The BioMedical Engineering and Imaging Institute (BMEII) is responsible for providing support for all in vivo imaging research at The Mount Sinai Medical Center and is responsible for coordinating, supporting and executing imaging research at Mount Sinai including, neuroimaging, cardiovascular imaging, cancer imaging, nanomedicine (molecular imaging and drug delivery), and image processing in the preclinical and clinical settings.

Standard Support (included in scanner fees)

Advanced Support (Additional Fees may apply)

Study Start-up

Project Startup/IRB review content/language & consultation

IRB submissions

Maintenance self-scheduling system

External Service agreements

Consultations re scanner type,study design, acquisition type, tasks, timing, synchronization, peripheral use


Scan Protocol

Scan parameter Implementation/Optimization (HiRes Structural, DTI, EPI …)

Scan parameter and sequence optimization and standardization (e.g., MB-ME, pharmaco-fMRI, any new sequence, other BIG DATA protocols)= resolution & SNR pushed higher

Maintenance of common protocol & HCP

Adaptation of C2P sequences to our scanners

New image acquisition (e.g., MRS, rtfMRI, ASL, ME), cutting-edge analyses methods/tools, troubleshooting

Task Protocol

fMRI Software administration (Eprime, PsychToolBox, PschoPy(thon), Matlab, Cogent)

Training, implementation, development, validation in experimental tasks

Basic task management (Triggering, Physio monitoring control, etc)

Moderate/Heavy task modifications (stimulus development, novel task fdevelopment)

Basic equipment training (hardware and interface, excluding EEG)

Real-Time fMRI set-up & experiment design

Stimulus Equipment

Visual (LCD, 3D goggles) hardware

Olfactory Stimulus Delivery System

Audio (Headphones, ear buds) hardware

Implementation of custom equipment

DeveEye-tracking equipment (not software control support);lopment of custom equipment

Development of custom equipment

Experimental Desgin, Training and processing for Eye-tracking

Physiological Monitoring

Set up (SpO2, Heart rate, Respiration, ECG, GSR, EMG, Skin Temperature) hardware

Physio Data processing & integration with fMRI

Consultation on experimental design

Custom physiological monitoring equipment implementation; Physio Data correlations with experimental variables

Simultaneous EEG/MRI experiment design


Data Handling

Long-term online image web-interface archive & application (e.g., XNAT) server hardware

Anonymize & Transfer to external sites

Burn anonymized data to CD for external sites

Automated anonymization & transfer pipelines

Standalone anonymization & Training

Apply newly developed pipelines

Access data anywhere; data back up; data preprocessing at the click of a button

Data Analysis

Computer Lab with preloaded analysis software (BV, SPM, FSL, Osirix, Custom In House tools, Matlab)

Task Based fMRI Statistics

o Group Differences (FSL, AFNI, SPM)

o Correlations (FSL, task-regressed, PPI, SEM, Granger Causality)

o Event related analysis (In-house*, +amplitude/duration modulation)

o ROI/Paradigm based time course extraction (In-house*)

High-performance computing, execution of all pipelines (interface to Minerva & related systems)

Rest State fMRI Statistics

o Group Differences (ICA-FSL, dual regression, ICR)

o Correlations (ICA-FSL; dual regression w/covariates)

o Atlas based ROI seeded correlations (InHouse; AFNI, Graph Theory)

o Manual ROI Seeded correlations (InHouse; AFNI; SPM Conn)

DTI Analysis & Statistics

o Group Differences (FSL)

o Correlations (FSL)

o Connectivity

o Graph-theory metrics

o Comparison to non-imaging metrics


o Tractography based (Inhouse & standard)

o Atlas based & manual ROI based (Inhouse & Standard)

PET Analysis & Statistics

o Coregistration PET/MRI

o SUV, Relative uptake conversion

o Group Differences (FSL)

o Correlations (FSL)

o Cross modality ROI based measurements (InHouse)

o Atlas based ROI extraction (InHouse)


New coils design and implementation

PET isotopes

Standard tracers: FDG

Special tracers


Grant planning, grantsmanship, mentoring



To Schedule a scan time, click here (only accessible onsite)


Imaging research data archive click here (only accessible onsite)


Latest Publications

Artificial intelligence–enabled rapid diagnosis of patients with COVID-19

Xueyan Mei, Hao-Chih Lee, […] Yang Yang
Nat Med (2020).

Probing myeloid cell dynamics in ischaemic heart disease by nanotracer hot-spot imaging

Max L. Senders, Anu E. Meerwaldt, ... Willem J. M. Mulder
Nat. Nanotechnol. 15, 398–405 (2020).

For recent COVID-19 updates and information, please click here