Biology subjects

Sengupta, A.

Publications and source records attributed to Sengupta, A..

58 records · Page 4Linked to original sources

bioRxiv2018

The effect of acquisition resolution on orientation decoding from V1: comparison of 3T and 7T

Previously published results indicate that the accuracy of decoding visual orientation from 7T fMRI data of V1 peaks at spatial acquisition resolutions that are routinely accessible with more conventional 3T scanners. This study directly compares the decoding performance between a 3T and a 7T dataset that were acquired using the same stimulation paradigm by applying an identical analysis procedure. The results indicate that decoding models built on 3T data are comparatively impaired. Moreover, we found no evidence for a strong coupling of BOLD signal change magnitude or temporal signal to noise ratio (tSNR) with decoding performance. Direct enhancement of tSNR via multiband fMRI acquisition at the same resolution did not translate into improved decoding performance. Additional voxel selection can boost 3T decoding performance to the 7T level only at a 3mm acquisition resolution. In both datasets the BOLD signal available for orientation decoding is spatially broadband, but, consistent with the size of the BOLD point-spread-function, decoding models at 3T utilize spatially coarser image components.

neuroscience↗

bioRxiv2018

Characterizing glutamate receptor genes of Rat having vertebrate nervous system and Arabidopsis thaliana a plant having equivalent nervous system based on chemical properties of amino acids and investigating evolutionary relationships between them.

iGluR gene family of a vertebrate, Rat and AtGLR gene family of a plant, Arabidopsis thaliana [4] perform some common functionalities in neuro-transmission, which have been compared quantitatively. Our attempt is based on the chemical properties of amino acids [6, 7, 8] comprising the primary protein sequences of the aforesaid genes. 19 AtGLR genes of length varying from 808 amino acid (aa) to 1039 aa and 16 iGluR genes length varying from 902aa to 1482 aa have been taken as data sets. Thus, we detected the commonalities (conserved elements) during the long evolution of plants and animals from a common ancestor [4]. Eight different conserved regions have been found based on individual amino acids. Two different conserved regions are also found, which are based on chemical groups of amino acids. We have tried too to find different possible patterns which are common throughout the data set taken. 9 such patterns have been found with size varying from 2 to 5 amino acids at different regions in each primary protein sequences. Phylogenetic trees of AtGLR and iGluR families have also been constructed. This approach is likely to shed light on the long course of evolution.

systems biology↗

bioRxiv2017

Basolateral amygdala glutamatergic neurons maintain aversive emotional salience

Basolateral amygdala (BLA) glutamatergic neurons serve a well-accepted role in fear conditioning and fear extinction. However, the specific learning processes related to their activity at different times during learning remain poorly understood. We addressed this using behavioral tasks isolating distinct aspects of fear learning in rats. We show that brief optogenetic inhibition of BLA glutamatergic neurons around moments of aversive reinforcement or non-reinforcement causes reductions in the salience of conditioned stimuli, rendering these stimuli less able to be learned about and less able to control fear or safety behaviours. This salience reduction was stimulus-specific, long-lasting, and specific to aversive emotional states - precisely the goals of therapeutic interventions in human anxiety disorders. Our findings identify a core learning process disrupted by brief BLA optogenetic inhibition. They show that a primary function of BLA glutamatergic neurons is to maintain the salience of conditioned stimuli. This is a necessary precursor for these stimuli to gain and maintain control over fear and safety behavior.\n\nSignificance statementThe amygdala is essential for learning to fear and learning to reduce fear. However, the specific roles served by activity of different amygdala neurons at different times during learning is poorly understood. We used behavioral tasks isolating distinct aspects of learning in rats to show that brief optogenetic inhibition of BLA glutamatergic neurons around moments of reinforcement or non-reinforcement disrupts maintenance of conditioned stimulus (CS) salience. This causes a stimulus-specific, long-lasting, and aversive emotion specific deficit in the ability of the CS to be learned about or control fear responses. These consequences are the precisely goals of therapeutic interventions in human anxiety disorders. Our findings identify a core learning process disrupted by brief BLA optogenetic inhibition.

neuroscience↗

bioRxiv2016

The effect of acquisition resolution on orientation decoding from V1 BOLD fMRI at 7 Tesla

A decade after it was shown that the orientation of visual grating stimuli can be decoded from human visual cortex activity by means of multivariate pattern classification of BOLD fMRI data, numerous studies have investigated which aspects of neuronal activity are reflected in BOLD response patterns and are accessible for decoding. However, it remains inconclusive what the effect of acquisition resolution on BOLD fMRI decoding analyses is. The present study is the first to provide empirical ultra high-field fMRI data recorded at four spatial resolutions (0.8 mm, 1.4 mm, 2 mm, and 3 mm isotropic voxel size) on this topic -- in order to test hypotheses on the strength and spatial scale of orientation discriminating signals. We present detailed analysis, in line with predictions from previous simulation studies, about how the performance of orientation decoding varies with different acquisition resolutions. Moreover, we also examine different spatial filtering procedures and its effects on orientation decoding. Here we show that higher-resolution scans with subsequent down-sampling or low-pass filtering yield no benefit over scans natively recorded in the corresponding lower resolution regarding decoding accuracy. The orientation-related signal in the BOLD fMRI data is spatially broadband in nature, includes both high spatial frequency components, as well as large-scale biases previously proposed in the literature. Moreover, we found above chance-level contribution from large draining veins to orientation decoding. Acquired raw data were publicly released to facilitate further investigation.

neuroscience↗