Supplementary file 1_ParaDeep: sequence-based deep learning for residue-level paratope prediction using chain-aware BiLSTM-CNN models.docx حسب Piyachat Udomwong (22563212)

"…Its efficiency and scalability make it well-suited for early-stage antibody discovery, repertoire profiling, and therapeutic design, particularly in the absence of structural data. The implementation is freely available at https://github.com/PiyachatU/ParaDeep, with Python (PyTorch) code and a Google Colab interface for ease of use.…"

Data Sheet 1_Novel deep learning-based prediction of HER2 expression in breast cancer using multimodal MRI, nomogram, and decision curve analysis.docx حسب Shi Qiu (425335)

"…Statistical analyses were conducted using Python and R, with significance set at p < 0.05.</p>Results<p>In this study, we developed an integrated predictive model for HER2 status in breast cancer by combining deep learning-based MRI features and clinical data. …"

Single Cell DNA methylation data for Human Brain altas MajorType allc files (CG+CH) حسب Wubin Ding (11823941)

Single Cell DNA methylation data for Human Brain altas (MajorType+Region CG allc files) حسب Wubin Ding (11823941)

Linking Thermal Conductivity to Equations of State Using the Residual Entropy Scaling Theory حسب Zhuo Li (165589)

"…To use our model easily, a software package written in Python is provided in the Supporting Information.…"

SpatialKNifeY analysis landscape. حسب Shunsuke A. Sakai (13789939)

"…<p>(A) The concept of the extension from spatial omics data and spatial domain to the microenvironment. (B) Implementation of SpatialKNifeY (SKNY). A Python library of SKNY depends on stlearn [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1012854#pcbi.1012854.ref023" target="_blank">23</a>] and scanpy [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1012854#pcbi.1012854.ref009" target="_blank">9</a>] functions (see “Methods”) and AnnData object programming [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1012854#pcbi.1012854.ref010" target="_blank">10</a>]. …"

Data and software for "Social networks affect redistribution decisions and polarization" حسب Milena Tsvetkova (11217969)

"…<p dir="ltr">Data from agent based models and experiments with human participants recruited from Prolific, together with code for the models and analysis. …"

Landscape Change Monitoring System (LCMS) Conterminous United States Cause of Change (Image Service) حسب U.S. Forest Service (17476914)

"…Scikit-learn: Machine Learning in Python. In Journal of Machine Learning Research (Vol. 12, pp. 2825-2830).Pengra, B. …"

PYSEQM 2.0: Accelerated Semiempirical Excited-State Calculations on Graphical Processing Units حسب Vishikh Athavale (12623809)

"…PYSEQM is a Python-based package designed for efficient and scalable quantum chemical simulations. …"

Explained variance ration of the PCA algorithm. حسب Abeer Aljohani (18497914)

"…All our simulation is performed in computation softwares, Matlab and Python. The image pre processing and spectral moments generation is performed in Matlab and the implementation of the classifiers is performed with python. …"

Copy number contingency table. حسب Yang Wu (66682)

"…In summary, the PASO model suggests potential as a robust support in individualized cancer treatment. Our methods are implemented in Python and are freely available from GitHub (<a href="https://github.com/queryang/PASO" target="_blank">https://github.com/queryang/PASO</a>).…"

Gene mutation contingency table. حسب Yang Wu (66682)

"…In summary, the PASO model suggests potential as a robust support in individualized cancer treatment. Our methods are implemented in Python and are freely available from GitHub (<a href="https://github.com/queryang/PASO" target="_blank">https://github.com/queryang/PASO</a>).…"

Resistant & sensitive cell line Info on AZD5991. حسب Yang Wu (66682)

"…In summary, the PASO model suggests potential as a robust support in individualized cancer treatment. Our methods are implemented in Python and are freely available from GitHub (<a href="https://github.com/queryang/PASO" target="_blank">https://github.com/queryang/PASO</a>).…"

Resistant & sensitive drug info on COLO800. حسب Yang Wu (66682)

"…In summary, the PASO model suggests potential as a robust support in individualized cancer treatment. Our methods are implemented in Python and are freely available from GitHub (<a href="https://github.com/queryang/PASO" target="_blank">https://github.com/queryang/PASO</a>).…"

Missing Value Imputation in Relational Data Using Variational Inference حسب Simon Fontaine (7046618)

"…Additional results, implementation details, a Python implementation, and the code reproducing the results are available online. …"

Ambient Air Pollutant Dynamics (2010–2025) and the Exceptional Winter 2016–17 Pollution Episode: Implications for a Uranium/Arsenic Exposure Event حسب Thomas Clemens Carmine (19756929)

"…<br><br><b>Missing-Data Handling & Imputation:</b></p><p dir="ltr">The following sequential steps were applied to create a complete and consistent daily time series suitable for analysis (presented in the Imputed_AP_Data_Zurich_2010-25 sheet), particularly addressing the absence of routine PM₂.₅ measurements prior to January 2016. The full implementation is detailed in the accompanying Python script (Imputation_Air_Pollutants_NABEL.py). …"

<b>DeepB3Pred</b> حسب Saleh Musleh (22263718)

"…MCTD is the implementation of composition-transition and distribution, and GSFE is the implementation of graphical and statistical-based feature engineering.…"

DeepB3Pred - code حسب Saleh Musleh (22263718)

"…MCTD is the implementation of composition-transition and distribution, and GSFE is the implementation of graphical and statistical-based feature engineering.…"

DeepB3Pred_source_code حسب Muhammad Arif (17012472)

"…Testing dataset TS_BB includes BBB_pos and BBB_neg testing samples</p><p dir="ltr">**Feature_Extraction: CPSR is the implementation of component protein sequence representation. mctd is the implementation of composition-transition and distribution, GSFE is the implementation of Graphical and statistical-based feature engineering.…"

SEPARATE Code Repository حسب Gyuri Kim (21424973)

"…<p dir="ltr">Python implementation of the SEPARATE, which enables three-dimensional multiplexed fluorescence imaging by pairing proteins based on their spatial expression patterns and computationally unmixing signals using deep learning.…"