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 Rv1670/-:

update plot	correlation	link to info on gene
Rv2066/cobI	(cc=0.5156)	info on Rv2066/cobI
Rv2489c/-	(cc=0.4689)	info on Rv2489c/-
Rv3451/cut3	(cc=0.4423)	info on Rv3451/cut3
Rv0073/-	(cc=0.4289)	info on Rv0073/-
Rv1997/ctpF	(cc=0.3953)	info on Rv1997/ctpF
Rv1677/dsbF	(cc=0.3927)	info on Rv1677/dsbF
Rv1148c/-	(cc=0.3915)	info on Rv1148c/-
Rv1511/gmdA	(cc=0.3858)	info on Rv1511/gmdA
Rv1916/aceAb	(cc=0.3858)	info on Rv1916/aceAb
Rv1427c/fadD12	(cc=0.3851)	info on Rv1427c/fadD12

Correlation of Rv1670/- with Rv1511/gmdA

Normalized LFCs for Rv1670/-:
(description and provenance of datasets)

	Rv1670/-	Rv1511/gmdA
Fe_supp_jason_reseq	0.159	-0.218
low_pH_jason_reseq	0.853	0.435
NO_jason_reseq	-0.336	-0.614
B6_jason_reseq	-0.578	0.411
MHCII_jason_reseq	-0.336	0.579
Isoniazid02	-1.702	-1.493
Rifampicin4	-0.366	0.436
Ethambutol3	-0.933	-0.48
Meropenem3	-1.155	-0.871
Vancomycin16	-0.576	-0.74
Rv2680_day32	1.862	-0.333
H37Rv_KO_MarP	0.041	-0.11
hypoxia_3wks	0.411	-0.132
hypoxia_6wks	0.626	0.194
glycerol	-0.295	0.075
cholesterol	0.577	0.355
AJ	0.234	0.229
Bibs02	0.984	0.14
Bibs02c	0.811	0.365
BL6	-1.179	0.108
BL6a	-0.451	-0.156
BXD01	0.009	-0.142
BXD010	-1.115	0.177
BXD011	-0.615	0.008
BXD03	0.286	0.339
BXD04	-1.143	-0.188
BXD05	0.216	-0.299
BXD06	-1.258	0.089
BXD07	-0.603	-0.267
BXD08	0.734	0.097
BXD09	-1.018	-0.069
CAST	0.4	0.36
CCcont	-0.72	-0.113
DS01	0.486	0.597
DS02	1.583	0.591
DS04	0.447	0.921
DS0c	1.436	0.995
GP01	1.015	0.813
GP02	0.636	0.608
GP0c	-0.551	-0.088
NOD	0.317	0.727
NZO	0.03	-0.477
PWK	0.946	0.382
H37Rv_KO_CtpC	-0.4	-0.313
H37Rv_KO_CtpD	1.254	0.515
H37Rv_KO_Rv1272	-0.403	1.062
H37Rv_KO_SugABC	-0.216	0.113
H37Rv_KO_MbtN	-1.361	0.192
Trans05	0.4	0.273
macrophage_unactivated	-0.234	-0.243
IL1	2.554	0.03
Rapamycin	-0.227	-0.285
Tcell	-0.583	-0.016
GMCSF	-0.694	-0.388
IFNab	0.073	-0.248
IFNg	-0.131	0.321
IFNg_GMCSF1	-0.647	-0.063
Rv1432_day32	-0.575	0.532
Rv1565c_day32	-1.366	0.049
secA2_input	0.316	-0.479
delta_Rv3594	0.337	0.479
delta_Rv3717	0.053	0.415
delta_Rv3811	-0.116	0.278
delta_Rv0954	0.497	-0.066
PonA1	0.0	0.568
EccD1_KO	0.743	0.039
EspI_KO	0.285	-0.436
PE35_KO	0.636	0.615
PPE68_KO	-0.093	0.426
glycerol2	-0.135	0.392
lignocerate	-0.634	0.621
oleate	0.237	0.452
phosphatidylcholine	-0.34	0.76
acetate	-0.477	0.186
glucAc	-1.143	0.09
Rv0950ko	0.392	-0.223
Rv1096ko	-0.911	-0.425
Rv3684ko	-0.354	-0.242
delta_otsA_trehalose	0.817	0.924