Na E, Rafique A, Kim JH, Harp J, Valenzuela DM, Yancopoulos GD, Murphy AJ, Gromada J2015Endocrinology
Nerve fibers infiltrate the tumor microenvironment and are associated with nerve growth factor production and lymph node invasion in breast cancerPundavela J, Roselli S, Faulkner S, Attia J, Scott RJ, Thorne RF, Forbes JF, Bradshaw RA, Walker MM, Jobling P, Hondermarck H2015Molecular Oncology
ANGPTL8/betatrophin does not control pancreatic beta cell expansionGusarova V, Alexa CA, Na E, Stevis PE, Xin Y, Bonner-Weir S, Cohen JC, Hobbs HH, Murphy AJ, Yancopoulos GD, Gromada J2014Cell

Use the form below to upload up to three images for us to analyze using HALO.  If the form does not display, please click here.