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 Rv1604/impA

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

	Rv0572c/-	Rv1604/impA
Fe_supp_jason_reseq	-0.704	-1.397
low_pH_jason_reseq	-0.642	-0.607
NO_jason_reseq	-0.113	-0.953
B6_jason_reseq	-0.323	-0.616
MHCII_jason_reseq	-0.164	-1.057
Isoniazid02	-0.442	0.134
Rifampicin4	0.195	0.482
Ethambutol3	0.112	0.191
Meropenem3	-0.071	0.31
Vancomycin16	0.082	0.183
Rv2680_day32	-0.024	-1.187
H37Rv_KO_MarP	-0.349	-0.351
hypoxia_3wks	0.02	0.439
hypoxia_6wks	0.52	0.0
glycerol	0.786	0.275
cholesterol	0.303	1.006
AJ	-0.501	0.193
Bibs02	1.257	-0.697
Bibs02c	0.668	0.965
BL6	0.552	1.53
BL6a	0.402	1.092
BXD01	-0.145	1.839
BXD010	0.242	1.381
BXD011	0.82	1.175
BXD03	0.888	1.037
BXD04	0.015	1.619
BXD05	0.184	1.795
BXD06	0.319	1.149
BXD07	0.434	1.463
BXD08	0.233	1.697
BXD09	0.017	1.227
CAST	0.047	0.537
CCcont	0.799	1.743
DS01	-0.284	-0.216
DS02	-0.08	-0.34
DS04	0.055	-1.405
DS0c	-0.036	-0.129
GP01	0.362	-0.508
GP02	2.156	0.871
GP0c	0.117	0.209
NOD	0.063	0.065
NZO	0.032	1.357
PWK	0.047	-0.374
H37Rv_KO_CtpC	1.011	1.611
H37Rv_KO_CtpD	0.638	1.152
H37Rv_KO_Rv1272	0.674	-0.174
H37Rv_KO_SugABC	0.184	1.77
H37Rv_KO_MbtN	-0.143	-0.437
Trans05	0.783	0.449
macrophage_unactivated	0.338	-0.051
IL1	-0.255	-0.098
Rapamycin	-0.071	-1.062
Tcell	-0.046	-0.27
GMCSF	-0.074	-0.652
IFNab	-0.348	0.42
IFNg	-0.216	-0.711
IFNg_GMCSF1	-0.27	-0.657
Rv1432_day32	-0.229	0.681
Rv1565c_day32	0.662	0.381
secA2_input	0.008	-0.146
delta_Rv3594	-0.184	-0.707
delta_Rv3717	-0.034	-1.091
delta_Rv3811	0.039	0.134
delta_Rv0954	-0.421	-0.963
PonA1	-0.517	-0.261
EccD1_KO	-0.056	-0.523
EspI_KO	0.482	-0.453
PE35_KO	-0.23	-0.178
PPE68_KO	-0.237	-0.618
glycerol2	0.902	0.614
lignocerate	1.179	1.294
oleate	0.103	0.621
phosphatidylcholine	0.852	1.053
acetate	0.071	1.285
glucAc	0.395	1.143
Rv0950ko	0.063	1.414
Rv1096ko	0.763	1.08
Rv3684ko	0.331	0.35
delta_otsA_trehalose	2.429	1.383