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 Rv2320c/rocE:

update plot	correlation	link to info on gene
Rv3382c/lytB1	(cc=0.5257)	info on Rv3382c/lytB1
Rv1358/-	(cc=0.4733)	info on Rv1358/-
Rv2435c/-	(cc=0.4652)	info on Rv2435c/-
Rv0388c/PPE9	(cc=0.4547)	info on Rv0388c/PPE9
Rv0766c/cyp123	(cc=0.4438)	info on Rv0766c/cyp123
Rv1000c/-	(cc=0.4385)	info on Rv1000c/-
Rv3690/-	(cc=0.4349)	info on Rv3690/-
Rv2998/-	(cc=0.4314)	info on Rv2998/-
Rv2310/-	(cc=0.4196)	info on Rv2310/-
Rv0300/vapB2	(cc=0.4081)	info on Rv0300/vapB2

Correlation of Rv2320c/rocE with Rv1000c/-

Normalized LFCs for Rv2320c/rocE:
(description and provenance of datasets)

	Rv2320c/rocE	Rv1000c/-
Fe_supp_jason_reseq	-0.251	-1.361
low_pH_jason_reseq	-0.908	-2.546
NO_jason_reseq	-0.48	-0.197
B6_jason_reseq	-0.231	-0.576
MHCII_jason_reseq	-0.011	-0.576
Isoniazid02	0.048	-1.963
Rifampicin4	0.089	0.384
Ethambutol3	-0.04	-1.688
Meropenem3	-0.081	-1.517
Vancomycin16	0.255	-0.584
Rv2680_day32	-2.734	-1.602
H37Rv_KO_MarP	-0.1	0.138
hypoxia_3wks	0.459	0.06
hypoxia_6wks	0.263	0.566
glycerol	-0.016	0.127
cholesterol	0.185	0.507
AJ	0.486	0.45
Bibs02	-0.09	-0.091
Bibs02c	0.326	0.073
BL6	-0.159	0.353
BL6a	0.748	-0.324
BXD01	0.129	-0.594
BXD010	-0.118	0.196
BXD011	0.386	0.672
BXD03	0.172	0.287
BXD04	0.722	-0.76
BXD05	0.254	-0.145
BXD06	0.412	-0.125
BXD07	0.427	0.244
BXD08	-0.169	-0.345
BXD09	0.209	-0.379
CAST	0.711	-0.229
CCcont	-0.453	-0.888
DS01	0.368	0.542
DS02	-0.238	0.569
DS04	-0.548	0.52
DS0c	0.245	0.608
GP01	-0.589	0.172
GP02	-0.636	0.497
GP0c	-0.758	-0.196
NOD	-0.036	0.477
NZO	0.24	0.458
PWK	0.136	-0.345
H37Rv_KO_CtpC	0.088	0.211
H37Rv_KO_CtpD	0.745	0.678
H37Rv_KO_Rv1272	-0.521	-0.644
H37Rv_KO_SugABC	0.956	1.463
H37Rv_KO_MbtN	-0.095	0.647
Trans05	0.176	-0.157
macrophage_unactivated	0.211	-0.199
IL1	0.086	0.789
Rapamycin	0.058	0.657
Tcell	0.094	0.235
GMCSF	0.227	1.751
IFNab	0.342	0.323
IFNg	0.446	1.475
IFNg_GMCSF1	-0.031	1.335
Rv1432_day32	1.351	1.551
Rv1565c_day32	0.734	0.607
secA2_input	-1.338	-1.032
delta_Rv3594	0.324	-0.413
delta_Rv3717	-0.54	-0.417
delta_Rv3811	-0.37	-0.587
delta_Rv0954	-0.389	-0.115
PonA1	-0.388	-0.262
EccD1_KO	0.191	1.447
EspI_KO	-0.448	1.805
PE35_KO	0.753	0.732
PPE68_KO	0.278	1.113
glycerol2	-0.621	-0.147
lignocerate	-0.33	-0.136
oleate	-0.35	0.405
phosphatidylcholine	-0.328	0.21
acetate	-0.389	-0.82
glucAc	-0.762	-0.624
Rv0950ko	0.229	0.22
Rv1096ko	0.401	0.715
Rv3684ko	0.793	-0.639
delta_otsA_trehalose	0.031	-0.104