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 Rv1251c/-

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

	Rv1155/-	Rv1251c/-
Fe_supp_jason_reseq	-0.442	-0.343
low_pH_jason_reseq	-0.524	0.435
NO_jason_reseq	-0.074	0.572
B6_jason_reseq	0.665	0.611
MHCII_jason_reseq	0.712	1.169
Isoniazid02	0.263	0.469
Rifampicin4	0.057	0.184
Ethambutol3	0.863	0.635
Meropenem3	0.93	1.521
Vancomycin16	0.592	-0.125
Rv2680_day32	-0.708	-0.822
H37Rv_KO_MarP	0.042	0.251
hypoxia_3wks	0.128	-0.116
hypoxia_6wks	-0.15	0.029
glycerol	-0.294	0.418
cholesterol	0.302	0.343
AJ	0.124	0.41
Bibs02	0.666	0.433
Bibs02c	0.582	0.541
BL6	0.348	0.171
BL6a	0.291	0.271
BXD01	-0.28	0.0
BXD010	-0.077	-0.378
BXD011	0.064	-0.257
BXD03	-0.261	-0.592
BXD04	0.295	0.0
BXD05	-0.259	0.036
BXD06	0.473	-0.494
BXD07	0.079	-0.326
BXD08	0.591	-0.037
BXD09	0.347	-0.414
CAST	0.257	0.143
CCcont	-0.229	-0.173
DS01	-0.284	0.66
DS02	0.039	0.594
DS04	1.583	0.762
DS0c	0.039	0.561
GP01	-0.756	-0.221
GP02	-0.04	-0.889
GP0c	0.019	-0.464
NOD	0.854	0.159
NZO	0.325	0.399
PWK	0.25	0.392
H37Rv_KO_CtpC	-0.357	-0.076
H37Rv_KO_CtpD	-0.392	-0.608
H37Rv_KO_Rv1272	-1.145	-0.135
H37Rv_KO_SugABC	0.734	0.592
H37Rv_KO_MbtN	0.228	0.174
Trans05	0.028	0.0
macrophage_unactivated	0.376	-0.309
IL1	-0.05	-0.193
Rapamycin	-0.313	-0.049
Tcell	-0.081	-0.052
GMCSF	0.372	0.203
IFNab	0.218	-0.508
IFNg	0.377	-0.043
IFNg_GMCSF1	0.572	-0.258
Rv1432_day32	0.16	0.0
Rv1565c_day32	0.43	0.635
secA2_input	-0.504	-0.348
delta_Rv3594	-0.024	0.162
delta_Rv3717	-0.32	0.277
delta_Rv3811	0.556	0.106
delta_Rv0954	0.079	-0.147
PonA1	-0.15	-0.178
EccD1_KO	0.217	0.97
EspI_KO	0.143	0.633
PE35_KO	0.216	0.368
PPE68_KO	0.109	0.653
glycerol2	0.129	-0.126
lignocerate	-0.413	0.213
oleate	-1.049	-0.264
phosphatidylcholine	-0.585	0.167
acetate	0.705	0.02
glucAc	0.7	0.012
Rv0950ko	0.262	-0.772
Rv1096ko	0.745	0.0
Rv3684ko	-0.599	-0.432
delta_otsA_trehalose	-1.441	-0.232