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 Rv1155/-:

update plot	correlation	link to info on gene
Rv0435c/-	(cc=0.4411)	info on Rv0435c/-
Rv3649/-	(cc=0.4171)	info on Rv3649/-
Rv1251c/-	(cc=0.4156)	info on Rv1251c/-
Rv0333/-	(cc=0.3964)	info on Rv0333/-
Rv3700c/-	(cc=0.3835)	info on Rv3700c/-
Rv2326c/-	(cc=0.3808)	info on Rv2326c/-
Rv2585c/-	(cc=0.3741)	info on Rv2585c/-
Rv1031/kdpC	(cc=0.354)	info on Rv1031/kdpC
Rv0063/-	(cc=0.3532)	info on Rv0063/-
Rv0532/PE_PGRS6	(cc=0.3515)	info on Rv0532/PE_PGRS6

Correlation of Rv1155/- with Rv0063/-

Normalized LFCs for Rv1155/-:
(description and provenance of datasets)

	Rv1155/-	Rv0063/-
Fe_supp_jason_reseq	-0.442	-0.568
low_pH_jason_reseq	-0.524	-0.172
NO_jason_reseq	-0.074	-0.026
B6_jason_reseq	0.665	0.872
MHCII_jason_reseq	0.712	0.139
Isoniazid02	0.263	-0.228
Rifampicin4	0.057	0.0
Ethambutol3	0.863	-0.134
Meropenem3	0.93	0.037
Vancomycin16	0.592	0.218
Rv2680_day32	-0.708	-0.874
H37Rv_KO_MarP	0.042	0.775
hypoxia_3wks	0.128	-0.805
hypoxia_6wks	-0.15	-0.24
glycerol	-0.294	1.176
cholesterol	0.302	2.914
AJ	0.124	0.788
Bibs02	0.666	-0.029
Bibs02c	0.582	0.587
BL6	0.348	0.621
BL6a	0.291	0.43
BXD01	-0.28	-0.098
BXD010	-0.077	0.261
BXD011	0.064	0.587
BXD03	-0.261	0.756
BXD04	0.295	0.354
BXD05	-0.259	0.599
BXD06	0.473	0.043
BXD07	0.079	0.148
BXD08	0.591	0.011
BXD09	0.347	-0.046
CAST	0.257	0.516
CCcont	-0.229	0.07
DS01	-0.284	1.136
DS02	0.039	0.726
DS04	1.583	1.318
DS0c	0.039	0.662
GP01	-0.756	0.201
GP02	-0.04	-0.748
GP0c	0.019	-0.251
NOD	0.854	1.36
NZO	0.325	0.446
PWK	0.25	0.924
H37Rv_KO_CtpC	-0.357	0.0
H37Rv_KO_CtpD	-0.392	-0.283
H37Rv_KO_Rv1272	-1.145	-0.233
H37Rv_KO_SugABC	0.734	0.942
H37Rv_KO_MbtN	0.228	0.276
Trans05	0.028	-0.548
macrophage_unactivated	0.376	-0.363
IL1	-0.05	-0.053
Rapamycin	-0.313	-0.835
Tcell	-0.081	-0.606
GMCSF	0.372	0.166
IFNab	0.218	0.0
IFNg	0.377	-0.048
IFNg_GMCSF1	0.572	-0.088
Rv1432_day32	0.16	-0.089
Rv1565c_day32	0.43	0.351
secA2_input	-0.504	0.095
delta_Rv3594	-0.024	-0.159
delta_Rv3717	-0.32	-0.458
delta_Rv3811	0.556	-0.607
delta_Rv0954	0.079	0.522
PonA1	-0.15	0.658
EccD1_KO	0.217	-0.178
EspI_KO	0.143	-0.317
PE35_KO	0.216	0.271
PPE68_KO	0.109	0.266
glycerol2	0.129	0.048
lignocerate	-0.413	0.664
oleate	-1.049	-1.212
phosphatidylcholine	-0.585	-0.253
acetate	0.705	0.484
glucAc	0.7	0.575
Rv0950ko	0.262	0.425
Rv1096ko	0.745	0.392
Rv3684ko	-0.599	0.747
delta_otsA_trehalose	-1.441	-0.535