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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

10 pathways · 13 edges
One-Carbon Metabolism (Folate Cycle) → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): 5-Methyl-THF, Methionine Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → One-Carbon Metabolism (Folate Cycle): Homocysteine, Tetrahydrofolate (THF) Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Purine Salvage Pathway: Adenosine Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Purine Degradation (to Uric Acid): Adenosine Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Deoxyribonucleotide Formation (Ribonucleotide Reductase pathway and thymidylate synthesis): Tetrahydrofolate (THF) Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Phospholipid Synthesis (Kennedy / CDP pathways): S-adenosylmethionine (SAM) Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Glutathione Metabolism (gamma-Glutamyl Cycle): Cysteine Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Catecholamine Synthesis: S-adenosylmethionine (SAM) Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) → Phase II - Conjugation: S-adenosylmethionine (SAM) Phospholipid Synthesis (Kennedy / CDP pathways) → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): S-adenosylhomocysteine Catecholamine Synthesis → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): S-adenosylhomocysteine Serotonin & Melatonin Synthesis → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): S-adenosylmethionine (SAM) Phase II - Conjugation → Methionine Cycle / Transmethylation (SAM Cycle, homocysteine): S-adenosylhomocysteine Phospholipid Synthesis (Kennedy / CDP pathways) Lipid Metabolism 2 connections · Peripheral Phospholipid Synthesis (Kenne… Catecholamine Synthesis Amino Acid & Nitrogen Metabolism 2 connections · Peripheral Catecholamine Synthesis Glutathione Metabolism (gamma-Glutamyl Cycle) Amino Acid & Nitrogen Metabolism 1 connection · Terminal Glutathione Metabolism (gamma… Methionine Cycle / Transmethylation (SAM Cycle, homocysteine) Amino Acid & Nitrogen Metabolism 13 connections · Hub Methionine Cycle / Transmethy… One-Carbon Metabolism (Folate Cycle) Amino Acid & Nitrogen Metabolism 2 connections · Peripheral One-Carbon Metabolism (Folate… Serotonin & Melatonin Synthesis Amino Acid & Nitrogen Metabolism 1 connection · Terminal Serotonin & Melatonin Synthes… Deoxyribonucleotide Formation (Ribonucleotide Reductase pathway and thymidylate synthesis) Nucleotide Metabolism 1 connection · Terminal Deoxyribonucleotide Formation… Purine Degradation (to Uric Acid) Nucleotide Metabolism 1 connection · Terminal Purine Degradation (to Uric A… Purine Salvage Pathway Nucleotide Metabolism 1 connection · Terminal Purine Salvage Pathway Phase II - Conjugation Xenobiotic & Drug Metabolism 2 connections · Peripheral Phase II - Conjugation

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.