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TMAJ specifications

Desktop

Information

Unique identifier	OMICS_00823
Name	TMAJ
Alternative name	Tissue MicroArray J
Software type	Package/Module
Interface	Command line interface
Restrictions to use	None
Operating system	Unix/Linux
Programming languages	Java
License	GNU General Public License version 3.0
Computer skills	Advanced
Stability	Stable
Maintained	Yes

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Maintainer

Helen Fedor

TMAJ citations

(4)

PTEN loss detection in prostate cancer: comparison of PTEN immunohistochemistry and PTEN FISH in a large retrospective prostatectomy cohort

2017

Oncotarget

PMCID: 5630353

PMID: 29029453

DOI: 10.18632/oncotarget.19217

[…] After staining for PTEN, all TMAs were scanned at 20x magnification (Aperio, Leica Microsystems, Buffalo Grove, IL) and segmented into TMAJ for scoring (http://tmaj.pathology.jhmi.edu/). PTEN protein status was blindly and independently scored by a trained pathologist (TLL) using a previously validated scoring system (Figure ). A tis […]

Analytic Validation of a Clinical Grade PTEN Immunohistochemistry Assay in Prostate Cancer by Comparison to PTEN FISH

2016

PMCID: 4967011

PMID: 27174589

DOI: 10.1038/modpathol.2016.88

[…] After staining for PTEN, all tissue microarrays were scanned at 20× magnification (Aperio, Leica Microsystems, Buffalo Grove, IL) and segmented into TMAJ for scoring (http://tmaj.pathology.jhmi.edu/). PTEN protein status was blindly and independently scored by two trained pathologists (TLL and CLM) using a previously validated scoring system (see […]

PTEN loss and chromosome 8 alterations in Gleason grade 3 prostate cancer cores predicts the presence of un sampled grade 4 tumor: implications for Active Surveillance

2016

PMCID: 4925272

PMID: 27080984

DOI: 10.1038/modpathol.2016.63

[…] gnaling Technologies). Tissue microarray slides were scanned using the Aperio ScanScope® CS virtual slide scanner (Aperio, Vista, CA) and composite tissue microarray core images were viewed using the TMAJ software package (http://tmaj.pathology.jhmi.edu). Scoring of PTEN expression in tumor cells was performed by 2 pathologists (ADM and BG), blinded with respect to FISH results, pathologic stage, […]

Expression pattern of tumour associated antigens in hepatocellular carcinoma: association with immune infiltration and disease progression

2013

Br J Cancer

PMCID: 3749565

PMID: 23868000

DOI: 10.1038/bjc.2013.390

[…] All TMA cores were screened and evaluated with a computerised image analysis platform constructed using the TMAJ Image application (http://tmaj.pathology.jhmi.edu). The expression of each antigen was scored according to the proportion of expression, as previously described ().We initially investigated eight […]

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TMAJ institution(s)

Department of Biostatistics, School of Public Health, University of California, Los Angeles, CA, USA; Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, CA, USA; Department of Biomathematics, David Geffen School of Medicine, University of California, Los Angeles, CA, USA; Department of Pathology, David Geffen School of Medicine, University of California, Los Angeles, CA, USA

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