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 Rv1981c/nrdF1:

update plot	correlation	link to info on gene
Rv3738c/PPE66	(cc=0.6569)	info on Rv3738c/PPE66
Rv0872c/PE_PGRS15	(cc=0.5792)	info on Rv0872c/PE_PGRS15
Rv1503c/-	(cc=0.5223)	info on Rv1503c/-
Rv2777c/-	(cc=0.5204)	info on Rv2777c/-
Rv3158/nuoN	(cc=0.5191)	info on Rv3158/nuoN
Rv2459/-	(cc=0.5148)	info on Rv2459/-
Rv2954c/-	(cc=0.5056)	info on Rv2954c/-
Rv0114/gmhB	(cc=0.5018)	info on Rv0114/gmhB
Rv2276/cyp121	(cc=0.4983)	info on Rv2276/cyp121
Rv3232c/ppk2	(cc=0.4961)	info on Rv3232c/ppk2

Correlation of Rv1981c/nrdF1 with Rv0114/gmhB

Normalized LFCs for Rv1981c/nrdF1:
(description and provenance of datasets)

	Rv1981c/nrdF1	Rv0114/gmhB
Fe_supp_jason_reseq	0.204	0.718
low_pH_jason_reseq	-1.022	-0.632
NO_jason_reseq	-0.417	1.271
B6_jason_reseq	0.31	0.594
MHCII_jason_reseq	0.087	0.439
Isoniazid02	-0.639	-0.051
Rifampicin4	0.143	-0.046
Ethambutol3	0.064	-0.129
Meropenem3	-0.466	1.923
Vancomycin16	-0.456	0.409
Rv2680_day32	0.742	0.962
H37Rv_KO_MarP	-0.333	0.069
hypoxia_3wks	-0.646	-0.73
hypoxia_6wks	-1.297	-0.079
glycerol	0.089	-0.762
cholesterol	-0.384	-0.144
AJ	-0.012	0.849
Bibs02	0.468	0.188
Bibs02c	0.473	1.173
BL6	0.25	1.019
BL6a	0.443	1.633
BXD01	0.283	0.578
BXD010	0.295	0.796
BXD011	0.653	2.605
BXD03	0.455	1.583
BXD04	0.492	1.206
BXD05	0.397	0.811
BXD06	0.536	1.011
BXD07	0.277	1.313
BXD08	-0.029	0.994
BXD09	0.417	0.777
CAST	-0.012	0.566
CCcont	0.321	0.79
DS01	0.301	0.503
DS02	-0.028	0.487
DS04	0.025	1.088
DS0c	0.542	0.544
GP01	0.421	0.688
GP02	0.603	0.101
GP0c	0.365	0.118
NOD	0.667	1.526
NZO	-0.39	0.457
PWK	0.036	0.128
H37Rv_KO_CtpC	0.101	0.805
H37Rv_KO_CtpD	0.44	2.513
H37Rv_KO_Rv1272	0.588	1.842
H37Rv_KO_SugABC	1.0	2.029
H37Rv_KO_MbtN	0.046	0.753
Trans05	0.555	1.298
macrophage_unactivated	0.174	0.508
IL1	0.294	-0.4
Rapamycin	-0.157	0.313
Tcell	0.111	0.772
GMCSF	0.269	1.648
IFNab	0.166	0.671
IFNg	0.059	0.214
IFNg_GMCSF1	0.273	0.198
Rv1432_day32	-0.155	0.435
Rv1565c_day32	-0.878	-2.3
secA2_input	-0.427	-0.822
delta_Rv3594	-0.049	0.176
delta_Rv3717	-0.31	0.841
delta_Rv3811	0.012	-0.052
delta_Rv0954	0.231	0.863
PonA1	0.359	-0.166
EccD1_KO	0.066	0.115
EspI_KO	0.103	0.083
PE35_KO	-0.108	0.344
PPE68_KO	0.032	0.429
glycerol2	0.965	1.023
lignocerate	0.958	1.24
oleate	1.048	0.119
phosphatidylcholine	0.957	1.042
acetate	0.258	0.853
glucAc	0.183	0.887
Rv0950ko	0.663	1.269
Rv1096ko	0.118	0.145
Rv3684ko	-0.331	0.881
delta_otsA_trehalose	0.71	-0.281