Shuang Song | Biostatistics and Statistical Genetics | Harvard | Tsinghua

Participation bias in the estimation of heritability and genetic correlation

Wed, 31 Dec 2025 00:00:00 +0000

Partitioning and aggregating cross-tissue and tissue-specific genetic effects to identify gene-trait associations

Tue, 09 Jul 2024 00:00:00 +0000

Leveraging LD eigenvalue regression to improve the estimation of SNP heritability and confounding inflation

Fri, 30 Dec 2022 00:00:00 +0000

A data-adaptive Bayesian regression approach for polygenic risk prediction

Thu, 29 Dec 2022 00:00:00 +0000

Openness weighted association studies: leveraging personal genome information to prioritize non-coding variants

Fri, 31 Dec 2021 00:00:00 +0000

Leveraging effect size distributions to improve polygenic risk scores derived from summary statistics of genome-wide association studies

Thu, 31 Dec 2020 00:00:00 +0000

Multi-Cell-Type Openness-Weighted Association Studies for Trait-Associated Genomic Segments Prioritization

Sat, 31 Dec 2022 00:00:00 +0000

CITE

Click the Cite button above to export this publication in BibTeX format.

A set of efficient methods to generate high-dimensional binary data with specified correlation structures

Thu, 30 Dec 2021 00:00:00 +0000

Law of the Iterated Logarithm and Model Selection Consistency for Independent and Dependent GLMs

Wed, 29 Dec 2021 00:00:00 +0000

The predictive value of the orientation and offset of angle α and angle κ for visual outcomes after trifocal intraocular lens implantation in an Asian cohort

Tue, 30 Dec 2025 00:00:00 +0000

The Effects of Disease‐Modifying Therapies on Optic Nerve Degeneration in Multiple Sclerosis

Mon, 29 Dec 2025 00:00:00 +0000

A robust penalized-regression-based method for multivariable Mendelian randomization using GWAS summary statistics

Sun, 31 Dec 2023 00:00:00 +0000

Cofea: correlation-based feature selection for single-cell chromatin accessibility data

Mon, 30 Dec 2024 00:00:00 +0000

Cell type annotation of single-cell chromatin accessibility data via supervised Bayesian embedding

Wed, 28 Dec 2022 00:00:00 +0000

A novel transcriptional risk score for risk prediction of complex human diseases

Tue, 28 Dec 2021 00:00:00 +0000

An unbiased kinship estimation method for genetic data analysis

Tue, 27 Dec 2022 00:00:00 +0000

Correcting statistical bias in correlation-based kinship estimators

Mon, 27 Dec 2021 00:00:00 +0000

Blood Glucose Levels Moderate the Associations Between IGF-1 Levels and Choroidal Metrics in Patients With Diabetes With Acromegaly Without Diabetic Retinopathy

Sun, 29 Dec 2024 00:00:00 +0000

Reduction of Human Mobility Matters during Early COVID-19 Outbreaks: Evidence from India, Japan and China

Sun, 26 Dec 2021 00:00:00 +0000

ECR session

Thu, 12 Mar 2026 10:00:00 +0000

🎉 Our paper "Scalable and accurate rare-variant association tests for whole genome sequencing time-to-event analysis in large biobanks" is published on PNAS!

Fri, 27 Feb 2026 00:00:00 +0000

Read the full paper

Scalable and accurate rare-variant association tests for whole genome sequencing time-to-event analysis in large biobanks

Fri, 27 Feb 2026 00:00:00 +0000

Significance

Rare variants (RV) identified through whole genome sequencing hold great promise for elucidating the genetic basis of disease onset, but existing methods for RV association testing are not well suited for time-to-event phenotypes. Here, we develop GATE-STAAR, a scalable and accurate framework integrating frailty modeling with functional annotations. We propose a rare-variant saddlepoint approximation to handle heavy censoring. Through comprehensive simulations and large-scale analysis of approximately 400 K UK Biobank participants, with replication in approximately 230 K All of Us participants, GATE-STAAR uncovers biologically meaningful RV associations while ensuring rigorous control of type I error. This framework is powerful to dissect the genetic architecture of disease onset and progression and advance precision medicine.

Scalable and accurate rare variant association tests for whole genome sequencing time-to-event analysis in large biobanks

Thu, 15 Jan 2026 00:00:00 +0000

Contributed session

Thu, 07 Aug 2025 13:00:00 +0000

🎉 Our paper "Participation bias in the estimation of heritability and genetic correlation" is published on PNAS!

Tue, 24 Jun 2025 00:00:00 +0000

Read the full paper

Participation bias in the estimation of heritability and genetic correlation

Tue, 24 Jun 2025 00:00:00 +0000

Invited session

Mon, 07 Apr 2025 13:00:00 +0000

Projects

Sun, 19 May 2024 00:00:00 +0000

Pandas

Thu, 26 Oct 2023 00:00:00 +0000

Flexible and powerful data analysis / manipulation library for Python, providing labeled data structures.

PyTorch

Thu, 26 Oct 2023 00:00:00 +0000

PyTorch is a Python package that provides tensor computation (like NumPy) with strong GPU acceleration.

Experience

Tue, 24 Oct 2023 00:00:00 +0000

Learn JavaScript

Tue, 24 Oct 2023 00:00:00 +0000

Hugo Blox Builder is designed to give technical content creators a seamless experience. You can focus on the content and the Hugo Blox Builder which this template is built upon handles the rest.

Embed videos, podcasts, code, LaTeX math, and even test students!

On this page, you’ll find some examples of the types of technical content that can be rendered with Hugo Blox.

Video

Teach your course by sharing videos with your students. Choose from one of the following approaches:

Youtube:

{{< youtube w7Ft2ymGmfc >}}

Bilibili:

{{< bilibili id="BV1WV4y1r7DF" >}}

Video file

Videos may be added to a page by either placing them in your assets/media/ media library or in your page’s folder, and then embedding them with the video shortcode:

{{< video src="my_video.mp4" controls="yes" >}}

Podcast

You can add a podcast or music to a page by placing the MP3 file in the page’s folder or the media library folder and then embedding the audio on your page with the audio shortcode:

{{< audio src="ambient-piano.mp3" >}}

Try it out:

Test students

Provide a simple yet fun self-assessment by revealing the solutions to challenges with the spoiler shortcode:

{{< spoiler text="👉 Click to view the solution" >}}
You found me!
{{< /spoiler >}}

renders as

👉 Click to view the solution

You found me 🎉

Math

Hugo Blox Builder supports a Markdown extension for $\LaTeX$ math. You can enable this feature by toggling the math option in your config/_default/params.yaml file.

To render inline or block math, wrap your LaTeX math with {{< math >}}$...${{< /math >}} or {{< math >}}$$...$${{< /math >}}, respectively.

We wrap the LaTeX math in the Hugo Blox math shortcode to prevent Hugo rendering our math as Markdown.

Example math block:

{{< math >}}
$$
\gamma_{n} = \frac{ \left | \left (\mathbf x_{n} - \mathbf x_{n-1} \right )^T \left [\nabla F (\mathbf x_{n}) - \nabla F (\mathbf x_{n-1}) \right ] \right |}{\left \|\nabla F(\mathbf{x}_{n}) - \nabla F(\mathbf{x}_{n-1}) \right \|^2}
$$
{{< /math >}}

renders as

$$\gamma_{n} = \frac{ \left | \left (\mathbf x_{n} - \mathbf x_{n-1} \right )^T \left [\nabla F (\mathbf x_{n}) - \nabla F (\mathbf x_{n-1}) \right ] \right |}{\left \|\nabla F(\mathbf{x}_{n}) - \nabla F(\mathbf{x}_{n-1}) \right \|^2}$$

Example inline math {{< math >}}$\nabla F(\mathbf{x}_{n})${{< /math >}} renders as $\nabla F(\mathbf{x}_{n})$ .

Example multi-line math using the math linebreak (\\):

{{< math >}}
$$f(k;p_{0}^{*}) = \begin{cases}p_{0}^{*} & \text{if }k=1, \\
1-p_{0}^{*} & \text{if }k=0.\end{cases}$$
{{< /math >}}

renders as

$$ f(k;p_{0}^{*}) = \begin{cases}p_{0}^{*} & \text{if }k=1, \\ 1-p_{0}^{*} & \text{if }k=0.\end{cases} $$

Code

Hugo Blox Builder utilises Hugo’s Markdown extension for highlighting code syntax. The code theme can be selected in the config/_default/params.yaml file.

```python
import pandas as pd
data = pd.read_csv("data.csv")
data.head()
```

renders as

import pandas as pd
data = pd.read_csv("data.csv")
data.head()

Inline Images

{{< icon name="python" >}} Python

renders as

Python

Learn Python

Tue, 24 Oct 2023 00:00:00 +0000

Hugo Blox Builder is designed to give technical content creators a seamless experience. You can focus on the content and the Hugo Blox Builder which this template is built upon handles the rest.

Embed videos, podcasts, code, LaTeX math, and even test students!

On this page, you’ll find some examples of the types of technical content that can be rendered with Hugo Blox.

Video

Teach your course by sharing videos with your students. Choose from one of the following approaches:

Youtube:

{{< youtube w7Ft2ymGmfc >}}

Bilibili:

{{< bilibili id="BV1WV4y1r7DF" >}}

Video file

Videos may be added to a page by either placing them in your assets/media/ media library or in your page’s folder, and then embedding them with the video shortcode:

{{< video src="my_video.mp4" controls="yes" >}}

Podcast

You can add a podcast or music to a page by placing the MP3 file in the page’s folder or the media library folder and then embedding the audio on your page with the audio shortcode:

{{< audio src="ambient-piano.mp3" >}}

Try it out:

Test students

Provide a simple yet fun self-assessment by revealing the solutions to challenges with the spoiler shortcode:

{{< spoiler text="👉 Click to view the solution" >}}
You found me!
{{< /spoiler >}}

renders as

👉 Click to view the solution

You found me 🎉

Math

Hugo Blox Builder supports a Markdown extension for $\LaTeX$ math. You can enable this feature by toggling the math option in your config/_default/params.yaml file.

To render inline or block math, wrap your LaTeX math with {{< math >}}$...${{< /math >}} or {{< math >}}$$...$${{< /math >}}, respectively.

We wrap the LaTeX math in the Hugo Blox math shortcode to prevent Hugo rendering our math as Markdown.

Example math block:

{{< math >}}
$$
\gamma_{n} = \frac{ \left | \left (\mathbf x_{n} - \mathbf x_{n-1} \right )^T \left [\nabla F (\mathbf x_{n}) - \nabla F (\mathbf x_{n-1}) \right ] \right |}{\left \|\nabla F(\mathbf{x}_{n}) - \nabla F(\mathbf{x}_{n-1}) \right \|^2}
$$
{{< /math >}}

renders as

Example inline math {{< math >}}$\nabla F(\mathbf{x}_{n})${{< /math >}} renders as $\nabla F(\mathbf{x}_{n})$ .

Example multi-line math using the math linebreak (\\):

{{< math >}}
$$f(k;p_{0}^{*}) = \begin{cases}p_{0}^{*} & \text{if }k=1, \\
1-p_{0}^{*} & \text{if }k=0.\end{cases}$$
{{< /math >}}

renders as

$$ f(k;p_{0}^{*}) = \begin{cases}p_{0}^{*} & \text{if }k=1, \\ 1-p_{0}^{*} & \text{if }k=0.\end{cases} $$

Code

Hugo Blox Builder utilises Hugo’s Markdown extension for highlighting code syntax. The code theme can be selected in the config/_default/params.yaml file.

```python
import pandas as pd
data = pd.read_csv("data.csv")
data.head()
```

renders as

import pandas as pd
data = pd.read_csv("data.csv")
data.head()

Inline Images

{{< icon name="python" >}} Python

renders as

Python

Shuang Song | Biostatistics and Statistical Genetics | Harvard | Tsinghua

Participation bias in the estimation of heritability and genetic correlation

Partitioning and aggregating cross-tissue and tissue-specific genetic effects to identify gene-trait associations

Leveraging LD eigenvalue regression to improve the estimation of SNP heritability and confounding inflation

A data-adaptive Bayesian regression approach for polygenic risk prediction

Openness weighted association studies: leveraging personal genome information to prioritize non-coding variants

Leveraging effect size distributions to improve polygenic risk scores derived from summary statistics of genome-wide association studies

Multi-Cell-Type Openness-Weighted Association Studies for Trait-Associated Genomic Segments Prioritization

CITE

A set of efficient methods to generate high-dimensional binary data with specified correlation structures

Law of the Iterated Logarithm and Model Selection Consistency for Independent and Dependent GLMs

The predictive value of the orientation and offset of angle α and angle κ for visual outcomes after trifocal intraocular lens implantation in an Asian cohort

The Effects of Disease‐Modifying Therapies on Optic Nerve Degeneration in Multiple Sclerosis

A robust penalized-regression-based method for multivariable Mendelian randomization using GWAS summary statistics

Cofea: correlation-based feature selection for single-cell chromatin accessibility data

Cell type annotation of single-cell chromatin accessibility data via supervised Bayesian embedding

A novel transcriptional risk score for risk prediction of complex human diseases

An unbiased kinship estimation method for genetic data analysis

Correcting statistical bias in correlation-based kinship estimators

Blood Glucose Levels Moderate the Associations Between IGF-1 Levels and Choroidal Metrics in Patients With Diabetes With Acromegaly Without Diabetic Retinopathy

Reduction of Human Mobility Matters during Early COVID-19 Outbreaks: Evidence from India, Japan and China

ECR session

🎉 Our paper "Scalable and accurate rare-variant association tests for whole genome sequencing time-to-event analysis in large biobanks" is published on PNAS!

Scalable and accurate rare-variant association tests for whole genome sequencing time-to-event analysis in large biobanks

Significance

Scalable and accurate rare variant association tests for whole genome sequencing time-to-event analysis in large biobanks

Contributed session

🎉 Our paper "Participation bias in the estimation of heritability and genetic correlation" is published on PNAS!

Participation bias in the estimation of heritability and genetic correlation

Invited session

Projects

Pandas

PyTorch

Experience

Learn JavaScript

Video

Podcast

Test students

Math

Code

Inline Images

Did you find this page helpful? Consider sharing it 🙌

Learn Python

Video

Podcast

Test students

Math

Code

Inline Images

Did you find this page helpful? Consider sharing it 🙌