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Connectivity map

Each node is a pathway. An edge means a molecule produced by one is consumed by the other. Common carriers are excluded, otherwise everything joins to everything.

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Network

14 pathways · 13 edges
Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) → Other Neurotransmitter Synthesis: Acetyl-CoA, Glutamate Pyruvate Oxidation / Link Reaction (Pyruvate Dehydrogenase Complex) → Other Neurotransmitter Synthesis: Acetyl-CoA Fatty Acid Synthesis (De Novo Lipogenesis) → Other Neurotransmitter Synthesis: Acetyl-CoA Beta-Oxidation of Fatty Acids → Other Neurotransmitter Synthesis: Acetyl-CoA Ketogenesis → Other Neurotransmitter Synthesis: Acetyl-CoA Ketolysis (Ketone Body Utilization) → Other Neurotransmitter Synthesis: Acetyl-CoA Transamination → Other Neurotransmitter Synthesis: Glutamate Oxidative Deamination → Other Neurotransmitter Synthesis: Glutamate Urea Cycle → Other Neurotransmitter Synthesis: Arginine Pyruvate Dehydrogenase Complex (Link Reaction, connecting glycolysis to the TCA cycle) → Other Neurotransmitter Synthesis: Acetyl-CoA Phospholipid Degradation (Phospholipases) → Other Neurotransmitter Synthesis: Choline Malate-Aspartate Shuttle → Other Neurotransmitter Synthesis: Glutamate Glucose-Alanine Cycle → Other Neurotransmitter Synthesis: Glutamate Glucose-Alanine Cycle Carbohydrate Metabolism 1 connection · Terminal Glucose-Alanine Cycle Pyruvate Oxidation / Link Reaction (Pyruvate Dehydrogenase Complex) Carbohydrate Metabolism 1 connection · Terminal Pyruvate Oxidation / Link Rea… Beta-Oxidation of Fatty Acids Lipid Metabolism 1 connection · Terminal Beta-Oxidation of Fatty Acids Fatty Acid Synthesis (De Novo Lipogenesis) Lipid Metabolism 1 connection · Terminal Fatty Acid Synthesis (De Novo… Ketogenesis Lipid Metabolism 1 connection · Terminal Ketogenesis Ketolysis (Ketone Body Utilization) Lipid Metabolism 1 connection · Terminal Ketolysis (Ketone Body Utiliz… Phospholipid Degradation (Phospholipases) Lipid Metabolism 1 connection · Terminal Phospholipid Degradation (Pho… Amino Acid Catabolism Overview (glucogenic vs. ketogenic amino acids; brief overview of branched-chain amino acid catabolism and phenylalanine/tyrosine catabolism as representative examples) Amino Acid & Nitrogen Metabolism 1 connection · Terminal Amino Acid Catabolism Overvie… Other Neurotransmitter Synthesis Amino Acid & Nitrogen Metabolism 13 connections · Hub Other Neurotransmitter Synthe… Oxidative Deamination Amino Acid & Nitrogen Metabolism 1 connection · Terminal Oxidative Deamination Transamination Amino Acid & Nitrogen Metabolism 1 connection · Terminal Transamination Urea Cycle Amino Acid & Nitrogen Metabolism 1 connection · Terminal Urea Cycle Malate-Aspartate Shuttle Energy Metabolism & Cellular Respiration 1 connection · Terminal Malate-Aspartate Shuttle Pyruvate Dehydrogenase Complex (Link Reaction, connecting glycolysis to the TCA cycle) Energy Metabolism & Cellular Respiration 1 connection · Terminal Pyruvate Dehydrogenase Comple…

Circles — how connected a pathway is

  • Hub Connects to a large share of the map. Disturb one of these and the effect travels widely.
  • Connector Several links in and out. Typical of a pathway that both consumes and supplies intermediates.
  • Peripheral A handful of links, usually to close relatives within the same category.
  • Terminal One or two links. Either a short pathway or one the source documents describe in isolation.

Lines — what the connections mean

  • Violet joins two different categories — for example carbohydrate metabolism feeding lipid metabolism. These are the interesting ones.
  • Grey joins two pathways inside the same category.
  • Thickness is the number of different molecules shared. A thick line means the two pathways trade several intermediates, not just one.
› How to read this map

Think of each circle as a factory and each line as a delivery route. A line is drawn from one pathway to another when the first one makes a molecule that the second one uses. So the map is not about which pathways look similar; it is about which ones hand material to each other.

Big violet circles are the busy junctions. They sit in the middle of many deliveries, which is usually why a defect in one of them shows up in several organ systems at once. Small grey circles at the edge either are short pathways or are described on their own in the source documents, so they have few recorded hand-offs.

Common carriers such as ATP, NAD+ and water are deliberately left out. They take part in almost every reaction, so including them would connect everything to everything and the picture would say nothing. What remains are the specific intermediates.

Two cautions. A line means a connection exists somewhere in this dataset, not that material actually flows that way in a given tissue at a given moment — check the compartment and tissue on each pathway page. And a missing line may only mean the source documents did not record that step, not that biology lacks it.

Hover any circle for its name and connection count, hover any line for the molecules it carries, and click either to open the pathway behind it.

Filter by category

Carbohydrate Metabolism Lipid Metabolism Amino Acid & Nitrogen Metabolism Nucleotide Metabolism Energy Metabolism & Cellular Respiration Cofactor & Vitamin Metabolism Xenobiotic & Drug Metabolism

Junction detail

Directed: produced in the first pathway, consumed in the second

13 links

Showing all 13 junctions.