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3t3-l1

Code for the Oncotarget paper (Systematic characterization of autophagy-related genes during the adipocyte differentiation using public-access data.)

aacna

Code for the IJMS paper (Co-Expression Network Analysis of AMPK and Autophagy Gene Products during Adipocyte Differentiation)

adipo_deconv

Code for the preprint "A small fraction of progenitors differentiate into mature adipocytes due to constraints on the cell structure change"

antimetastatic

Source code for the article "A functional network model of the metastasis suppressor RKIP and its regulators in breast cancer cells"

aos

Code for the (unpublished) paper ( Regulation of autophagy in response to oxidative stress)

auto_adipo_diff

Code for the Cells paper (Transcriptional Regulation of Autophagy Genes via Stage-Specific Activation of CEBPB and PPARG during Adipogenesis)

autoreg

A research compendium: Transcriptional regulation of autophagy during adipocyte differentiation

colocrart

Code for the PeerJ paper (colocr: an R package for conducting co-localization analysis on fluorescence microscopy images)

cregart

Code for the PeerJ paper (cRegulome: an R package for accessing microRNA and transcription factor-gene expression correlations in cancer)

curated_adipo_descriptor

Code for the Adipocyte paper (Modeling the gene expression and the DNA-binding in the 3T3-L1 differentiating adipocytes)

curated_perturbed_descriptor

Code for the Adipocyte paper (Curated gene expression dataset of differentiating 3T3-L1 adipocytes under pharmacological and genetic perturbations)

evaluation-of-reference-genes-in-an-in-vitro-study-of-mouse-bat-differentiation-thermogenesis

Data source code of the manuscript 'Reliable reference genes for expression analysis of adipogenically differentiating brown mouse adipose stromal cells'

hierarchical_autophagy_regulation

Research compendium for the preprint "Hierarchical Regulation of Autophagy During Adipocyte Differentiation"

latex_templates

A collection of latex templates.

linps

LINPS: A database for cancer cell-specific perturbations of biological networks

linpsapp

LINPSAPP: A web interface for the database of cancer cell-specific perturbations of biological networks

obese_mice

Code for the data descriptor paper (Tissue-specific gene expression in obese hyperglycemic mice)

obmiti

orlistat_meta_analysis

Preprint: Meta-analysis of the Effect of Orlistat on The Body Mass Index in Obese Subjects

rkip

Code for the Cancers paper (Functional Linkage of RKIP to the Epithelial to Mesenchymal Transition and Autophagy during the Development of Prostate Cancer)

rkip_metastasis

rkiprev

Code for the book chapter (Anti-cancer effect of RKIP via modulating autophagy during metastasis)

target_ranking

Code for the BMC Genomics paper (Integrating binding and expression data to predict transcription factors combined function)

task_perturbation

Code for the article "Disruption of cancer cell functions by task-specific drug perturbations"

task_separation

Code for the article "Cancer cells forgo translating the transcribed genes of non-specialized tasks"