Reagent or Resource	Source	Identifier
Antibodies
Rabbit anti Phospho‐EGF Receptor (Tyr1068) Antibody	Cell Signaling Technology	2234S
Mouse monoclonal Phospho‐p38 MAPK (Thr180/Tyr182) (28B10)	Cell Signaling Technology	9216S
Rabbit polyclonal CDK1 (phospho T161)	Abcam	ab47329‐100ug
Rabbit polyclonal CDK1	Abcam	ab131450‐100ug
Mouse monoclonal FIP1/RCP antibody	Bio Techne	NBP2‐20033
Mouse monoclonal ERK 1/2	Santa Cruz Biotechnology	sc‐135900
Mouse monoclonal γ‐Tubulin	Sigma‐Aldrich	T5326
Mouse monoclonal Vinculin	Sigma Aldrich	V9264‐200UL
Rabbit polyclonal pEGFR Thr669	Cell Signaling Technology	3056s
Rabbit monoclonal pEGFR Thr669	Cell Signaling Technology	8808s
Rabbit monoclonal p44/42 MAPK (Erk1/2) (137F5)	Cell Signaling Technology	4695S
Mouse monoclonal GAPDH	Abcam	ab8245‐100ug
Mouse monoclonal EGFR (Ab‐1)	Merck	GR01L‐100UG
Rabbit polyclonal EGFR	millipore	06‐847
Rabbit monoclonal FGFR1 antibody D8E4	Cell Signaling Technology	9740
Rabbit polyclonal SH3BP4	Abcam PLC	ab106609‐100ug
Rabbit monoclonal FGF Receptor 2 (D4L2V)	Cell Signaling Technology	23328S
Rabbit monoclonal P38	Cell Signaling Technology	9212
Rabbit monoclonal GFP	Cell Signaling Technology	2956
Peroxidase‐AffiniPure F(ab')2 Fragment Goat Anti‐Mouse IgG (H + L) (min X Hu, Bov, Hrs Sr Prot)	Stratech	115‐036‐062‐JIR‐0.5ml
Peroxidase‐AffiniPure F(ab')2 Fragment Goat Anti‐Rabbit IgG (H + L) (min X Hu Sr Prot)	Stratech	111‐036‐045‐JIR‐0.5m
Mouse monoclonal to EEA1	BD Bioscience	610457
Goat anti‐Rabbit IgG (H + L) Secondary Antibody, Alexa Fluor® 488 conjugate	Invitrogen	A11034
Goat anti‐Mouse IgG (H + L) Secondary Antibody, Alexa Fluor® 488 conjugate	Invitrogen	A11001
Goat anti‐Rabbit IgG (H + L) Secondary Antibody, Alexa Fluor® 568 conjugate	Invitrogen	A11011
Donkey Anti‐Mouse IgG (H + L) Secondary Antibody, Alexa Fluor® 647 conjugate	Invitrogen	A31571
Donkey Anti‐Rabbit IgG (H + L) Secondary Antibody, Alexa Fluor® 647 conjugate	Invitrogen	A31573
Bacterial and Virus Strains
NEB® 10‐beta Competent E.␣coli (High Efficiency)	New England Biolabs	Cat. No: C3019H
Biological Samples
Chemicals, Peptides, and Recombinant Proteins
Trypsin porcine pancreas (proteomics grade)	Sigma‐Aldrich	T6567
Lysyl Endopeptidase	FUJIFILM Wako Chemicals	2541
TiO beads “Titanspheres”	GL Sciences	5020‐75000
Pre‐cast gradient gel: Nu‐PAGE 4‐12% Bis‐Tris Gel 1.0mm 10 well	Invitrogen	NP0321BOX
Sep‐Pak Classic C18 cartridges	Waters	WAT051910
Solid Phase Extraction Disk “Empore” C18 (Octadecyl) 3 M	Agilent Technologies	2215
Solid Phase Extraction Disk “Empore” C8 (Octyl) 3 M	Agilent Technologies	2214
L‐ARGININE:HCL	Cambridge Isotope Laboratories	CLM‐2265‐H‐0.25
L‐ARGININE:HCL	Cambridge Isotope Laboratories	CNLM‐539‐H‐0.5
L‐ARGININE:HCL	Sigma‐Aldrich	A6969
L‐LYSINE:2HCL	Cambridge Isotope Laboratories	DLM‐2640‐0.5
L‐LYSINE:2HCL	Cambridge Isotope Laboratories	CNLM‐291‐H‐0.5
L‐LYSINE:2HCL	Sigma‐Aldrich	L8662
2,5‐Dihydroxybenzoic acid	Sigma‐Aldrich	85707
RPMI 1640 Medium for SILAC	ThermoFisher Scientific	88365
TRIzol™ Reagent	ThermoFisher Scientific	Cat. No. 15596026
DIHYDROETHIDIUM	Cambridge Bioscience	12013‐5mg‐CAY
Hoechst 33342	New England Biolabs	4082S
Lipofectamine RNAiMAX Transfection Reagent	ThermoFisher Scientific	10601435
Lipofectamine Transfection Reagent	Life Technologies	18324020
FuGENE HD Transfection Reagent	Promega UK	E2311
Sodium Pyruvate solution 100mM (100ml)	Sigma‐Aldrich	S8636‐100ML
Crystal violet solution	Sigma‐Aldrich	V5265‐250ML
Carestream Kodak BioMax MR Film	Kodak	Z350370‐50EA
Xtra‐Clear Flat 8‐Strip Caps	Star labs	I1400‐0900‐C
96‐Well PCR Plate␣Non‐Skirted Low Profile Natural	Star labs	E1403‐0200‐C
RPMI 1640 Medium Glutamax Supplement (500ml)	Gibco	61870010
ReliaPrep RNA Cell Miniprep System	NEB	Z6011
Color Prestained Protein Standard Broad Range	NEB	P7712S
Prestained Protein Standard Broad Range	Sigma‐Aldrich	SDS7B2
PURELINK QUICK MINI	NEB?	K210010
T4 DNA Ligase 20,000 u	NEB?	M0202S
DMEM High glucose HEPES w/o Glutamine and Sodium pyruvate	Sigma‐Aldrich	D6171‐6X500ML
DMEM AQ medium	Sigma‐Aldrich	D0819‐500ml
RPMI 1640 w/L‐Glutamine‐Bicarbonate	Sigma‐Aldrich	R8758‐6X500ML
Q5 High Fidelity 2x mastermix	NEB	M0492S
Nutrient Mix F12 HAM	Sigma‐Aldrich	N6658‐500ML
Human EGF (Animal Free)	PeproTech	AF‐100‐15‐1000
PRESTAINED MOLECULAR WEIGHT MARKER, MW 2	Sigma‐Aldrich	SDS7B2‐1VL
MG132	Fisher Sientific	15465519
HYPERFILM ECL 18X24CM	VWR International Ltd	28‐9068‐37
Albumin, Bovine Fraction V (BSA), 100 Grams Cat No: A30075‐100.0	Melford Biolaboratories Ltd	A30075‐100.0
Bradford Reagent	Bio‐Rad	5000205
Clarity ECL	Bio‐Rad	1705061
GoScript Reverse Transcription Mix, Random Primers	Promega	A2801
Pierce Protease Inhibitor Tablets‐20 tablets	Life Tehnologies	A32963
MEMBRANE PROTRAN 0,45uM NC 300MMX4 M	VWR	10600002
qPCRBIO SyGreen Mix Separate‐ROX	pcr biosystems	PB20.14‐50
ProLong Diamond Antifade Mountant‐2 mL	Life Technologies	P36965
ExoSAP‐IT	Life Technologies	78250.40.ul
DMSO	Sigma‐Aldrich	276855‐250ml
ACETONITRILE	VWR International Ltd	1.00030.2500
HEPARIN SODIUM CELL CULTURE TESTED	Sigma‐Aldrich	H3149‐100KU
Escort IV	SLS	L3287‐1ML
Penicillin‐Streptomycin (10,000 U/mL)	Life Technologies Ltd	15140122
Human EGF	Sigma‐Aldrich	E9644‐.2MG
Human TGFα	Pepro Tech Limited	100‐16A
Human FGF1	Pepro Tech Limited	100‐17A‐50
Human FGF7	Francavilla et␣al 2013	PI: Prof Olsen
Human FGF3	Bio Techne	1206‐F3‐025
Human FGF10	Francavilla et␣al 2013	PI: Prof Olsen
Enkamin‐E	Pepro Tech Limited	A14‐529EP
PD173074	Selleckchem	S1264
AG1478	Cell Signalling Technologies	9842
U2106	Cell Signalling Technologies	9903
MEK162	APEXBIO	A1947
BMS582949	Selleck Chem	S8124
Collagen I, HC, Rat Tail, 100 mg	Corning	354249
FIBRONECTIN FROM BOVINE PLASMA	Sigma	F1141‐1MG
DMEM powder, high glucose	Thermo Fisher	52100021
Fetal Bovine Serum, South American origin	Life Technologies	10270106
TW PC MEMBRANE,6.5MM,8.0UM Transwell Inserts	Sigma Aldrich	CLS3422‐48EA
Calcein AM cell permanent Dye	Fisher Scientific	C1430
Glacial Acetic Acid (HPLC Grade)	Fisher Scientific UK	10060000
Formic Acid (HPLC Grade)	Sigma‐Aldrich	5438040250
Trifluoracetic Acid (Spectroscopy Grade)	Sigma‐Aldrich	1082621000
Dispase	Stem Cell Technologies	7913
Matrigel	Corning	354230
DAPI (4',6‐Diamidino‐2‐Phenylindole, Dihydrochloride)	Life Technology	D1306
Transferrin From Human Serum, Alexa Fluor™ 647 Conjugate	Invitrogen	T23366
Transferrin From Human Serum, Tetramethylrhodamine Conjugate	Invitrogen	T2872
Critical Commercial Assays
Click‐iT EdU Alexa Fluor 488 Imaging Kit‐1 kit	Life Technologies	C10337
Venor®GeM Classic Mycoplasma PCR Detection Kit(100 tests)	Cambridge Bioscience	11‐1100
ProtoScript; II First Strand cDNA Synthesis Kit	New England Biolabs	E6560L
ReliaPrep RNA Cell Miniprep System	Promega	Z6011
Tumor dissociation kit	Miltenyi Biotec	130‐095‐929
Isolate II PCR and Gel kit	Bioline	BIO‐52059
Isolate II plasmid mini kit	Bioline	BIO‐52056
Deposited Data
Raw data (MS)	This paper	http://proteomecentral.proteomexchange.org/cgi/GetDataset (dataset identifier PXD018184)
Experimental Models: Cell Lines
MCF‐7	LGC ATCC®	HTB‐22
MDA‐MB‐415	LGC ATCC®	HTB‐24
BT20	LGC ATCC®	HTB‐19
HCC1937	LGC ATCC®	CRL‐2336
T47D	LGC ATCC®	HTB‐133
BT549	LGC ATCC®	HTB‐122
Experimental Models: Organisms/Strains
BB6RC37	Eyre et␣al (2016)	PI: R. Clarke
Oligonucleotides
SIRNA UNIV NEGATIVE CONTROL #2	Sigma‐Aldrich	SIC002
GGAGAUGAAAGUGUCAGCCGAGAUA	Invitrogen	SH3BP4HSS119149
CCCAGGAUCUCAAGGUCUGUAUGUU	Invitrogen	SH3BP4HSS119150
CCUGAUUGACCUGAGCGAAGGGUUU	Invitrogen	SH3BP4HSS119151
GGUCCUCAAACAGAAGGAAACGAUA	Invitrogen	RAB11FIP1HSS149439
GAAGACUACAUUGACAACCUGCUUG	Invitrogen	RAB11FIP1HSS149440
UCCGCAUCCCGACUCAGGUUGGCAA	Invitrogen	RAB11FIP1HSS149441
CGGAAUAGGUAUUGGUGAAUUUAAA	Invitrogen	EGFRHSS176346 (G01)
CCUAUGCCUUAGCAGUCUUAUCUAA	Invitrogen	EGFRHSS103116 (G06)
CCCGUAAUUAUGUGGUGACAGAUCA	Invitrogen	EGFRHSS103114 (G09)
CCN1 F‐ GGTCAAAGTTACCGGGCAGT R‐ GGAGGCATCGAATCCCAGC	In house	n/a
DUSP1 F‐ GCCTTGCTTACCTTATGAGGAC R‐GGGAGAGATGATGCTTCGCC	In house	n/a
FOS F‐ AGGAGGGAGCTGACTGATACACT R‐ TTTCCTTCTCCTTCAGCAGGTT	In house	n/a
JUNB F‐ ACGACTCATACACAGCTACGG R‐ GCTCGGTTTCAGGAGTTTGTAGT	In house	n/a
TIMP3 F‐ CATGTGCAGTACATCCATACGG R‐ CATCATAGACGCGACCTGTCA	In house	n/a
EGR1 F‐ GAGAAGGTGCTGGTGGAGAC R‐ CACAAGGTGTTGCCACTGTT	In house	n/a
BCL10 F‐ GTGAAGAAGGACGCCTTAGAAA R‐ TCAACAAGGGTGTCCAGACCT	In house	n/a
CTGF F‐ CAGCATGGACGTTCGTCTG R‐ AACCACGGTTTGGTCCTTGG	In house	n/a
MCL1 F‐ATCTCTCGGTACCTTCGGGAGC R‐ GCTGAAAACATGGATCATCACTCG	In house	n/a
DUSP6 F‐ CCGCAGGAGCTATACGAGTC R‐ CGTAGAGCACCACTGTGTCG	In house	n/a
ABHD5 F‐ GCTGCTGCTTACTCGCTGAA R‐ TCTGATCCAAACTGGAATTGGTC	In house	n/a
KDM6B F‐ CACCCCAGCAAACCATATTATGC R‐ CACACAGCCATGCAGGGATT	In house	n/a
MXD1 F‐ CGTGGAGAGCACGGACTATC R‐ CCAAGACACGCCTTGTGACT	In house	n/a
NDRG1 F CTCCTGCAAGAGTTTGATGTCC ‐ R‐ TCATGCCGATGTCATGGTAGG	In house	n/a
SPRY2 F‐ CCTACTGTCGTCCCAAGACCT R‐ GGGGCTCGTGCAGAAGAAT	In house	n/a
ID4 F‐ TGCCTGCAGTGCGATATGAA R‐ GCAGGTCCAGGATGTAGTCG	In house	n/a
FGFR2b F‐ AACGGGAAGGAGTTTAAGCAG R‐ CTCGGTCACATTGAACAGAG	In house	n/a
BETA ACTIN F‐ TGGAACGGTGAAGGTGACAG R‐ AACAACGCATCTCATATTTGGAA	In house	n/a
GAPDH F‐ CAATGACCCCTTCATTGACC R‐ GACAAGCTTCCCGTTCTCAG	In house	n/a
Recombinant DNA
EGFR (pRK5‐EGFR)	Addgene	Plasmid #65225
EGFRT693A	Mutagenesis of above
eGFP‐Rab11	Addgene	Plasmid #12674
eGFP‐Rab11_S52N	Mutagenesis of above
Dynamin_K44a‐eGFP	Mutagenesis of Addgene plasmid	Plasmid # 34680
HA‐FGFR1c	Francavilla et␣al (2009)	PI: Dr Cavallaro
HA‐FGFR2b	Francavilla et␣al (2013)	PI: Prof Olsen
HA_FGFR2b_Y656F/Y657F	Francavilla et␣al (2013)	PI: Prof Olsen
HA‐FGFR4 cloned using human cDNA with primers F‐GGGGCCCAGCCGGCCAGACTGGAGGCCTCTGAGGAAGTGGAGCTTGAGCC R ‐GTCGACCTGCAGTGTCTGCACCCCAGACCCGAAGGGGAAGGAGCTGGATCC	Generated for this study	n/a
Software and Algorithms
Fiji‐ Image J version: 1.52p	Schindelin et␣al (2012)	https://imagej.net/Fiji
GraphPad Prism version 8.0.0	GraphPad Software	www.graphpad.com
MaxQuant version 1.5.6.5	Cox and Mann (2008)	http://www.coxdocs.org/doku.php?id=maxquant:start
WebGestalt 2019	Liao et␣al (2019)	http://www.webgestalt.org/
Perseus versions 1.6.5.0 or 1.6.2.1.:	Tyanova et␣al (2016)	http://www.coxdocs.org/doku.php?id=maxquant:start
Cytoscape version 3.7.2	Shannon et␣al (2003)	https://www.cytoscape.org
STRING version 11	Szklarczyk et␣al (2019)	https://string‐db.org/
R framework	R Core Team (2018)	https://www.r‐project.org/
Other
Confocal Microscope Leica Sp8 Inverted	Lecia
Mx3000P qPCR machine	Agilent
UltiMate® 3000 Rapid Separation LC	Dionex
QE‐HF LC‐MS/MS	Thermo Fisher Scientific