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 Rv0507/mmpL2:

update plot	correlation	link to info on gene
Rv0059/-	(cc=0.5581)	info on Rv0059/-
Rv1917c/PPE34	(cc=0.5506)	info on Rv1917c/PPE34
Rv3429/PPE59	(cc=0.4979)	info on Rv3429/PPE59
Rv3879c/espK	(cc=0.4936)	info on Rv3879c/espK
Rv2777c/-	(cc=0.4909)	info on Rv2777c/-
Rv2948c/fadD22	(cc=0.4643)	info on Rv2948c/fadD22
Rv1362c/-	(cc=0.4643)	info on Rv1362c/-
Rv2513/-	(cc=0.4594)	info on Rv2513/-
Rv1926c/mpt63	(cc=0.4568)	info on Rv1926c/mpt63
Rv0755A/-	(cc=0.4542)	info on Rv0755A/-

Correlation of Rv0507/mmpL2 with Rv2513/-

Normalized LFCs for Rv0507/mmpL2:
(description and provenance of datasets)

	Rv0507/mmpL2	Rv2513/-
Fe_supp_jason_reseq	0.731	0.892
low_pH_jason_reseq	-0.463	-0.706
NO_jason_reseq	-0.347	0.053
B6_jason_reseq	0.217	-0.368
MHCII_jason_reseq	0.273	-0.534
Isoniazid02	-0.223	-0.649
Rifampicin4	0.192	-0.379
Ethambutol3	1.468	0.904
Meropenem3	0.379	-0.673
Vancomycin16	0.027	-0.634
Rv2680_day32	0.33	-0.348
H37Rv_KO_MarP	0.178	-0.065
hypoxia_3wks	0.662	-0.339
hypoxia_6wks	0.474	-1.234
glycerol	-0.437	0.297
cholesterol	0.779	-0.325
AJ	0.045	0.36
Bibs02	0.343	0.894
Bibs02c	0.1	0.831
BL6	0.415	0.997
BL6a	0.354	1.382
BXD01	0.685	0.011
BXD010	0.186	1.456
BXD011	0.592	0.756
BXD03	0.339	0.309
BXD04	0.512	0.995
BXD05	0.295	1.78
BXD06	0.365	0.731
BXD07	0.449	0.758
BXD08	0.451	0.512
BXD09	0.24	0.909
CAST	0.022	0.697
CCcont	0.441	0.663
DS01	0.282	0.505
DS02	0.241	0.586
DS04	0.299	0.469
DS0c	0.407	-0.137
GP01	0.576	0.815
GP02	0.392	-0.64
GP0c	0.375	0.151
NOD	0.19	-0.08
NZO	-0.02	0.152
PWK	0.335	-0.618
H37Rv_KO_CtpC	0.515	1.615
H37Rv_KO_CtpD	0.643	1.819
H37Rv_KO_Rv1272	0.839	0.958
H37Rv_KO_SugABC	0.594	1.265
H37Rv_KO_MbtN	0.852	0.228
Trans05	0.557	0.876
macrophage_unactivated	0.467	-0.076
IL1	0.243	-1.786
Rapamycin	-0.387	-0.74
Tcell	0.45	1.593
GMCSF	0.42	-0.607
IFNab	-0.381	-1.27
IFNg	-0.032	-0.631
IFNg_GMCSF1	-0.075	-0.214
Rv1432_day32	-0.198	0.422
Rv1565c_day32	0.145	-0.22
secA2_input	0.099	0.092
delta_Rv3594	0.203	-0.194
delta_Rv3717	-0.227	-0.722
delta_Rv3811	0.129	-0.201
delta_Rv0954	0.039	0.323
PonA1	-0.461	-0.93
EccD1_KO	-0.566	-1.052
EspI_KO	0.12	-0.02
PE35_KO	-0.391	0.123
PPE68_KO	-0.429	-0.509
glycerol2	0.553	-0.049
lignocerate	0.798	0.396
oleate	0.516	-0.235
phosphatidylcholine	0.807	-0.024
acetate	0.293	0.697
glucAc	0.31	1.043
Rv0950ko	0.479	-0.308
Rv1096ko	-0.57	-1.71
Rv3684ko	-0.187	0.331
delta_otsA_trehalose	1.005	0.972