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Jingjie Li Nov 04, 2017

Hi, I’m Jingjie Li, a senior student from Xi’an Jiaotong University(XJTU), Majoring in BME(BioMedical Engineering).

My research interest is neural mechanism of sensory working memory: how our sensory working memory is represented in our brain, and the ways this representation interacts with other neural activity in our sensory system.

I would like to explore that problems using rodent: designing rodent behavioral hardwares and protocol, running rodent behavior trainning, doing electrophysiology, opto-genetics and math modeling.

I’m currently applying for several Ph.D. Programs in Neuroscience! Also seeking for some chance and information about that.

Neuroscience Education Info

In July, 2016. I attended the 4th CLS/McG neuroscience summer school in Peking University.

From Jun. 2017 to Sep. 2017. I attended the 1th Summer Undergraduate Research Program(SURP) at New York University Shanghai in Dr Jeffrey Erlich’s Lab.

I attended NYU Shanghai SURP again in 2018 summer in Dr. Erlich’s lab again.

You can download my CV here.

Lab Research Experience

2017 07 - 2017 09

Undergraduate Researcher, NYU-ECNU Institute of Brain and Cognitive Science, New York University Shanghai

Advisor: Dr. Jeffrey C. Erlich

Project 1 : Visual working memory based decision making task for the Rodent(Jun. 2017 - Dec. 2017)

I start to working with rodent in this project!

In order to study how Visual Working Memory(VWM) is represented in rodent’s brain. The very first thing we need to do is to train them to do a VWM task, that’s what I did at that period: I designed a 9-stages experiment protocol to train mice to perform a visual working-memory guided orienting task based on the B-Pod rodent behavioral system in the lab.
A report about my work can be found at NYU’s website.

For more detail: Click HERE

Project 2 : Spatio-temporal receptive fields in the rodent frontal orienting field (2018-06 - 2018-09)

I learnt a lot hand-in experience about electrophysiology in this project!

In this project, we firstly trained the rat to do a one-step orienting task. Rats are instructed by LEDs and they need to follow the LED light cue to do a 2-dimensional oriatational movement, from the center of a poke-wall to a cued direction. We simultaneously recorded its spike activity in FOF(Frontal Orienting Field) using open-ephys electrophysiology system. I mainly performed spike based analysis including PSTH plotting, curving curve and directional selectivity plotting. I mainly found that like human and macaque FEF, rat’s FOF neurons tunes for specific trajectories. Resembling like the finding in macaque’s FEF, rat’s FOF has fast low-latency response, about 90ms.

In order to determine the representation of more complex trajectories in rat’s FOF, we carried out a multi-steps orienting task: rats were required to move their nose twice following two separately LED cues together with electrophysiology recording. In this experiment, I found that rat’s FOF can also tune for planning and prediction before the start of the second cue. Also, some FOF neurons tunes for the final goal rather than the intermitted first goal.

In this project, I learnt spike sorting by observing and solving problems with a RA and a graduate student in our lab. I mainly contributed to spike based analysis such like PSTH plotting and tuning curve plotting. I wrote some functions based on Professor Erlich’s preliminary program for his 2011 neuron paper. Dr. Erlich presented part of our summer results on 2018 society for neuroscience meeting.

Project 3 : Rodent Behavior Hardware Development - Power System and Sound Server System 2018-01 - 2018-07 (Part time from 2018-02 to 2018-06)
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In order to provide low latency and high performance sound to replace old MATLAB psychtoolbox based Bpod sound service program, I developed some hardware to improve rodent lab infrastructure.

The new sound system was based on Rpi. I wrote some MATLAB and Python program based on ZMQ Socket which could enable the Bpod system to upload, sync and modify sound files. After the training protocol starts, the sound will be triggered by serial signal coming from Bpod Shield Arduino, which enable a ms-level latency sound trigger. In the Python program, I delicately designed call-back functions and multi-thread program which could control the stop and start of multiple sounds independently and precisely. In order to achieve high performance sound delivery, I also designed PCB to carry a high performance HiFi DAC IC and a Amplifier Chip.

The testing results suggested that our new sound system can provide sound with low to 1.46ms latency in 44100 Hz with high performance.

The code of this work was shared in our Erlich Lab Github: link

Project 4 : History dependance modeling (time-normalization divisive model) of the experiential based delay-reward decision-making tasks for human subjects (Aug. 2017, Under postdoc Dr. Evgeniya Lukinova’s Project)

In this project, I developed few computational models for measuring and detecting history dependence in a experiential based delay-reward decision-making tasks. I Found that bigger the delay the more history matters, however, the parameter responsible for the history is negligibly small. The model fails to beat the simple hyperbolic model in terms of BIC(Bayesian information criterion) on the same dataset.

2016 03 - NOW

Undergraduate Researcher, Institute of Artificial Intelligence and Robotics, Xi’an Jiaotong University

Advisor: Prof. Badong Chen

Project 1 : Visual image reconstruction using fMRI(In March, 2016)

This work is about repeating a pioneering research, decode fMRI signal from primary visual cortex (V1) and reconstruct pattern image from fMRI signal (Miyawaki et al., 2008), meanwhile, I improved the accuracy of the reconstruction by about 4% (from about 80% to about 84%), using the improved MVPA method with SVM classifier (Norman et al., 2006).

For more detail: Click HERE

Project 2 : Modeling fMRI voxels dynamics with natural image stimulus(In May, 2016)

This work is about repeating a pioneering research(Kay et al., 2008), modeling voxels activities in visual cortex using the Voxel-Wise Model (Naselaris et al., 2011), I successfully constructed a liner receptive field model for every voxels using the Gabor wavelet filter according to the encoding theory of the primary visual cortex (Hubel and Wiesel, 1968), without noise ceiling procedures I also got remarkable accuracy in the identification task (about 48.8%, meanwhile the chance level is about 0.8%).

For more detail: Click HERE

Project 3 : How visual working memory effects visual perception(Sep. 2016 - NOW)

In this project, I’m using psychophysical experiments and functional imaging (fMRI) to study how previous visual working memory (VWM) content affect coming-up visual stimulus. I have presented part of my results on the Vision Sciences Society 2017 Annual Meeting. And we’ve get our paper ready to submit.

Here is the abstract of our paper to be submitted:
When viewing ambiguous or puzzle figures, perception will alternate spontaneously, but this alternation will cease if the visual stimulus is periodically removed from view. There may be some working memory trace or history dependence tract during the delay period, but it is poorly understood. Here, we used a serial unambiguous Structure-from-Motion (SFM)-delay-ambiguous SFM paradigm to explore the role of perceptual memory in visual working memory and the serial dependence effect. Additionally, we tried to use distractors to eliminate the internal representation of visual motion in the delay period. We found that 1) memorizing the rotational speed of SFM (i.e., visual working memory) in the delay period enhanced perceptual memory significantly, 2) distractors in the delay period impaired perceptual bias but did not affect working memory performance, and 3) the serial dependence effect size was negatively correlated with perceptual memory performance. Overall, our findings provide evidence to explain how visual working memory affects perceptual memory and, furthermore, the relationship between perceptual memory and the serial dependence effect.

For more detail: Click HERE

2016 11 - 2017 05

Undergraduate Researcher, Department of BioMedical Engineering, Xi’an Jiaotong University
Advisor: Prof. Gang Wang

Project 1 : Anesthesia monitoring using combination of Bispectral, WT, FFT and entropy analyze in EEG signal.

In this project, my main work was to construct different signal processing algorithms, to identify difference between anesthesia and wake state in EEG signals. I tried to use 1) WT and FFT analyze to capture the time-frequency characteristics, 2) Bispectral to detect phase coupling characteristics, and 3) entropy\ complexity analyze to capture the none-linearity characteristics of EEG signal. Then, I performed a ROC analysis to identify the performance of my algorithms. Results showed that my algorithms successfully detected significant difference between anesthesia and wake state. In this project, I gained a lot of useful skills about dealing with digital signals using MATLAB.

Engineering Related Experience

2018 03 - 2018 08

First Prize (Highest), National Biomedical Engineering Competition
Advisor Prof.Jin Li and Prof.Xiang Chen

Project: A ECG/Oximeter Monitor design using TI’s AFE4400 and ADS1293 IC, and MSP430MCU

I made an attempt to make a portable ECG/Oximeter Monitor in this project. I mainly did the PCB design via Autodesk EAGLE, 3D printed accessories design, and some of the embedded system programming for TI’s MSP430 MCU. With the assistance of the smartphone APP and some embedded system programming from my collaborators, we submitted it to the National Biomedical Engineering Competition for College Students and won the first prize. The main skillset I obtained from this project is to build a complex circuit containing multiple ICs and make it work (including hardware debugging), which turned out to be very helpful when I worked on Bpod hardware in Dr. Erlich’s lab.

We’ve open sourced all our design files, code, APP design and some debuging tools. The Github link is here.

Skills

  • Rodent Experiment: Handling rodents; Developing and running rodent experiment protocol using B-Pod System
  • Programming: Python, MATLAB (Proficient); R (ggplot2); C; C++; Verilog HDL (FPGA); x86 Assembly; Git; SQL DB
  • Hardware: PCB & Circuit Design; MCU programming (MSP430, STM32, Arduino); Problem solving using IC.
  • Electrophysiology (in vivo): Spike sorting; LFP analysis; PSTH analysis; Tuning analysis.
  • Psychophysics: Psychtoolbox programming (MATLAB) & basic experiment design skills
  • fMRI Data Analysis: SPM12 preprocessing and univariate analysis; MVPA; Forward encoding model; Voxels activities modeling (Voxel-Wise Model)
  • EEG Data Analysis: Running EEG experiments, ERP data analysis, Higher order nonlinear feature extracting.

Publications

2017

  • Jingjie Li, Hao Wu, Badong Chen. Visual working memory affects the perception of ambiguous SFM (structure-from-motion) by enhancing internal representation, Poster presented at the 17th Annual Meeting of the Vision Sciences Society. Naples, FL.
  • Jingjie Li, Jinming Li, Badong Chen. “The Influence and Disassociation Effect Between Visual Working Memory and Serial Dependence effect to Perceptual Memory in a Bistable Perception Task”. (submitted to Vision Research)

Courses (Only listed online courses)

As cognitive neuroscience a interdisciplinary subject, we need some other skills and knowledge in order to carry out research in this field such like math and programming etc.

In order to strengthen my programming skills and gain some knowledge about other interdisciplinary subjects(Data Science, Meachine Learning). I took several online courses(MOOCs), mainly in Coursea.org.

For detiles CLICK HERE

Books I’ve read

  • Kandel, E., & Schwartz, J. (2013). Principles of Neural Science, Fifth Edition: McGraw-Hill Education.
  • Dayan, P., & Abbott, L. F. (2001). Theoretical neuroscience (Vol. 10): Cambridge, MA: MIT Press.
  • Marr, D. (1982). Vision: A computational approach: Freeman.

Honors

2016

  • Siyuan Scholarship in Xi’an Jiaotong University
  • Outstanding Student in Xi’an Jiaotong University

2017

  • Siyuan Scholarship in Xi’an Jiaotong University
  • Outstanding Student in Xi’an Jiaotong University

Contact Me

My Email:

My Wechat id: lijingjiepoi