THE BASE ARCHIVE

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780 records

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152 records
Concept

The Cell · The cell

The smallest unit that can carry out the processes of life.

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Cell component

Plasma Membrane · Plasma membrane

A selective boundary that separates a cell from its surroundings.

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Cell component

Nucleus

The membrane-bound compartment that contains most eukaryotic DNA.

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Cell component

Mitochondrion

An organelle that supports energy conversion and many other cellular processes.

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Cell type

Neuron

An excitable cell specialized to receive, integrate, and transmit information through electrical and chemical signaling.

CL:0000540
Organism

Homo sapiens · Human

The human species, used here as the organism context for the curated TP53 and p53 records.

9606
Cell type

Adipocyte

Adipocytes store or use energy and send signals that help coordinate whole-body metabolism.

CL:0000136
Concept

Allele

One of the alternative DNA sequence forms found at a particular genetic locus.

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Concept

Amino Acids · Protein-building amino-acid set

Meet the 20 standard amino acids that build most proteins, plus selenocysteine and pyrrolysine, two rare amino acids that some organisms encode directly.

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Concept

Antibiotic

A medicine that kills or inhibits susceptible bacteria; antibiotics do not treat viral infections.

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Concept

Antigen

A molecular structure that can be specifically recognized by immune receptors or antibodies.

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Taxon

Archaea

A domain of cellular life distinct from Bacteria and Eukarya, with diverse metabolisms and habitats.

2157
Cell type

Astrocyte

Astrocytes help maintain the chemical environment around neurons and interact with blood vessels and synapses.

CL:0000127
Cell type

B Cell · B cell

A lymphocyte whose activated descendants can secrete antibodies and form memory cells.

CL:0000236
Taxon

Bacteria

One of the three domains of cellular life, comprising prokaryotic organisms with extensive metabolic and ecological diversity.

2
Cell type

Basophil

Basophils are rare circulating granulocytes that can participate in allergic and type 2 immune responses.

CL:0000767
Concept

Biased Agonism · Biased agonism

A ligand-dependent preference for some receptor signaling routes over others.

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Concept

Biogeochemical Cycles · Biogeochemical cycles

Transfers and transformations of elements among organisms and environmental reservoirs.

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Cell type

Blood Cell

Blood cells develop from hematopoietic stem cells and include cells that transport gases, defend against infection, or support clotting.

CL:0000081
Cell type

Cardiac Muscle Cell

Cardiac muscle cells contract in a coordinated way to pump blood through the heart.

CL:0000746
Concept

Cell Signaling · Cell signaling

How cells detect information and convert it into changes in behavior, chemistry, or gene activity.

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Cell component

Cell Wall · Cell wall

A supportive outer layer found in plants, fungi, and many microorganisms; animal cells do not have cell walls.

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Cell component

Chloroplast

A plant and algal organelle that houses photosynthetic membranes and carbon-assimilation machinery.

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Cell component

Chloroplast Stroma · Chloroplast stroma

The aqueous compartment inside the chloroplast envelope and outside the thylakoid lumen.

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Cell type

Cholangiocyte

Cholangiocytes line bile ducts and modify the fluid that flows through them.

CL:1000488
Cell type

Chondrocyte

Chondrocytes make and maintain the specialized matrix of cartilage.

CL:0000138
Concept

Concentration Gradients · Concentration gradients

Differences in a molecule's concentration across space that can drive diffusion and help power transport.

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Cell type

Connective Tissue Cell

Connective-tissue cells help make, maintain, or remodel the matrix that supports tissues.

CL:0002320
Technique

CRISPR Gene editing · CRISPR gene editing

A programmable system adapted from microbial defense to target selected DNA sequences.

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Taxon

Cyanobacteria

A group of bacteria that perform oxygenic photosynthesis and contribute to aquatic and terrestrial primary production.

1117
Cell component

Cytoplasm

The contents of a cell outside the nucleus, including cytosol and many cellular structures.

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Cell component

Cytoskeleton

A network of protein filaments that supports cell shape, movement, organization, and intracellular transport.

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Cell component

Cytosol

The aqueous phase of the cytoplasm outside membrane-enclosed organelles.

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Cell type

Cytotoxic T cell

A CD8⁺ T lymphocyte that can kill target cells displaying recognized peptide–MHC class I complexes.

CL:0000910
Cell type

Dendritic Cell

Dendritic cells collect and process material, then can show antigen fragments to T cells.

CL:0000451
Concept

DNA Base pair · DNA base pair

Two complementary DNA bases joined across opposite strands: adenine pairs with thymine, and cytosine with guanine.

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Technique

DNA-encoded Libraries · DNA-encoded libraries

Collections of small molecules tagged with DNA barcodes that record each compound's identity during pooled binding selections.

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Concept

Drug Selectivity · Drug selectivity

How preferentially a drug affects one target or pathway compared with other biological targets.

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Concept

Electron Carriers · Electron carriers

Small molecules such as NADH that collect and deliver electrons between metabolic reactions.

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Cell type

Endocrine Cell

Endocrine cells release hormones or other signals that can coordinate activities in distant cells and organs.

CL:0000163
Cell component

Endoplasmic Reticulum · Endoplasmic reticulum

A membrane network involved in protein production and processing, lipid synthesis, and calcium storage.

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Cell component

Endosome

A membrane-bound sorting compartment that receives endocytosed cargo and routes it for recycling, further transport, or degradation.

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Cell type

Endothelial Cell

Endothelial cells form the inner lining of blood and lymphatic vessels.

CL:0000115
Cell type

Enterocyte

Enterocytes absorb nutrients from the inside of the intestine.

CL:0000584
Cell type

Enteroendocrine Cell

Enteroendocrine cells sense nutrients and other cues and release hormones that help coordinate digestion and metabolism.

CL:0000164
Concept

Enzymes

Biological catalysts that speed reactions; most known enzymes are proteins, while some RNA molecules also catalyze reactions.

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Cell type

Eosinophil

Eosinophils are granulocytes involved in responses to some parasites and in allergic inflammation.

CL:0000771
Cell type

Ependymal Cell

Ependymal cells line fluid-filled spaces in the brain and spinal cord.

CL:0000065
Concept

Epidemiology

Study of how health events are distributed in populations and what factors influence them.

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Cell type

Epithelial Cell

Epithelial cells form sheets that cover surfaces and line many organs and tubes in the body.

CL:0000066
Organism

Epstein-Barr virus · Human gammaherpesvirus 4

A very common herpesvirus that spreads mainly through saliva and stays in the body for life after infection.

10376
Cell type

Erythrocyte

An erythrocyte, or red blood cell, carries oxygen through the blood using hemoglobin.

CL:0000232
Taxon

Escherichia coli

A diverse bacterial species that includes harmless strains as well as strains associated with disease.

562
Concept

Fed And fasting states · Fed and fasting states

Coordinated changes in hormones and fuel use that help the body respond to eating and time without food.

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Cell type

Fibroblast

Fibroblasts make and remodel much of the extracellular matrix that supports tissues.

CL:0000057
Concept

Gene

A region of genetic material used to produce a functional RNA; some genes also provide instructions for a protein.

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Concept

Gene Variants · Gene variants

DNA sequence differences that can have many different effects.

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Concept

Genetic Variation · Genetic variation

Differences in genetic material among individuals or populations, generated and reshaped by multiple processes.

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Concept

Genomics

Study of an organism's genome, including its sequence, organization, variation, and change over time.

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Concept

Genotype

The genetic-variant or allele combination considered for an individual or locus.

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Cell type

Germ Cell

Germ cells give rise to gametes and pass genetic information to the next generation.

CL:0000586
Cell type

Glial Cell

Glial cells are nervous-system cells that support, protect, insulate, or regulate the environment around neurons.

CL:0000125
Cell type

Goblet Cell

Goblet cells secrete mucus that helps protect and lubricate epithelial surfaces.

CL:0000160
Cell component

Golgi Apparatus · Golgi apparatus

A membrane-bound sorting and processing center that receives cargo from the ER and sends it to destinations.

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Concept

GPCR Agonists and antagonists · GPCR agonists and antagonists

Ligands that increase or prevent a G-protein-coupled receptor's signaling response.

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Cell type

Granulocyte

Granulocytes are white blood cells with prominent cytoplasmic granules, including neutrophils, eosinophils, and basophils.

CL:0000094
Concept

GTPase-activating Proteins · GTPase-activating proteins

Proteins that accelerate GTP hydrolysis by a GTPase, helping return the switch toward its GDP-bound state.

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Concept

Guanine Nucleotide dissociation inhibitors · Guanine nucleotide dissociation inhibitors

Regulators that bind GDP-bound members of selected small GTPase families and can influence their activity and localization.

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Concept

Guanine Nucleotide exchange factors · Guanine nucleotide exchange factors

Proteins that help a GTPase release GDP so GTP can bind and activate the switch.

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Organism

Helicobacter pylori

A Gram-negative bacterium that colonizes the stomach lining and is a major cause of peptic ulcers.

210
Cell type

Helper T cell

A CD4⁺ T lymphocyte that coordinates immune responses through cell contacts and secreted signals.

CL:0000912
Organism

Hepatitis B virus

A partially double-stranded DNA virus that infects liver cells and causes hepatitis B.

10407
Organism

Hepatitis C virus · Orthohepacivirus hominis (hepatitis C virus)

A positive-sense RNA virus that infects the liver and causes hepatitis C.

3052230
Cell type

Hepatocyte

Hepatocytes are the main working cells of the liver and carry out many chemical tasks for the body.

CL:0000182
Technique

High-throughput Screening · High-throughput screening

Automated testing of many candidate molecules in parallel to find compounds with a desired measurable activity.

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Concept

How Kinase inhibitors work · How kinase inhibitors work

Kinase inhibitors can bind different structural states or sites and interfere with phosphorylation signaling.

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Organism

Human immunodeficiency virus 1 · HIV-1

A retrovirus that infects immune cells and causes HIV infection; HIV-1 accounts for most infections worldwide.

11676
Organism

Human immunodeficiency virus 2 · HIV-2

A retrovirus distinct from HIV-1 that also causes HIV infection; laboratory HIV testing looks for antibodies to both HIV-1 and HIV-2.

11709
Cell type

Keratinocyte

Keratinocytes make up most of the epidermis and help form a protective barrier.

CL:0000312
Concept

Ketone Bodies · Ketone bodies

Small molecules made mainly by the liver from acetyl-CoA and used as fuel by several tissues during prolonged fasting.

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Cell type

Leukocyte

Leukocyte is the broad name for a white blood cell, a member of the body's immune and defense systems.

CL:0000738
Cell type

Leydig Cell

Leydig cells produce testosterone in response to hormonal signals.

CL:0000178
Concept

Ligands And receptors · Ligands and receptors

A ligand is a molecule that binds a specific partner, such as a receptor, and can change its activity.

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Cell type

Lymphocyte

A lymphocyte is an immune cell family that includes B cells, T cells, and natural killer cells.

CL:0000542
Concept

Lysosomal Storage disorders · Lysosomal storage disorders

Inherited conditions in which lysosomal enzyme or transporter defects disrupt breakdown and recycling of cellular material.

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Cell component

Lysosome

An acidic compartment where enzymes digest selected cellular material for recycling and other functions.

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Cell type

Macrophage

Macrophages are tissue immune cells that engulf material and help coordinate defense, cleanup, and repair.

CL:0000235
Concept

Major Human Cell Types · Representative human cell-type atlas

Explore representative cell types across blood, immunity, organs, metabolism, the nervous system, and reproduction. This is a guided starting set, not an exhaustive inventory of every human cell state.

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Cell type

Mast Cell

Mast cells are tissue-resident immune cells that can rapidly release stored mediators during certain immune reactions.

CL:0000097
Cell type

Megakaryocyte

Megakaryocytes are large bone-marrow cells that produce platelets.

CL:0000556
Cell type

Melanocyte

Melanocytes make melanin pigment and transfer pigment-containing structures to nearby cells.

CL:0000148
Concept

Membrane Potential · Membrane potential

A voltage difference across a cell membrane created by unequal ion distributions and selective permeability.

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Cell type

Memory B Cell

Memory B cells can persist after an immune response and respond more quickly if a related antigen appears again.

CL:0000787
Cell type

Microglial Cell

Microglia are resident immune cells that monitor and respond to changes in the central nervous system.

CL:0000129
Concept

Molecular Glues · Molecular glues

Small molecules that stabilize or create an interaction between proteins, changing the function or fate of one or both partners.

BASE record
Cell type

Monocyte

Monocytes circulate in blood and can take part in defense and tissue repair.

CL:0000576
Cell type

Muscle Cell

Muscle cells generate force using actin and myosin, but their structure and control differ across tissues.

CL:0000187
Organism

Mycobacterium tuberculosis

The bacterium that causes tuberculosis, spread through the air when a person with TB disease of the lungs or throat coughs or speaks.

1773
Cell type

Natural Killer Cell

Natural killer cells are lymphocytes that can respond to some infected or abnormal cells without first learning a unique antigen through a T-cell receptor.

CL:0000623
Cell type

Neutrophil

Neutrophils are fast-responding white blood cells that help control many bacterial and fungal infections.

CL:0000775
Concept

Noncoding RNA

RNA molecules that perform functions without serving as templates for protein synthesis.

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Taxon

North American deer mouse

Peromyscus maniculatus, a rodent that serves as an important reservoir host for Sin Nombre virus in the United States.

10042
Cell component

Nucleolus

A dynamic region inside the nucleus where ribosomal RNA is made and ribosome subunits begin to assemble.

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Concept

Nucleotide

A building block of DNA or RNA made of a sugar, a phosphate group, and a nitrogen-containing base.

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Cell type

Oligodendrocyte

Oligodendrocytes make myelin around parts of axons in the central nervous system.

CL:0000128
Cell type

Oocyte

An oocyte is a female germ cell that has entered meiosis and can contribute a haploid genome to an embryo after fertilization.

CL:0000023
Taxon

Orthoebolavirus zairense

A species of filovirus that includes viruses responsible for Ebola disease outbreaks.

3052462
Taxon

Orthohantavirus sinnombreense

A hantavirus species whose reservoir in the United States is chiefly the deer mouse and that can cause hantavirus pulmonary syndrome.

3052499
Cell type

Osteoblast

Osteoblasts build new bone matrix and help control its mineralization.

CL:0000062
Cell type

Osteoclast

Osteoclasts break down bone matrix as part of normal bone remodeling.

CL:0000092
Cell type

Osteocyte

Osteocytes are mature bone cells embedded in the matrix they help maintain.

CL:0000137
Concept

Oxygen Gradient · Oxygen gradient

A spatial difference in oxygen availability that can support different microbial metabolisms in one environment.

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Cell type

Pancreatic Alpha Cell

Pancreatic alpha cells release glucagon, a hormone that helps coordinate fuel availability, especially during fasting.

CL:0000171
Cell type

Pancreatic Beta Cell

Pancreatic beta cells release insulin when blood glucose and other signals indicate that fuel is available.

CL:0000169
Cell type

Paneth Cell

Paneth cells release antimicrobial molecules near the base of small-intestinal crypts.

CL:0000510
Concept

Pathogen

A biological agent that can cause disease in a host under particular conditions.

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Technique

Pedigree Analysis · Pedigree analysis

Use of family relationships and trait observations to evaluate possible inheritance patterns.

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Cell type

Pericyte

Pericytes sit alongside endothelial cells on many small blood vessels.

CL:0000669
Cell component

Peroxisome

An organelle that carries out specialized oxidative reactions, including selected steps in lipid metabolism.

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Technique

Phage Display · Phage display

A selection method that links a displayed peptide or antibody fragment to the genetic sequence that encodes it.

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Concept

Phenotype

An observable or measurable characteristic shaped by genetic, developmental, and environmental factors.

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Cell type

Photoreceptor Cell

Photoreceptor cells convert light into changes in electrical signaling in the retina.

CL:0000210
Cell type

Plasma Cell

Plasma cells are antibody-secreting cells that develop from activated B cells.

CL:0000786
Taxon

Plasmodium falciparum

A protozoan parasite and a major cause of severe malaria in humans.

5833
Cell type

Podocyte

Podocytes wrap around kidney glomerular capillaries and help form the filtration barrier.

CL:0000653
Concept

Potency And efficacy · Potency and efficacy

Two different properties: how much drug is needed for an effect and how large an effect the drug can produce.

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Concept

Protein Binding pockets · Protein binding pockets

Regions of a protein surface or interior that can accommodate a molecule and support binding.

BASE record
Concept

Protein Druggability · Protein druggability

How well a protein can be reached and modulated by a medicine with useful selectivity and effect.

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Concept

Protein Kinases · Protein kinases

Enzymes that transfer phosphate groups, usually from ATP, onto protein targets.

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Concept

Protein Phosphatases · Protein phosphatases

Enzymes that remove phosphate groups from proteins and help balance kinase activity.

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Concept

Proton-motive Force · Proton-motive force

Stored electrochemical energy created by differences in proton concentration and charge across a membrane.

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Cell type

Proximal Tubule Epithelial Cell

Proximal tubule cells reclaim much of the filtered water and useful solutes from kidney fluid.

CL:0002306
Technique

Punnett Square · Punnett square

A grid for enumerating possible allele combinations from specified parental gametes.

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Cell type

Regulatory T Cell

Regulatory T cells help limit immune responses and support immune tolerance.

CL:0000815
Concept

Resistance To kinase inhibitors · Resistance to kinase inhibitors

Tumor cells can restore signaling or alter drug binding so a kinase inhibitor loses effect.

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Cell type

Retinal Cone Cell

Cone cells support color vision and detailed vision in brighter light.

CL:0000573
Cell type

Retinal Rod Cell

Rod cells are retinal photoreceptors that are highly sensitive to dim light.

CL:0000604
Cell type

Schwann Cell

Schwann cells support peripheral nerves and can wrap axons with myelin.

CL:0002573
Concept

Second Messengers · Second messengers

Small intracellular signals that relay and distribute information after many receptors are activated.

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Cell type

Sertoli Cell

Sertoli cells support developing sperm cells inside the seminiferous tubules.

CL:0000216
Cell type

Skeletal Muscle Cell

Skeletal muscle cells generate force for movement and posture and can respond to voluntary motor commands.

CL:0000188
Cell type

Smooth Muscle Cell

Smooth muscle cells change the diameter of vessels and move or regulate material through hollow organs.

CL:0000192
Cell type

Sperm Cell

A sperm cell is a mature male gamete that can deliver a haploid genome to an egg during fertilization.

CL:0000019
Cell type

T Cell

T cells are lymphocytes whose receptors recognize specific molecular fragments displayed by other cells.

CL:0000084
Concept

Target Engagement · Target engagement

Evidence that a candidate medicine binds or otherwise interacts with its intended biological target in a relevant setting.

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Concept

The Genetic code · The genetic code

Rules that relate three-base RNA codons to amino acids or translation stop signals.

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Cell component

Thylakoid

An internal chloroplast membrane sac that carries photosystems, electron-transfer complexes, and ATP synthase.

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Cell component

Transport Vesicle · Transport vesicle

A small membrane-bound carrier that moves selected cargo between cellular compartments or to the cell surface.

BASE record
Organism

Treponema pallidum

The spirochete bacterium species that includes the subspecies causing syphilis.

160
Cell type

Type I Alveolar Cell

Type I alveolar cells form much of the thin surface across which oxygen and carbon dioxide exchange.

CL:0002062
Cell type

Type II Alveolar Cell

Type II alveolar cells make pulmonary surfactant, which helps keep alveoli from collapsing during breathing.

CL:0002063
Concept

Virus

An acellular infectious agent whose replication depends on host-cell machinery.

BASE record