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 Rv2044c/-:

update plot	correlation	link to info on gene
Rv1522c/mmpL12	(cc=0.5196)	info on Rv1522c/mmpL12
Rv1990A/-	(cc=0.4923)	info on Rv1990A/-
Rv0028/-	(cc=0.4763)	info on Rv0028/-
Rv1928c/-	(cc=0.4641)	info on Rv1928c/-
Rv1875/-	(cc=0.4638)	info on Rv1875/-
Rv0939/-	(cc=0.4583)	info on Rv0939/-
Rv0476/-	(cc=0.4479)	info on Rv0476/-
Rv0973c/accA2	(cc=0.447)	info on Rv0973c/accA2
Rv0916c/PE7	(cc=0.442)	info on Rv0916c/PE7
Rv1130/prpD	(cc=0.4411)	info on Rv1130/prpD

Correlation of Rv2044c/- with Rv1990A/-

Normalized LFCs for Rv2044c/-:
(description and provenance of datasets)

	Rv2044c/-	Rv1990A/-
Fe_supp_jason_reseq	-0.147	0.0
low_pH_jason_reseq	-0.069	-0.664
NO_jason_reseq	0.129	0.189
B6_jason_reseq	-1.201	-1.972
MHCII_jason_reseq	-0.938	-1.757
Isoniazid02	-0.017	3.843
Rifampicin4	0.477	0.344
Ethambutol3	-0.261	0.426
Meropenem3	0.559	-0.214
Vancomycin16	0.414	0.109
Rv2680_day32	0.368	-2.044
H37Rv_KO_MarP	0.507	0.234
hypoxia_3wks	0.805	0.156
hypoxia_6wks	0.507	-0.013
glycerol	-1.391	-0.524
cholesterol	-1.771	-1.205
AJ	-1.025	-0.718
Bibs02	-2.035	-3.247
Bibs02c	-0.812	-1.288
BL6	0.394	0.304
BL6a	0.11	0.522
BXD01	0.561	1.7
BXD010	1.129	1.82
BXD011	0.631	0.735
BXD03	0.448	0.678
BXD04	0.018	0.62
BXD05	0.805	1.24
BXD06	0.569	0.582
BXD07	0.932	1.093
BXD08	0.44	0.602
BXD09	0.734	0.977
CAST	0.48	-0.415
CCcont	0.6	0.528
DS01	0.051	0.202
DS02	-1.188	-0.729
DS04	-1.448	-1.876
DS0c	0.251	0.198
GP01	-0.551	-0.48
GP02	0.431	1.816
GP0c	-0.17	0.506
NOD	2.28	1.196
NZO	-0.029	-1.37
PWK	-0.911	-0.728
H37Rv_KO_CtpC	1.245	1.267
H37Rv_KO_CtpD	1.427	-0.307
H37Rv_KO_Rv1272	0.208	0.905
H37Rv_KO_SugABC	0.547	1.82
H37Rv_KO_MbtN	0.52	-0.511
Trans05	0.168	1.228
macrophage_unactivated	0.688	1.701
IL1	-0.172	0.383
Rapamycin	0.531	0.491
Tcell	0.124	0.16
GMCSF	0.589	-0.417
IFNab	0.641	0.076
IFNg	0.553	0.053
IFNg_GMCSF1	-0.141	-0.242
Rv1432_day32	3.684	0.18
Rv1565c_day32	0.25	0.0
secA2_input	-1.127	1.014
delta_Rv3594	0.881	0.333
delta_Rv3717	0.253	0.313
delta_Rv3811	0.62	0.744
delta_Rv0954	0.895	-0.37
PonA1	-0.33	-0.247
EccD1_KO	-0.789	-0.312
EspI_KO	-0.177	-0.111
PE35_KO	0.158	0.545
PPE68_KO	0.438	-0.797
glycerol2	0.513	0.722
lignocerate	0.256	0.781
oleate	0.586	0.98
phosphatidylcholine	0.382	0.79
acetate	-0.407	0.617
glucAc	0.217	0.333
Rv0950ko	0.531	-0.054
Rv1096ko	0.739	0.573
Rv3684ko	-0.121	-0.16
delta_otsA_trehalose	0.901	0.07