TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3138/pflA:

update plot	correlation	link to info on gene
Rv2998/-	(cc=0.5123)	info on Rv2998/-
Rv0905/echA6	(cc=0.4915)	info on Rv0905/echA6
Rv0397A/-	(cc=0.4896)	info on Rv0397A/-
Rv0365c/-	(cc=0.4881)	info on Rv0365c/-
Rv1525/wbbL2	(cc=0.4791)	info on Rv1525/wbbL2
Rv3126c/-	(cc=0.4715)	info on Rv3126c/-
Rv3529c/-	(cc=0.4674)	info on Rv3529c/-
Rv0605/-	(cc=0.4519)	info on Rv0605/-
Rv0845/-	(cc=0.4493)	info on Rv0845/-
Rv2634c/PE_PGRS46	(cc=0.4489)	info on Rv2634c/PE_PGRS46

Correlation of Rv3138/pflA with Rv3126c/-

Normalized LFCs for Rv3138/pflA:
(description and provenance of datasets)

	Rv3138/pflA	Rv3126c/-
Fe_supp_jason_reseq	-0.298	-1.953
low_pH_jason_reseq	0.089	-0.397
NO_jason_reseq	-0.06	-1.205
B6_jason_reseq	-0.658	-1.911
MHCII_jason_reseq	-0.094	-1.426
Isoniazid02	0.153	-0.506
Rifampicin4	-0.173	0.758
Ethambutol3	0.358	0.179
Meropenem3	-0.818	0.0
Vancomycin16	-0.485	0.512
Rv2680_day32	-0.696	-0.131
H37Rv_KO_MarP	0.346	-0.207
hypoxia_3wks	-0.032	1.017
hypoxia_6wks	-0.081	0.677
glycerol	-0.575	-0.554
cholesterol	0.068	-0.398
AJ	0.425	-0.637
Bibs02	0.527	-0.319
Bibs02c	0.582	-0.365
BL6	0.17	2.573
BL6a	0.732	3.655
BXD01	0.703	2.127
BXD010	0.479	2.796
BXD011	2.15	1.711
BXD03	0.39	2.925
BXD04	0.702	0.992
BXD05	0.833	2.388
BXD06	0.587	3.202
BXD07	0.831	2.751
BXD08	0.054	3.313
BXD09	0.746	3.562
CAST	-0.132	2.518
CCcont	0.454	2.334
DS01	0.0	-0.648
DS02	0.269	0.61
DS04	-0.571	-0.533
DS0c	0.36	-0.596
GP01	0.456	-0.271
GP02	0.077	-0.228
GP0c	-0.103	-0.357
NOD	-0.212	3.705
NZO	0.678	-0.548
PWK	0.772	-0.539
H37Rv_KO_CtpC	-0.241	-0.446
H37Rv_KO_CtpD	-0.198	-0.221
H37Rv_KO_Rv1272	0.362	1.328
H37Rv_KO_SugABC	-0.155	-0.272
H37Rv_KO_MbtN	-0.113	-0.18
Trans05	0.469	-0.109
macrophage_unactivated	1.275	1.001
IL1	0.736	-0.664
Rapamycin	0.292	0.819
Tcell	0.489	0.736
GMCSF	0.57	0.399
IFNab	0.133	-0.151
IFNg	0.454	-0.27
IFNg_GMCSF1	0.877	1.059
Rv1432_day32	0.159	0.0
Rv1565c_day32	0.224	0.0
secA2_input	-0.366	-1.781
delta_Rv3594	-0.878	-3.114
delta_Rv3717	-0.943	-0.629
delta_Rv3811	-0.665	-0.977
delta_Rv0954	0.12	0.83
PonA1	-0.459	-0.127
EccD1_KO	0.98	3.762
EspI_KO	0.268	0.605
PE35_KO	0.274	1.479
PPE68_KO	0.358	2.259
glycerol2	0.156	0.029
lignocerate	0.379	-0.739
oleate	0.021	1.014
phosphatidylcholine	0.328	0.333
acetate	-0.286	-0.224
glucAc	-0.017	-2.282
Rv0950ko	0.28	-0.347
Rv1096ko	0.13	-0.597
Rv3684ko	0.616	1.172
delta_otsA_trehalose	0.181	0.0