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 Rv0585c/-:

update plot	correlation	link to info on gene
Rv0992c/-	(cc=0.535)	info on Rv0992c/-
Rv0578c/PE_PGRS7	(cc=0.4363)	info on Rv0578c/PE_PGRS7
Rv0039c/-	(cc=0.4173)	info on Rv0039c/-
Rv2012/-	(cc=0.4104)	info on Rv2012/-
Rv0435c/-	(cc=0.4043)	info on Rv0435c/-
Rv2495c/bkdC	(cc=0.3948)	info on Rv2495c/bkdC
Rv0409/ackA	(cc=0.3946)	info on Rv0409/ackA
Rv0418/lpqL	(cc=0.3904)	info on Rv0418/lpqL
Rv2963/-	(cc=0.3903)	info on Rv2963/-
Rv0376c/-	(cc=0.379)	info on Rv0376c/-

Correlation of Rv0585c/- with Rv0409/ackA

Normalized LFCs for Rv0585c/-:
(description and provenance of datasets)

	Rv0585c/-	Rv0409/ackA
Fe_supp_jason_reseq	-0.751	0.868
low_pH_jason_reseq	-0.564	0.136
NO_jason_reseq	0.268	0.315
B6_jason_reseq	-0.6	-0.581
MHCII_jason_reseq	0.361	-0.541
Isoniazid02	0.242	0.112
Rifampicin4	0.187	0.0
Ethambutol3	-0.044	2.079
Meropenem3	1.24	3.648
Vancomycin16	0.183	0.395
Rv2680_day32	-0.345	0.362
H37Rv_KO_MarP	0.501	0.024
hypoxia_3wks	0.307	0.152
hypoxia_6wks	0.033	-0.827
glycerol	0.157	0.028
cholesterol	0.431	0.43
AJ	0.461	-0.919
Bibs02	0.576	1.699
Bibs02c	0.117	-0.411
BL6	0.496	0.507
BL6a	0.43	-0.199
BXD01	-0.338	0.053
BXD010	0.179	0.589
BXD011	-0.03	0.704
BXD03	0.216	-0.157
BXD04	-0.073	-0.541
BXD05	0.524	0.909
BXD06	0.045	0.156
BXD07	0.207	-0.391
BXD08	0.045	0.514
BXD09	0.196	-0.502
CAST	0.128	-0.736
CCcont	-0.366	0.04
DS01	0.936	0.821
DS02	0.775	0.484
DS04	0.252	0.343
DS0c	0.79	1.702
GP01	0.0	-0.496
GP02	-0.612	-1.302
GP0c	0.194	0.152
NOD	-0.216	-1.178
NZO	-0.094	-0.6
PWK	0.48	-0.082
H37Rv_KO_CtpC	0.16	0.149
H37Rv_KO_CtpD	0.722	1.112
H37Rv_KO_Rv1272	1.153	-0.253
H37Rv_KO_SugABC	-0.272	-1.071
H37Rv_KO_MbtN	0.567	0.446
Trans05	0.344	0.319
macrophage_unactivated	-0.076	-0.486
IL1	0.368	0.16
Rapamycin	0.175	0.218
Tcell	-0.567	-0.437
GMCSF	-0.095	-1.048
IFNab	-0.181	-0.59
IFNg	0.094	-0.305
IFNg_GMCSF1	0.39	-1.1
Rv1432_day32	0.456	-0.654
Rv1565c_day32	0.6	0.389
secA2_input	0.277	-0.205
delta_Rv3594	-0.289	0.0
delta_Rv3717	0.424	-0.047
delta_Rv3811	0.18	-0.354
delta_Rv0954	0.382	-0.121
PonA1	0.779	0.611
EccD1_KO	0.0	-0.276
EspI_KO	0.502	-1.007
PE35_KO	-0.254	-0.461
PPE68_KO	0.0	-0.045
glycerol2	-0.446	0.13
lignocerate	-0.021	-0.213
oleate	-0.51	-0.227
phosphatidylcholine	-0.146	0.202
acetate	-0.392	-0.451
glucAc	0.627	-0.693
Rv0950ko	-0.063	-0.13
Rv1096ko	1.526	0.368
Rv3684ko	0.639	-0.141
delta_otsA_trehalose	-0.222	-0.965