The Guernsey rider's win also secured Madison Genesis' first piece of individual glory, in their second season of racing in The Pearl Izumi Tour Series.
Horton headed Chris Opie in the final lap dash from an eight rider group around Canary Wharf's 1-kilometre circuit, with the Cornishman taking the evening's Costa Express Fastest Lap on the final tour.
Behind them, Alex Paton took Pedal Heaven Colbornes' best individual result of The Pearl Izumi Tour Series, with third on the road, ahead of Marcin Bialoblocki and James McCallum, the latter on an emotional evening, as his final appearance in the Series ahead of retirement later on in 2014, following the Commonwealth Games in Glasgow.
For Paton third helped Pedal Heaven Colbornes to sixth on the night, and lifted them off bottom in the table to penultimate spot, sandwiched in a three-way tie with Great Britain and Starley Primal Pro Cycling, as the three squads rely on countback to separate them.
At the front no such measures are necessary, with Rapha Condor JLT now 18 points clear, with only 36 more available from Tuesday's Woking event and Jersey's double header final round. The men in black, who have become the men in Pearl Izumi's red and yellow since Round Two at Barrow, took their fifth team win of the 2014 Series, equalling their tally from 2010 and 2011, when John Herety's team also won the overall title.
Behind them come Madison Genesis, who are now just two points ahead of Team Raleigh, although neither team faired particularly well in Canary Wharf, taking fourth, in the case of the latter, and fifth for the former.
Kristian House won the evening's Sprints prize to move into second spot in the standings, 15 points adrift of NFTO's Jon Mould, who was rested from the Canary Wharf race.
Earlier in the evening Horton's Madison Genesis teammate Mike Northey had helped the Madison corporate team to victory in the traditional Canary Wharf Corporate Grand Prix pro-am, just ahead of Barclays and Metaltek Kuota, with Leukaemia & Lymphoma Research and Team Raleigh taking third.
Highlights of the Canary Wharf event are on ITV4 at 10pm on Friday 6th June, with a repeat on Saturday 7th June at 8.35am, and will be available on the ITV Player online for 30 days after broadcast.
Next week sees The Pearl Izumi Tour Series make its annual trip to Woking, with the Surrey town hosting Round Nine on Tuesday 10th June, alongside the final event of the women's Matrix Fitness Grand Prix Series.
Teams will then head to Jersey in the Channel Islands for a double header final round, encompassing a hill climb event and the traditional circuit race on Friday 13 June, as a part of the Jersey Festival of Cycling.
The weekend includes the Pearl Izumi Tour Ride coastal sportive on Saturday 14 June allowing amateur riders to ride the island, before the Pearl Izumi Jersey International Road Race on Sunday 15 June, which will see the professionals back in action for a 140-kilometre, ten lap road race.
The Pearl Izumi Tour Series
Thursday 5 June 2014, Canary Wharf
Round Eight Team Result
1) Rapha Condor JLT
2) Node4 Velosure
3) NFTO Pro Cycling
4) Team Raleigh
5) Madison Genesis
6) Pedal Heaven Colbornes
7) Metaltek Kuota
8) Starley Primal Pro Cycling
9) Great Britain
Round Eight Individual Result
1) Tobyn Horton, GBR, Madison Genesis
2) Chris Opie, GBR, Rapha Condor JLT
3) Alex Paton, GBR, Pedal Heaven Colbornes
4) Marcin Bialoblocki, POL, Node4 Velosure
5) James McCallum, GBR, NFTO Pro Cycling
6) Matthew Gibson, GBR, Great Britain
7) George Harper, GBR, Node4 Velosure
8) Yanto Barker, GBR, Team Raleigh
9) Felix English, IRL, Rapha Condor JLT
10) Ed Clancy, GBR, Rapha Condor JLT
Round Eight Costa Express Fastest Lap: Chris Opie, GBR, Rapha Condor JLT, 1"11.551
Round Eight Sprint Winner: Kristian House, GBR, Rapha Condor JLT
Canary Wharf Corporate Grand Prix Winners: Madison and Mike Northey, Madison Genesis
Overall Team Standings, post-Round Eight
1) Rapha Condor JLT, 96pts
2) Madison Genesis, 78pts
3) Team Raleigh, 76pts
4) NFTO Pro Cycling, 66pts
5) Node4 Velosure, 53pts
6) Metaltek Kuota, 42pts
7) Great Britain, 34pts
8) Pedal Heaven Colbornes, 34pts
9) Starley Primal Pro Cycling, 34pts
Overall Sprint Standings, post-Round Eight
1) Jon Mould, GBR, NFTO Pro Cycling, 60pts
2) Kristian House, GBR, Rapha Condor JLT, 45pts
3) Graham Briggs, GBR, Rapha Condor JLT, 42pts