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 Rv2302/-:

update plot	correlation	link to info on gene
Rv2880c/-	(cc=0.4277)	info on Rv2880c/-
Rv2492/-	(cc=0.4178)	info on Rv2492/-
Rv1702c/-	(cc=0.4112)	info on Rv1702c/-
Rv2624c/-	(cc=0.411)	info on Rv2624c/-
Rv2976c/ung	(cc=0.4013)	info on Rv2976c/ung
Rv2585c/-	(cc=0.3965)	info on Rv2585c/-
Rv2349c/plcC	(cc=0.3906)	info on Rv2349c/plcC
Rv2879c/-	(cc=0.3767)	info on Rv2879c/-
Rv2629/-	(cc=0.3666)	info on Rv2629/-
Rv1251c/-	(cc=0.3642)	info on Rv1251c/-

Correlation of Rv2302/- with Rv2880c/-

Normalized LFCs for Rv2302/-:
(description and provenance of datasets)

	Rv2302/-	Rv2880c/-
Fe_supp_jason_reseq	0.867	-0.338
low_pH_jason_reseq	-1.405	-0.813
NO_jason_reseq	0.299	0.512
B6_jason_reseq	0.301	0.677
MHCII_jason_reseq	0.426	0.254
Isoniazid02	0.224	0.058
Rifampicin4	1.04	0.791
Ethambutol3	0.43	0.495
Meropenem3	0.77	-0.01
Vancomycin16	0.639	0.615
Rv2680_day32	-1.146	-0.55
H37Rv_KO_MarP	0.12	0.065
hypoxia_3wks	-0.323	-0.299
hypoxia_6wks	-1.044	-1.002
glycerol	-0.97	-0.101
cholesterol	0.386	-0.136
AJ	0.254	0.168
Bibs02	0.833	0.87
Bibs02c	0.08	0.915
BL6	-0.601	0.319
BL6a	0.537	0.178
BXD01	-0.292	-0.144
BXD010	0.036	0.043
BXD011	0.068	-0.47
BXD03	-0.718	0.121
BXD04	0.239	-0.023
BXD05	0.469	0.514
BXD06	0.252	-0.332
BXD07	-0.476	0.328
BXD08	0.094	0.133
BXD09	-0.439	0.187
CAST	-1.068	0.11
CCcont	-0.762	-0.302
DS01	-0.133	0.392
DS02	-0.227	0.469
DS04	-0.125	0.937
DS0c	-0.41	0.104
GP01	0.468	0.351
GP02	-1.477	-0.802
GP0c	-0.419	-0.251
NOD	0.511	-0.138
NZO	0.527	0.279
PWK	-0.166	0.418
H37Rv_KO_CtpC	-1.499	-0.062
H37Rv_KO_CtpD	-1.754	0.341
H37Rv_KO_Rv1272	-0.554	-0.253
H37Rv_KO_SugABC	-0.062	0.362
H37Rv_KO_MbtN	-0.286	-0.839
Trans05	-0.256	0.25
macrophage_unactivated	0.363	-0.17
IL1	-0.181	0.578
Rapamycin	0.531	0.16
Tcell	-0.593	-0.381
GMCSF	0.576	0.285
IFNab	-0.06	0.048
IFNg	-0.358	0.289
IFNg_GMCSF1	-0.258	0.867
Rv1432_day32	0.317	0.997
Rv1565c_day32	-0.147	0.27
secA2_input	-1.916	0.088
delta_Rv3594	-0.56	-1.169
delta_Rv3717	-0.12	-1.277
delta_Rv3811	-1.373	-1.097
delta_Rv0954	-0.585	-1.151
PonA1	-0.809	-0.733
EccD1_KO	0.885	0.115
EspI_KO	0.057	0.753
PE35_KO	0.411	0.907
PPE68_KO	0.064	0.653
glycerol2	-0.013	0.179
lignocerate	-0.208	-0.018
oleate	-0.02	0.252
phosphatidylcholine	-0.321	0.081
acetate	-0.549	-0.434
glucAc	-0.453	-0.54
Rv0950ko	-0.118	0.757
Rv1096ko	-1.674	0.072
Rv3684ko	0.616	0.0
delta_otsA_trehalose	0.082	0.753