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 Rv0572c/-:

update plot	correlation	link to info on gene
Rv0443/-	(cc=0.5626)	info on Rv0443/-
Rv3742c/-	(cc=0.5123)	info on Rv3742c/-
Rv2777c/-	(cc=0.5088)	info on Rv2777c/-
Rv2689c/-	(cc=0.5066)	info on Rv2689c/-
Rv3555c/-	(cc=0.4841)	info on Rv3555c/-
Rv1087/PE_PGRS21	(cc=0.4734)	info on Rv1087/PE_PGRS21
Rv3738c/PPE66	(cc=0.4718)	info on Rv3738c/PPE66
Rv1604/impA	(cc=0.4639)	info on Rv1604/impA
Rv3287c/rsbW	(cc=0.4552)	info on Rv3287c/rsbW
Rv2892c/PPE45	(cc=0.4528)	info on Rv2892c/PPE45

Correlation of Rv0572c/- with Rv3742c/-

Normalized LFCs for Rv0572c/-:
(description and provenance of datasets)

	Rv0572c/-	Rv3742c/-
Fe_supp_jason_reseq	-0.704	0.702
low_pH_jason_reseq	-0.642	-0.606
NO_jason_reseq	-0.113	-0.879
B6_jason_reseq	-0.323	0.213
MHCII_jason_reseq	-0.164	-0.14
Isoniazid02	-0.442	-2.023
Rifampicin4	0.195	-0.414
Ethambutol3	0.112	-0.238
Meropenem3	-0.071	-0.773
Vancomycin16	0.082	-1.061
Rv2680_day32	-0.024	-0.87
H37Rv_KO_MarP	-0.349	0.188
hypoxia_3wks	0.02	0.128
hypoxia_6wks	0.52	-0.484
glycerol	0.786	-0.74
cholesterol	0.303	0.085
AJ	-0.501	-0.526
Bibs02	1.257	-0.158
Bibs02c	0.668	-0.385
BL6	0.552	0.53
BL6a	0.402	0.436
BXD01	-0.145	-0.144
BXD010	0.242	0.911
BXD011	0.82	0.708
BXD03	0.888	0.651
BXD04	0.015	-0.073
BXD05	0.184	0.482
BXD06	0.319	0.307
BXD07	0.434	0.467
BXD08	0.233	0.644
BXD09	0.017	0.295
CAST	0.047	0.115
CCcont	0.799	0.242
DS01	-0.284	0.051
DS02	-0.08	0.262
DS04	0.055	1.092
DS0c	-0.036	-0.049
GP01	0.362	1.204
GP02	2.156	0.907
GP0c	0.117	0.655
NOD	0.063	-1.025
NZO	0.032	-0.66
PWK	0.047	-0.051
H37Rv_KO_CtpC	1.011	1.132
H37Rv_KO_CtpD	0.638	1.341
H37Rv_KO_Rv1272	0.674	1.592
H37Rv_KO_SugABC	0.184	1.254
H37Rv_KO_MbtN	-0.143	0.419
Trans05	0.783	0.72
macrophage_unactivated	0.338	-0.085
IL1	-0.255	-0.113
Rapamycin	-0.071	-0.021
Tcell	-0.046	-0.283
GMCSF	-0.074	-0.269
IFNab	-0.348	-0.021
IFNg	-0.216	-0.331
IFNg_GMCSF1	-0.27	0.955
Rv1432_day32	-0.229	-0.386
Rv1565c_day32	0.662	0.738
secA2_input	0.008	-0.193
delta_Rv3594	-0.184	-0.463
delta_Rv3717	-0.034	0.141
delta_Rv3811	0.039	0.019
delta_Rv0954	-0.421	0.72
PonA1	-0.517	0.904
EccD1_KO	-0.056	-0.457
EspI_KO	0.482	-0.405
PE35_KO	-0.23	-0.3
PPE68_KO	-0.237	-0.454
glycerol2	0.902	0.397
lignocerate	1.179	0.55
oleate	0.103	0.052
phosphatidylcholine	0.852	0.331
acetate	0.071	0.052
glucAc	0.395	0.26
Rv0950ko	0.063	0.742
Rv1096ko	0.763	0.6
Rv3684ko	0.331	0.586
delta_otsA_trehalose	2.429	3.512