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 Rv0267/narU:

update plot	correlation	link to info on gene
Rv3765c/tcrX	(cc=0.5266)	info on Rv3765c/tcrX
Rv2882c/frr	(cc=0.4895)	info on Rv2882c/frr
Rv0166/fadD5	(cc=0.4889)	info on Rv0166/fadD5
Rv1425/-	(cc=0.4882)	info on Rv1425/-
Rv0701/rplC	(cc=0.4771)	info on Rv0701/rplC
Rv1813c/-	(cc=0.4758)	info on Rv1813c/-
Rv3673c/-	(cc=0.4732)	info on Rv3673c/-
Rv3858c/gltD	(cc=0.4535)	info on Rv3858c/gltD
Rv2678c/hemE	(cc=0.4508)	info on Rv2678c/hemE
Rv0434/-	(cc=0.4457)	info on Rv0434/-

Correlation of Rv0267/narU with Rv0434/-

Normalized LFCs for Rv0267/narU:
(description and provenance of datasets)

	Rv0267/narU	Rv0434/-
Fe_supp_jason_reseq	0.129	-0.148
low_pH_jason_reseq	0.0	-0.336
NO_jason_reseq	0.176	-0.068
B6_jason_reseq	-0.212	0.033
MHCII_jason_reseq	-0.112	-0.432
Isoniazid02	0.842	-0.311
Rifampicin4	0.282	0.116
Ethambutol3	0.531	-0.285
Meropenem3	1.015	0.942
Vancomycin16	0.061	0.09
Rv2680_day32	0.264	-0.59
H37Rv_KO_MarP	0.779	0.739
hypoxia_3wks	-0.024	0.207
hypoxia_6wks	0.115	0.768
glycerol	0.222	-0.442
cholesterol	0.229	-0.101
AJ	0.64	0.403
Bibs02	-0.013	0.205
Bibs02c	-0.318	0.182
BL6	0.393	0.833
BL6a	0.063	0.158
BXD01	-0.373	-0.467
BXD010	0.019	0.531
BXD011	-0.005	0.613
BXD03	-0.02	-0.322
BXD04	0.018	0.658
BXD05	0.039	0.346
BXD06	0.029	0.106
BXD07	0.152	0.022
BXD08	-0.111	-0.593
BXD09	0.113	-0.068
CAST	0.269	0.737
CCcont	-0.055	-0.168
DS01	0.026	-0.382
DS02	0.296	0.083
DS04	0.103	0.541
DS0c	0.259	-0.151
GP01	0.749	0.622
GP02	1.154	0.449
GP0c	-0.429	-0.297
NOD	-0.143	0.26
NZO	0.419	0.507
PWK	-0.242	-0.136
H37Rv_KO_CtpC	0.205	-0.233
H37Rv_KO_CtpD	0.474	0.545
H37Rv_KO_Rv1272	0.655	0.472
H37Rv_KO_SugABC	0.24	-1.747
H37Rv_KO_MbtN	-1.302	-1.734
Trans05	0.669	0.569
macrophage_unactivated	-0.054	-0.088
IL1	0.027	0.392
Rapamycin	-0.175	0.718
Tcell	-0.349	-0.169
GMCSF	-0.269	-0.251
IFNab	0.127	0.082
IFNg	-0.104	0.353
IFNg_GMCSF1	-0.364	-0.148
Rv1432_day32	0.701	-0.286
Rv1565c_day32	0.212	-0.589
secA2_input	0.208	-0.466
delta_Rv3594	0.098	-0.024
delta_Rv3717	-0.497	0.14
delta_Rv3811	-0.196	0.518
delta_Rv0954	0.116	0.088
PonA1	0.418	-0.27
EccD1_KO	-0.556	0.388
EspI_KO	-1.232	-1.172
PE35_KO	-0.776	-0.548
PPE68_KO	-1.273	-0.774
glycerol2	0.263	0.062
lignocerate	0.01	0.471
oleate	1.021	0.155
phosphatidylcholine	0.364	0.321
acetate	0.432	-0.155
glucAc	-0.187	-0.182
Rv0950ko	0.636	-0.356
Rv1096ko	0.296	0.748
Rv3684ko	-0.409	0.092
delta_otsA_trehalose	-0.139	-0.155