Supercomputing facility

Supercomputing facility

The Supercomputing facility attached to the Computational Neuroscience lab at the School of Biotechnology provides state of the art computing, storage, and visualization facilities supporting projects spanning the School’s various projects and as a backbone for large scale neural computation studies at the computational neuroscience laboratory. Supercomputing facilities currently support  applications from  such  diverse fields as  computational neuroscience, virtual laboratories, bioinformatics,  molecular  modeling  and  computer-aided drug design.

The current facility consists of multiple large-scale clusters of blade computing nodes,  sometimes called a  “Beowulf”  system, that has supercomputer performance. A test cluster called “Soma” is used by students and a larger cluster “Atma” is used for research facility. The lab also houses the GPU personal supercomputing facility supported by NVIDIA Titan X, Kepler K20, Tesla C2075, K20 and NVIDIA GTX 480 cards. The laboratory allows students and researchers to have hands-on experience in administration, modeling, parallelizing and simulating on cutting-edge resource-intensive projects. Ongoing projects on the cluster facility include multi-scale modeling of cerebellar microcircuits, reconstruction of field potentials, brain activity, database processing and analysis.

 

CUDA Research and Teaching Center

CUDA Research and Teaching Center

Amrita School of Biotechnology and its Computational Neuroscience laboratory has been working on modelling the cerebellum since 2009 using a C++ based simulation environment. With renewed focus on GPGPU-based computing, we had started introducing CUDA modeling in the last two years. With NVIDIA CUDA in curriculum, this facility focusses on training students and facilitating research on algorithm design, supercomputing (parallelization on Beowulf MPI-based clusters and NVIDIA GPGPUs). We have set up a 7-Teraflop GPGPU supercomputer for researchers and students and have some publication. The Computational Neuroscience lab is a node at the Indian National Node for Neuroinformatics (INNNI) and with GPGPUs, we focus on using GPGPU platforms for large-scale neural network modeling for predicting neurological conditions and understanding circuit function.

 

 

 

 

Experimental setup

Patch Clamp

The center has state of the art patch clamp setup from Scientifica Europe  to study biophysical properties of neurons and microcircuits.

slicescope-pro-3000

SliceScope Pro 3000

The SliceScope Pro 3000 is a fixed microscope imaging system used for Electrophysiological recordings.  

 

 

MultiClamp 700B Amplifier

MultiClamp 700B Amplifier

​The MultiClamp™ 700B Microelectrode Amplifier is a versatile, computer-controlled microelectrode amplifier designed for patch voltage-clamp (resistive-feedback, four ranges) or high-speed current clamp (voltage-follower, three ranges) recording within the same headstage.

 

Vibrating Microtome 7000

Vibrating Microtome 7000 

 

 

 

P97 micropipette puller

P97 micropipette puller

The P-97 micropipette puller is the latest generation of the Flaming/Brown type puller for fabrication of micropipettes, patch pipettes and microinjection needles

 

Electro Encephalography (EEG)

Electro Encephalography (EEG)

Large scale realistic models of neural circuits towards reconstructing event related changes induced in high level population signals like EEG. Understanding these population activities of underlying neurons reveal emergent behaviour as patterns of information flow in neural circuits helps in reconstructing the EEG Signals and can be applied to interface BCI like devices.


 

Neuromorphic Workbench

Neuromorphic Workbench

Amrita Robotic Manipulator (ARM)  was constructed using rigid links which have 5 degrees of freedom (DOF) and a grasper with 6-DOF. Each link constitutes a servo motor with a torque of 17 kg-cm at 6 Volts. A microcontroller was programmed to generate PWM (Pulse Width Modulation) signals with a time period of 20ms and a duty cycle varying from 1ms to 2ms for controlling the motors of the articulator. 

 

 

 

 

 

Biotechnology Remote Triggered Virtual Labs

Biotechnology Remote Triggered Virtual Labs

This project is an initiative of Ministry of Human Resource Department under NationalMission on Education through ICT. These experiments and labs are hostedas open access through the main project website .

 

 

 

 

 


 

IBM x3400 M3

IBM x3400 M3

These servers are used for supporting virtual labs projects.

 

 



Other Devices:

NI Educational Laboratory Virtual Instrumentation Suite II Series (NI ELVIS II)
Tektronix 4000 Series Oscilloscope
NI USB-6221 - Legacy USB DAQ Device
AFG3000 Series Arbitrary Function Generators
Agilent Technologies Trueform Series Waveform Generator
Multiple output linear D.C. power supplies