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 Rv0021c/-:

update plot	correlation	link to info on gene
Rv3762c/-	(cc=0.5238)	info on Rv3762c/-
Rv0478/deoC	(cc=0.5064)	info on Rv0478/deoC
Rv1604/impA	(cc=0.4979)	info on Rv1604/impA
Rv1207/folP2	(cc=0.4929)	info on Rv1207/folP2
Rv3174/-	(cc=0.4526)	info on Rv3174/-
Rv3151/nuoG	(cc=0.4481)	info on Rv3151/nuoG
Rv1579c/-	(cc=0.4439)	info on Rv1579c/-
Rv3523/ltp3	(cc=0.4369)	info on Rv3523/ltp3
Rv3409c/choD	(cc=0.4352)	info on Rv3409c/choD
Rv3566A/-	(cc=0.4301)	info on Rv3566A/-

Correlation of Rv0021c/- with Rv1579c/-

Normalized LFCs for Rv0021c/-:
(description and provenance of datasets)

	Rv0021c/-	Rv1579c/-
Fe_supp_jason_reseq	-0.324	0.379
low_pH_jason_reseq	-0.072	-0.023
NO_jason_reseq	-0.131	0.475
B6_jason_reseq	-0.04	-0.016
MHCII_jason_reseq	0.061	0.814
Isoniazid02	1.467	3.529
Rifampicin4	0.447	0.517
Ethambutol3	1.045	3.803
Meropenem3	1.29	0.34
Vancomycin16	0.456	0.753
Rv2680_day32	0.103	-0.554
H37Rv_KO_MarP	0.315	-0.825
hypoxia_3wks	0.275	0.048
hypoxia_6wks	0.71	-0.735
glycerol	0.674	0.206
cholesterol	1.363	0.614
AJ	0.306	-1.874
Bibs02	0.506	-2.099
Bibs02c	0.681	0.136
BL6	0.823	-0.841
BL6a	0.679	0.273
BXD01	0.92	0.994
BXD010	0.587	0.423
BXD011	0.37	-0.619
BXD03	0.584	0.105
BXD04	1.742	1.109
BXD05	0.876	-0.466
BXD06	0.55	1.219
BXD07	0.676	1.17
BXD08	0.9	-0.275
BXD09	0.691	0.911
CAST	-0.082	-0.295
CCcont	0.592	0.736
DS01	0.601	0.958
DS02	0.947	0.142
DS04	0.022	-0.672
DS0c	0.354	1.497
GP01	-0.219	-1.849
GP02	0.071	-1.275
GP0c	0.467	-2.791
NOD	-0.386	-1.751
NZO	-0.171	0.104
PWK	-0.07	-0.539
H37Rv_KO_CtpC	-0.181	-1.051
H37Rv_KO_CtpD	1.0	-0.143
H37Rv_KO_Rv1272	0.12	-1.139
H37Rv_KO_SugABC	0.817	1.045
H37Rv_KO_MbtN	-0.568	-1.104
Trans05	0.847	-0.228
macrophage_unactivated	0.161	0.391
IL1	0.113	0.611
Rapamycin	0.249	-1.924
Tcell	0.365	-0.893
GMCSF	0.539	-0.074
IFNab	0.39	-1.001
IFNg	0.086	0.802
IFNg_GMCSF1	0.481	0.0
Rv1432_day32	0.516	0.18
Rv1565c_day32	-0.239	0.166
secA2_input	0.297	-0.131
delta_Rv3594	-0.587	-0.014
delta_Rv3717	-0.024	-1.402
delta_Rv3811	-0.116	-0.503
delta_Rv0954	0.296	-0.084
PonA1	0.029	-1.558
EccD1_KO	-0.161	-1.168
EspI_KO	-0.776	-1.743
PE35_KO	-0.77	-0.709
PPE68_KO	-0.685	-1.014
glycerol2	0.712	0.039
lignocerate	0.528	-0.587
oleate	0.615	0.318
phosphatidylcholine	0.445	0.09
acetate	0.309	0.612
glucAc	0.39	-0.653
Rv0950ko	0.642	-1.233
Rv1096ko	0.163	-0.657
Rv3684ko	0.982	-1.464
delta_otsA_trehalose	0.199	-0.323