ATCC (tool)

RRID:SCR_001672

Global nonprofit biological resource center (BRC) and research organization that provides biological products, technical services and educational programs to private industry, government and academic organizations. Its mission is to acquire, authenticate, preserve, develop and distribute biological materials, information, technology, intellectual property and standards for the advancement and application of scientific knowledge. The primary purpose of ATCC is to use its resources and experience as a BRC to become the world leader in standard biological reference materials management, intellectual property resource management and translational research as applied to biomaterial development, standardization and certification. ATCC characterizes cell lines, bacteria, viruses, fungi and protozoa, as well as develops and evaluates assays and techniques for validating research resources and preserving and distributing biological materials to the public and private sector research communities.

R Project for Statistical Computing (tool)

RRID:SCR_001905

Software environment and programming language for statistical computing and graphics. R is integrated suite of software facilities for data manipulation, calculation and graphical display. Can be extended via packages. Some packages are supplied with the R distribution and more are available through CRAN family.It compiles and runs on wide variety of UNIX platforms, Windows and MacOS.

Addgene (tool)

RRID:SCR_002037

Non-profit plasmid repository dedicated to helping scientists around the world share high-quality plasmids. Facilitates archiving and distributing DNA-based research reagents and associated data to scientists worldwide. Repository contains over 65,000 plasmids, including special collections on CRISPR, fluorescent proteins, and ready-to-use viral preparations. There is no cost for scientists to deposit plasmids, which saves time and money associated with shipping plasmids themselves. All plasmids are fully sequenced for validation and sequencing data is openly available. We handle the appropriate Material Transfer Agreements (MTA) with institutions, facilitating open exchange and offering intellectual property and liability protection for depositing scientists. Furthermore, we curate free educational resources for the scientific community including a blog, eBooks, video protocols, and detailed molecular biology resources.

STAR (tool)

RRID:SCR_004463

Software performing alignment of high-throughput RNA-seq data. Aligns RNA-seq reads to reference genome using uncompressed suffix arrays.

PubMed (tool)

RRID:SCR_004846

Public bibliographic database that provides access to citations for biomedical literature from MEDLINE, life science journals, and online books. Citations may include links to full-text content from PubMed Central and publisher web sites. PubMed citations and abstracts include fields of biomedicine and health, covering portions of life sciences, behavioral sciences, chemical sciences, and bioengineering. Provides access to additional relevant web sites and links to other NCBI molecular biology resources. Publishers of journals can submit their citations to NCBI and then provide access to full-text of articles at journal web sites using LinkOut.

RayBiotech (tool)

RRID:SCR_005517

An Antibody supplier

Millipore (tool)

RRID:SCR_008983

An Antibody supplier

Sigma-Aldrich (tool)

RRID:SCR_008988

American chemical, life science and biotechnology company owned by Merck KGaA. Merger of Sigma Chemical Company and Aldrich Chemical Company. Provides organic and inorganic chemicals, building blocks, reagents, advanced materials and stable isotopes for chemical synthesis, medicinal chemistry and materials science, antibiotics, buffers, carbohydrates, enzymes, forensic tools, hematology and histology, nucleotides, proteins, peptides, amino acids and their derivatives.

LIMMA (tool)

RRID:SCR_010943

Software package for the analysis of gene expression microarray data, especially the use of linear models for analyzing designed experiments and the assessment of differential expression.

edgeR (tool)

RRID:SCR_012802

Bioconductor software package for Empirical analysis of Digital Gene Expression data in R. Used for differential expression analysis of RNA-seq and digital gene expression data with biological replication.

featureCounts (tool)

RRID:SCR_012919

A read summarization program, which counts mapped reads for the genomic features such as genes and exons.

Abcam (tool)

RRID:SCR_012931

A commercial antibody supplier which supplies primary and secondary antibodies, biochemicals, proteins, peptides, lysates, immunoassays and other kits.

BD Biosciences (tool)

RRID:SCR_013311

An Antibody supplier

Rsubread (tool)

RRID:SCR_016945

Software R package for sequence alignment and counting for R. Used for analyses of second and third generation sequencing data, for read mapping, read counting, SNP calling, short and long read alignment, quantification and mutation discovery. Includes assessment of sequence reads, read alignment, read summarization, exon-exon junction detection, fusion detection, detection of short and long indels, absolute expression calling and SNP calling. Can be used with reads generated from any of the major sequencing platforms including Illumina GA/HiSeq/MiSeq, Roche GS-FLX, ABI SOLiD and LifeTech Ion PGM/Proton sequencers.

test (tool)

RRID:SCR_018743

test

C57BL/6J (tool)

RRID:IMSR_JAX:000664

Mus musculus with name C57BL/6J from IMSR.

beta Tubulin antibody (HRP) - Loading Control (antibody)

RRID:AB_727045

This polyclonal targets beta Tubulin (HRP) - Loading Control

Phospho-NF-κB p65 (Ser536) (93H1) Rabbit mAb (antibody)

RRID:AB_331284

This monoclonal targets NF-KappaB p65, phospho (Ser536)

p19 ARF (5-C3-1) (antibody)

RRID:AB_628071

This monoclonal targets Mouse p19 ARF

Anti-Mouse IgG (H+L), made in goat (antibody)

RRID:AB_2336171

This unknown targets IgG

Goat Anti-Mouse Rank / tnfrsf11a Polyclonal antibody, Unconjugated (antibody)

RRID:AB_2205357

This polyclonal targets Mouse RANK / TNFRSF11A

Ki-67 (D3B5) Rabbit mAb (Mouse Preferred; IHC Formulated) (antibody)

RRID:AB_2620142

This monoclonal targets Ki-67

Anti-phospho-Histone H2A.X (Ser139) Antibody (antibody)

RRID:AB_2755003

This monoclonal targets

Keratin, type II; cytokeratin 8/18; EndoA antibody - Brulet, P. / Kemler, R.; Institut Pasteur (antibody)

RRID:AB_531826

This monoclonal targets Keratin, type II; cytokeratin 8/18; EndoA

Donkey anti-Rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor™ 647 (antibody)

RRID:AB_2536183

This polyclonal secondary targets IgG (H+L)

Goat Anti-Rabbit IgG (H+L) Antibody, Alexa Fluor 546 Conjugated (antibody)

RRID:AB_2534077

This unknown targets IgG (H+L)

Keratin 14 Polyclonal Antibody, Purified (antibody)

RRID:AB_292096

This polyclonal targets ND

Purified Cytokeratin 8 mAb (antibody)

RRID:AB_2565043

This monoclonal targets Cytokeratin 8

Purified Keratin 5 Polyclonal Chicken Antibody (antibody)

RRID:AB_2565054

This polyclonal targets Keratin 5

Purified Keratin 5 pAb (antibody)

RRID:AB_2565050

This unknown targets Keratin 5

FVB/N-Tg(MMTV-PyVT)634Mul/J (organism)

RRID:IMSR_JAX:002374

Mus musculus with name FVB/N-Tg(MMTV-PyVT)634Mul/J from IMSR.

FVB/N-Tg(MMTVneu)202Mul/J (organism)

RRID:IMSR_JAX:002376

Mus musculus with name FVB/N-Tg(MMTVneu)202Mul/J from IMSR.

HEK293T (cell line)

RRID:CVCL_0063

Cell line HEK293T is a Transformed cell line with a species of origin Homo sapiens (Human)

MCF-7 (cell line)

RRID:CVCL_0031

Cell line MCF-7 is a Cancer cell line with a species of origin Homo sapiens (Human)

pCW57.1 (plasmid)

RRID:Addgene_41393

Hras (G12V)-pcw107 (plasmid)

RRID:Addgene_64603

pHIV-Zsgreen (plasmid)

RRID:Addgene_18121

pWPI (plasmid)

RRID:Addgene_12254